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Opened 3 months ago
Closed 3 months ago
#18304 closed defect (duplicate)
mshMIGPerform crash
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Platform | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-15.5-arm64-arm-64bit
ChimeraX Version: 1.10.dev202502120650 (2025-02-12 06:50:33 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x000000035f343000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 324 in wait
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 622 in wait
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1392 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031b80f000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031a803000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003197f7000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 930 in wait
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003187eb000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003177df000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003167d3000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003157c7000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003147bb000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003137af000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003127a3000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000311797000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031078b000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000030f77f000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Current thread 0x000000020c7e9f00 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 339 in event_loop
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, psutil._psutil_osx, psutil._psutil_posix, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, chimerax.pdb_lib._load_libs, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, chimerax.graphics._graphics, chimerax.atomic._ribbons, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.pdb._pdbio, lxml._elementpath, lxml.etree, PIL._imagingmath (total: 59)
{"app_name":"ChimeraX","timestamp":"2025-07-29 14:47:42.00 +0800","app_version":"1.10.0","slice_uuid":"18de835b-eddc-3f3a-93bb-285f33da630d","build_version":"1.10.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 15.5 (24F74)","roots_installed":0,"name":"ChimeraX","incident_id":"E6E6237F-FE29-4649-9AEB-E95899021E2C"}
{
"uptime" : 140000,
"procRole" : "Foreground",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "Mac16,1",
"coalitionID" : 15645,
"osVersion" : {
"train" : "macOS 15.5",
"build" : "24F74",
"releaseType" : "User"
},
"captureTime" : "2025-07-29 14:47:39.2364 +0800",
"codeSigningMonitor" : 2,
"incident" : "E6E6237F-FE29-4649-9AEB-E95899021E2C",
"pid" : 18553,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2025-07-29 14:45:25.7125 +0800",
"procStartAbsTime" : 3472355393853,
"procExitAbsTime" : 3475557766175,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.10.0","CFBundleVersion":"1.10.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"916D8863-8152-5E16-9879-92404A6F37C6","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "44E76833-17ED-FF4D-B2D8-E9FF3DF43E6D",
"appleIntelligenceStatus" : {"state":"unavailable","reasons":["countryLocationIneligible","regionIneligible","countryBillingIneligible"]},
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"codeSigningAuxiliaryInfo" : 0,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRm+D\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkZDg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"bootSessionUUID" : "5DFAFF62-E9E8-4458-919B-EC67ED9CB5F2",
"wakeTime" : 1687,
"sleepWakeUUID" : "3E164384-FE36-4EB2-8190-7F8A3786F2FC",
"sip" : "enabled",
"vmRegionInfo" : "0x1e is not in any region. Bytes before following region: 4362764258\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1040a8000-1040ac000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x000000000000001e","rawCodes":[1,30],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x000000000000001e"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":18553},
"vmregioninfo" : "0x1e is not in any region. Bytes before following region: 4362764258\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1040a8000-1040ac000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
"faultingThread" : 0,
"threads" : [{"threadState":{"x":[{"value":0},{"value":0},{"value":1},{"value":5638159000},{"value":80},{"value":119},{"value":0},{"value":18},{"value":17660705189752267480},{"value":17660705198414921176},{"value":14757395258967641293},{"value":4294967286},{"value":5638158930},{"value":0},{"value":53},{"value":4294967280},{"value":328},{"value":8816664488},{"value":0},{"value":11},{"value":259},{"value":8799559648,"symbolLocation":224,"symbol":"_main_thread"},{"value":0},{"value":1},{"value":4385490480,"symbolLocation":0,"symbol":"faulthandler_handlers"},{"value":0},{"value":0},{"value":8824747256},{"value":8799961088,"symbolLocation":24,"symbol":"sInitLock"}],"flavor":"ARM_THREAD_STATE64","lr":{"value":6952953996},"cpsr":{"value":1073741824},"fp":{"value":5638159072},"sp":{"value":5638159040},"esr":{"value":1442840704,"description":" Address size 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"CFBundleShortVersionString" : "1.22",
"CFBundleIdentifier" : "com.apple.HIServices",
"size" : 443296,
"uuid" : "9f96148e-f999-34d5-a7d6-bb6d8c75dae1",
"path" : "\/System\/Library\/Frameworks\/ApplicationServices.framework\/Versions\/A\/Frameworks\/HIServices.framework\/Versions\/A\/HIServices",
"name" : "HIServices"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6953406464,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.CoreFoundation",
"size" : 5500928,
"uuid" : "df489a59-b4f6-32b8-9bb4-9b832960aa52",
"path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
"name" : "CoreFoundation",
"CFBundleVersion" : "3502.1.401"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 7148752896,
"CFBundleShortVersionString" : "2.1.1",
"CFBundleIdentifier" : "com.apple.HIToolbox",
"size" : 3174368,
"uuid" : "9286e29f-fcee-31d0-acea-2842ea23bedf",
"path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
"name" : "HIToolbox"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6949126144,
"size" : 636112,
"uuid" : "9cf0401a-a938-389e-a77d-9e9608076ccf",
"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
},
{
"size" : 0,
"source" : "A",
"base" : 0,
"uuid" : "00000000-0000-0000-0000-000000000000"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6976409600,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.Foundation",
"size" : 14586624,
"uuid" : "e8f6a451-0acc-3e05-b18f-fec6618ce44a",
"path" : "\/System\/Library\/Frameworks\/Foundation.framework\/Versions\/C\/Foundation",
"name" : "Foundation",
"CFBundleVersion" : "3502.1.401"
}
],
"sharedCache" : {
"base" : 6948290560,
"size" : 5047205888,
"uuid" : "d7397d7f-8df9-3920-81a7-c0a144be9c51"
},
"vmSummary" : "ReadOnly portion of Libraries: Total=1.9G resident=0K(0%) swapped_out_or_unallocated=1.9G(100%)\nWritable regions: Total=3.5G written=2483K(0%) resident=1955K(0%) swapped_out=528K(0%) unallocated=3.4G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 256K 2 \nActivity Tracing 256K 1 \nCG image 272K 12 \nColorSync 656K 33 \nCoreAnimation 1424K 89 \nCoreGraphics 48K 3 \nCoreUI image data 2208K 29 \nDispatch continuations 80.0M 1 \nFoundation 16K 1 \nKernel Alloc Once 32K 1 \nMALLOC 2.5G 132 \nMALLOC guard page 288K 18 \nMach message 64K 2 \nOpenGL GLSL 384K 4 \nSTACK GUARD 832K 52 \nStack 417.3M 53 \nStack Guard 56.0M 1 \nVM_ALLOCATE 221.0M 153 \nVM_ALLOCATE (reserved) 192.0M 1 reserved VM address space (unallocated)\n__AUTH 5441K 691 \n__AUTH_CONST 76.8M 938 \n__CTF 824 1 \n__DATA 37.3M 1085 \n__DATA_CONST 37.2M 1101 \n__DATA_DIRTY 2777K 341 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 647.1M 157 \n__OBJC_RO 61.4M 1 \n__OBJC_RW 2396K 1 \n__TEXT 1.3G 1120 \n__TEXT (graphics) 144K 1 \n__TPRO_CONST 128K 2 \ndyld private memory 3504K 30 \nmapped file 306.4M 64 \npage table in kernel 1955K 1 \nshared memory 3152K 23 \n=========== ======= ======= \nTOTAL 6.0G 6148 \nTOTAL, minus reserved VM space 5.8G 6148 \n",
"legacyInfo" : {
"threadTriggered" : {
"name" : "CrBrowserMain",
"queue" : "com.apple.main-thread"
}
},
"logWritingSignature" : "35eeb44f43d69d26d2e798fdf1e70bfdd3241695",
"trialInfo" : {
"rollouts" : [
{
"rolloutId" : "644114de41e7236e6177f9bd",
"factorPackIds" : {
},
"deploymentId" : 240000013
},
{
"rolloutId" : "645197bf528fbf3c3af54105",
"factorPackIds" : {
"SIRI_VALUE_INFERENCE_PERVASIVE_ENTITY_RESOLUTION" : "663e65b4a1526e1ca0e288a1"
},
"deploymentId" : 240000002
}
],
"experiments" : [
]
}
}
===== Log before crash start =====
UCSF ChimeraX version: 1.10.dev202502120650 (2025-02-12)
© 2016-2025 Regents of the University of California. All rights reserved.
> open /Users/apple/Downloads/global_view_semiactive_map+model.cxs
Opened semiactive_vop_max_EMReady.mrc as #2, grid size 420,420,420, pixel
0.95, shown at level 4.16, step 1, values float32
Opened semiactive_vop_max_EMReady.mrc gaussian as #3, grid size 420,420,420,
pixel 0.95, shown at level 4, step 1, values float32
Opened semiactive_micelle_volumn.mrc as #1, grid size 420,420,420, pixel 0.95,
shown at level 0.0353, step 1, values float32
Log from Tue Aug 27 10:53:52 2024UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open
> D:\\\Desktop\\\BTN_Coot_work\\\ChimeraX_working_folder_BTN\\\global_view_semiactive.cxs
Opened semiactive_vop_max_EMReady.mrc as #2, grid size 420,420,420, pixel
0.95, shown at level 4.16, step 1, values float32
Opened semiactive_vop_max_EMReady.mrc gaussian as #3, grid size 420,420,420,
pixel 0.95, shown at level 4, step 1, values float32
Opened semiactive_micelle_volumn.mrc as #1, grid size 420,420,420, pixel 0.95,
shown at level 0.0353, step 1, values float32
Log from Wed Aug 7 13:00:59 2024UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open
> D:\\\Desktop\\\BTN_Coot_work\\\ChimeraX_working_folder_BTN\\\semiactive_global_view.cxs
Opened semiactive_vop_max_EMReady.mrc as #2, grid size 420,420,420, pixel
0.95, shown at level 4.16, step 1, values float32
Opened semiactive_vop_max_EMReady.mrc gaussian as #3, grid size 420,420,420,
pixel 0.95, shown at level 4, step 1, values float32
Log from Tue Aug 6 14:22:11 2024 Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> D:/Desktop/BTN_Coot_work/final_semiactive_global/20240805_real_space_refined_007+HMBPP.pdb
> D:/Desktop/BTN_Coot_work/final_semiactive_global/semiactive_vop_max_EMReady.mrc
Chain information for 20240805_real_space_refined_007+HMBPP.pdb #1
---
Chain | Description
A | No description available
B | No description available
E | No description available
F | No description available
Opened semiactive_vop_max_EMReady.mrc as #2, grid size 420,420,420, pixel
0.95, shown at level 0.115, step 2, values float32
> hide atoms
> show cartoons
> lighting soft
> graphics silhouettes true
> set bgColor white
> select clear
> volume #2 step 1
> volume #2 level 3.668
> volume #2 level 5.089
> hide #!2 models
> select /A
3807 atoms, 3899 bonds, 2 pseudobonds, 480 residues, 2 models selected
> ui tool show "Color Actions"
> select all
13833 atoms, 14145 bonds, 16 pseudobonds, 1720 residues, 4 models selected
> color sel bypolymer
> select /A
3807 atoms, 3899 bonds, 2 pseudobonds, 480 residues, 2 models selected
> color sel bypolymer
> color (#!1 & sel) #d58fffff
> select clear
> select /B
2247 atoms, 2290 bonds, 1 pseudobond, 291 residues, 2 models selected
> color (#!1 & sel) #f47f72ff
> select /E
3901 atoms, 3993 bonds, 7 pseudobonds, 474 residues, 2 models selected
> color (#!1 & sel) #fbb463ff
> select /F
3863 atoms, 3949 bonds, 6 pseudobonds, 474 residues, 2 models selected
> color (#!1 & sel) #fbf8b4ff
> select clear
> select /F
3863 atoms, 3949 bonds, 6 pseudobonds, 474 residues, 2 models selected
> select clear
> show #!2 models
> ui tool show "Color Zone"
> color zone #2 near #1 distance 5.7
> ui tool show "Hide Dust"
> volume #2 level 4.157
> surface dust #2 size 5.7
> surface dust #2 size 9.18
> color zone #2 near #1 distance 11.38
> ui tool show "Map Filter"
> volume gaussian #2 sDev 0.6
Opened semiactive_vop_max_EMReady.mrc gaussian as #3, grid size 420,420,420,
pixel 0.95, shown at step 1, values float32
> volume #3 level 4.751
> surface dust #3 size 5.7
> volume #3 level 4.931
> surface dust #3 size 4.3
[Repeated 1 time(s)]
> color zone #3 near #1 distance 5.7
> hide #!1 models
> surface undust #3
> volume #3 level 3.981
> volume #3 level 4
> surface dust #3 size 5.55
> surface dust #3 size 5.36
> cd D:/Desktop/BTN_Coot_work/ChimeraX_working_folder_BTN
Current working directory is:
D:\Desktop\BTN_Coot_work\ChimeraX_working_folder_BTN
> save
> D:/Desktop/BTN_Coot_work/ChimeraX_working_folder_BTN/semiactive_global_view.cxs
> includeMaps true
——— End of log from Tue Aug 6 14:22:11 2024 ———
opened ChimeraX session
> open
> D:/Desktop/BTN_Coot_work/final_semiactive_global/20240807_real_space_refined_011+HMBPP.pdb
Chain information for 20240807_real_space_refined_011+HMBPP.pdb #4
---
Chain | Description
A | No description available
B | No description available
E | No description available
F | No description available
> hide #!3 models
> dssp
> select #4/B:218
7 atoms, 7 bonds, 1 residue, 1 model selected
> select #4/A:220
8 atoms, 7 bonds, 1 residue, 1 model selected
> select clear
> setattr /A:218-219 res ss_type 0
Assigning ss_type attribute to 4 items
> setattr /B:218-219 res ss_type 0
Assigning ss_type attribute to 4 items
> select #4/B:220
8 atoms, 7 bonds, 1 residue, 1 model selected
> select clear
> select #4/A:211
7 atoms, 7 bonds, 1 residue, 1 model selected
> setattr /A:210-212 res ss_type 0
Assigning ss_type attribute to 6 items
> select clear
> select #4/B:149
9 atoms, 8 bonds, 1 residue, 1 model selected
> select clear
> ui tool show "Color Actions"
> color bypolymer
> select clear
[Repeated 6 time(s)]
> dssp
> select clear
> hide #!4 atoms
> show #!4 cartoons
> select /A
7629 atoms, 7814 bonds, 4 pseudobonds, 961 residues, 4 models selected
> ui tool show "Color Actions"
> color (#!4 & sel) #d58fffff
> select clear
> select /A
7629 atoms, 7814 bonds, 4 pseudobonds, 961 residues, 4 models selected
> color (#!4 & sel) #d7e9f8ff
> color (#!4 & sel) #f0f0f0ff
> color (#!4 & sel) #ffffffff
> color (#!4 & sel) #bd92c8ff
> color (#!4 & sel) #ffffffff
> color (#!4 & sel) #948fe7ff
> color (#!4 & sel) #ffffffff
> color (#!4 & sel) #000000ff
> color (#!4 & sel) #9d97f9ff
> color (#!4 & sel) #a09bffff
> color (#!4 & sel) #9f99fcff
> color (#!4 & sel) #a19bffff
> color (#!4 & sel) #000000ff
> color (#!4 & sel) #ffffffff
> color (#!4 & sel) #000000ff
> color (#!4 & sel) #ffffffff
> color (#!4 & sel) #7d78cfff
> color (#!4 & sel) #958ff7ff
> color (#!4 & sel) #958ff8ff
> color (#!4 & sel) #948ef6ff
> color (#!4 & sel) #928cf2ff
> color (#!4 & sel) #958ff8ff
> color (#!4 & sel) #9690fbff
> color (#!4 & sel) #9892feff
> color (#!4 & sel) #9791fcff
> color (#!4 & sel) #9790fbff
> color (#!4 & sel) #948ef7ff
> color (#!4 & sel) #958ff8ff
> color (#!4 & sel) #948df6ff
> color (#!4 & sel) #928cf3ff
> select clear
> select /B
4494 atoms, 4582 bonds, 2 pseudobonds, 582 residues, 4 models selected
> color (#!4 & sel) #f47f72ff
> select clear
> select /C
15 atoms, 14 bonds, 1 residue, 1 model selected
> select /E
7802 atoms, 7988 bonds, 14 pseudobonds, 948 residues, 4 models selected
> close #1
> select /C
Nothing selected
> select /E
3901 atoms, 3995 bonds, 7 pseudobonds, 474 residues, 2 models selected
> color (#!4 & sel) #fbb463ff
> select clear
> select /F
3863 atoms, 3951 bonds, 6 pseudobonds, 474 residues, 2 models selected
> color (#!4 & sel) #fbf8b4ff
> select clear
> select /A
3822 atoms, 3915 bonds, 2 pseudobonds, 481 residues, 2 models selected
> ui tool show "Color Actions"
> color (#!4 & sel) #d58fffff
> select clear
> show #!3 models
> hide #!3 models
> show #!3 models
> ui tool show "Hide Dust"
> ui tool show "Color Zone"
> surface dust #3 size 5.36
> ui tool show "Surface Zone"
> surface zone #3 nearAtoms #4 distance 5.7
> surface zone #3 nearAtoms #4 distance 6.6
[Repeated 1 time(s)]
> surface dust #3 size 5.36
> surface dust #3 size 5.28
[Repeated 1 time(s)]
> color zone #3 near #4 distance 5.7
[Repeated 4 time(s)]
> open
> D:/Desktop/BTN_Coot_work/final_semiactive_global/semiactive_micelle_volumn.mrc
Opened semiactive_micelle_volumn.mrc as #1, grid size 420,420,420, pixel 0.95,
shown at level 0.0177, step 2, values float32
> volume #1 step 1
> volume #1 level 0.0341
> volume #1 level 0.03527
> surface dust #1 size 5.7
> select #1
2 models selected
> transparency #1.1 70
> select clear
[Repeated 2 time(s)]
> hide #!1 models
> show #!1 models
> hide #!3 models
> select /A
3822 atoms, 3915 bonds, 2 pseudobonds, 481 residues, 2 models selected
> ui tool show "Color Actions"
> color (#!4 & sel) #b177d5ff
> color (#!4 & sel) #9b68baff
> color (#!4 & sel) #a871caff
> color (#!4 & sel) #9262afff
> color (#!4 & sel) #a26dc3ff
> color (#!4 & sel) #b97cdeff
> color (#!4 & sel) #b87cddff
> color (#!4 & sel) #b97cdeff
> color (#!4 & sel) #c786efff
> color (#!4 & sel) #d28dfcff
> color (#!4 & sel) #d48fffff
> color (#!4 & sel) #d38efeff
> color (#!4 & sel) #bf81e6ff
> color (#!4 & sel) #b47ad9ff
> color (#!4 & sel) #b479d8ff
> color (#!4 & sel) #a16dc2ff
> color (#!4 & sel) #9a68b9ff
> color (#!4 & sel) #9c69bcff
> color (#!4 & sel) #bc7fe2ff
> color (#!4 & sel) #d38efeff
> color (#!4 & sel) #d48fffff
> color (#!4 & sel) #d38efeff
> color (#!4 & sel) #b77bdcff
> color (#!4 & sel) #a972cbff
> color (#!4 & sel) #a871caff
> color (#!4 & sel) #9a68b9ff
> color (#!4 & sel) #9c69bcff
> color (#!4 & sel) #b47ad9ff
> color (#!4 & sel) #c887f1ff
> color (#!4 & sel) #d48fffff
> color (#!4 & sel) #d38efeff
> color (#!4 & sel) #bb7ee1ff
> color (#!4 & sel) #a972cbff
> color (#!4 & sel) #a871caff
> color (#!4 & sel) #ab74ceff
> color (#!4 & sel) #be80e5ff
> color (#!4 & sel) #d48fffff
> color (#!4 & sel) #d38efeff
> color (#!4 & sel) #cc89f5ff
> color (#!4 & sel) #9c69bcff
> color (#!4 & sel) #9363b1ff
> color (#!4 & sel) #9665b4ff
> color (#!4 & sel) #ad75d0ff
> color (#!4 & sel) #be80e5ff
> color (#!4 & sel) #d48fffff
> color (#!4 & sel) #110b14ff
> color (#!4 & sel) #a670c8ff
> select /B
2247 atoms, 2292 bonds, 1 pseudobond, 291 residues, 2 models selected
> color (#!4 & sel) #f47f72ff
> color (#!4 & sel) #140a09ff
> color (#!4 & sel) #c8685dff
> select clear
> select /E
3901 atoms, 3995 bonds, 7 pseudobonds, 474 residues, 2 models selected
> color (#!4 & sel) #fbb463ff
> color (#!4 & sel) #fbb46314
> color (#!4 & sel) #fbb463c8
> color (#!4 & sel) #fbb46302
> color (#!4 & sel) #fbb46319
> color (#!4 & sel) #fbb463ff
> color (#!4 & sel) #140e08ff
> color (#!4 & sel) #c88e4fff
> select clear
> select /F
3863 atoms, 3951 bonds, 6 pseudobonds, 474 residues, 2 models selected
> color (#!4 & sel) #fbf8b4ff
> color (#!4 & sel) #14140eff
> color (#!4 & sel) #c8c590ff
> select clear
> color zone #3 near #4 distance 5.7
> show #!3 models
> hide #!3 models
> undo
[Repeated 9 time(s)]
> select /A
3822 atoms, 3915 bonds, 2 pseudobonds, 481 residues, 2 models selected
> color (#!4 & sel) #d58fffff
> select /B
2247 atoms, 2292 bonds, 1 pseudobond, 291 residues, 2 models selected
> color (#!4 & sel) #f47f72ff
> select /C
Nothing selected
> select /E
3901 atoms, 3995 bonds, 7 pseudobonds, 474 residues, 2 models selected
> color (#!4 & sel) #fbb463ff
> select clear
> color zone #3 near #4 distance 5.7
> show #!3 models
> hide #!1 models
> show #!1 models
> hide #!4 models
> save
> D:/Desktop/BTN_Coot_work/ChimeraX_working_folder_BTN/semiactive_global_view.cxs
> includeMaps true
——— End of log from Wed Aug 7 13:00:59 2024 ———
opened ChimeraX session
> ui tool show "Side View"
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> select #3
2 models selected
> transparency #3.1 80
> select clear
> select #3
2 models selected
> transparency #3.1 70
> select clear
> lighting soft
> lighting simple
> lighting soft
> graphics silhouettes false
> graphics silhouettes true
> hide #!1 models
> show #!1 models
> hide #!1 models
> select /A:501
15 atoms, 14 bonds, 1 residue, 1 model selected
> show sel atoms
> color sel lime
> color sel byhetero
> show sel surfaces
> hide sel surfaces
> select clear
> select #3
3 models selected
> transparency #3.1 70
> select clear
> lighting soft
> graphics silhouettes false
> graphics silhouettes true
> select clear
> save
> D:/Desktop/BTN_Coot_work/ChimeraX_working_folder_BTN/figure/20240827_active_global_volumn+model.tif
> width 1469 height 999 supersample 3
> save
> D:/Desktop/BTN_Coot_work/ChimeraX_working_folder_BTN/figure/20240827_semiactive_global_volumn+model.tif
> width 1469 height 999 supersample 3
> lighting full
> lighting soft
> lighting flat
> lighting soft
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> graphics silhouettes true
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting soft
[Repeated 2 time(s)]
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> graphics silhouettes true
> select #3
4 models selected
> transparency #3.1 50
> transparency #3.1 70
> select clear
> select #3
4 models selected
> select clear
> graphics silhouettes true width 2
> graphics silhouettes true width 1
> save
> D:/Desktop/BTN_Coot_work/ChimeraX_working_folder_BTN/global_view_semiactive_map+model.cxs
> includeMaps true
——— End of log from Tue Aug 27 10:53:52 2024 ———
> view name session-start
opened ChimeraX session
> show #!2 models
> show #!1 models
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.10.dev202502120650 (2025-02-12)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M4
OpenGL vendor: Apple
Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.8.1, Qt 6.8.2
Qt runtime version: 6.8.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac16,1
Model Number: MW2V3CH/A
Chip: Apple M4
Total Number of Cores: 10 (4 performance and 6 efficiency)
Memory: 16 GB
System Firmware Version: 11881.121.1
OS Loader Version: 11881.121.1
Software:
System Software Overview:
System Version: macOS 15.5 (24F74)
Kernel Version: Darwin 24.5.0
Time since boot: 3天22小时16分钟
Graphics/Displays:
Apple M4:
Chipset Model: Apple M4
Type: GPU
Bus: Built-In
Total Number of Cores: 10
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Q24E11:
Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
UI Looks like: 2560 x 1440 @ 100.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 1.0.0
anyio: 4.8.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.2.0
babel: 2.17.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.1
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.19.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Aniso: 1.0.1
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.60.5
ChimeraX-AtomicLibrary: 14.1.13
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.10.dev202502120650
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.5.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.7
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-ModelPanel: 1.5
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.14.1
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.7
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.2
ChimeraX-ProfileGrids: 1.0.1
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.3
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.7
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.43
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.1
coverage: 7.6.12
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.12
decorator: 5.1.1
docutils: 0.21.2
executing: 2.2.0
filelock: 3.15.4
fonttools: 4.56.0
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.0.0
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.5
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.8
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 1.26.4
OpenMM: 8.2.0
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 10.4.0
pip: 25.0.1
pkginfo: 1.11.1
platformdirs: 4.3.6
pluggy: 1.5.0
prompt_toolkit: 3.0.50
psutil: 6.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pynmrstar: 3.3.5
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.1
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.8.1
PyQt6-Qt6: 6.8.2
PyQt6-WebEngine-commercial: 6.8.0
PyQt6-WebEngine-Qt6: 6.8.2
PyQt6_sip: 13.10.0
pytest: 8.3.4
pytest-cov: 6.0.0
python-dateutil: 2.9.0.post0
pytz: 2025.1
pyzmq: 26.2.1
qtconsole: 5.5.2
QtPy: 2.4.3
qtshim: 1.1
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.1.3
sphinx-autodoc-typehints: 3.0.1
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.7.1
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2025.1
urllib3: 2.3.0
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.13
Change History (2)
comment:1 by , 3 months ago
| Component: | Unassigned → Platform |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → mshMIGPerform crash |
comment:2 by , 3 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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As per #18238, hopefully fixed in newer versions of Qt