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Opened 2 months ago
Closed 2 months ago
#18434 closed defect (duplicate)
Mac wake from sleep crash
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-15.6-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Last time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX.
Fatal Python error: Segmentation fault
Thread 0x000000032ba43000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000032aa37000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000329a2b000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 930 in wait
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000328a1f000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000327a13000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000326a07000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003259fb000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003249ef000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003239e3000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003229d7000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003219cb000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000003209bf000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031f9b3000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031e9a7000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031d99b000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031c98f000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000031b983000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Current thread 0x00000001fd9760c0 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
File "/Applications/ChimeraX-1.9.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-1.9.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, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.pdb_lib._load_libs, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, chimerax.surface._surface, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, psutil._psutil_osx, psutil._psutil_posix, PIL._imagingmath, chimerax.graphics._graphics, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize (total: 56)
{"app_name":"ChimeraX","timestamp":"2025-08-14 19:32:42.00 +0800","app_version":"1.9.0","slice_uuid":"17982d98-65bc-3327-8526-577ec996453c","build_version":"1.9.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 15.6 (24G84)","roots_installed":0,"name":"ChimeraX","incident_id":"CCDEA146-D5B3-4866-950F-5C8795729062"}
{
"uptime" : 440000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "Mac16,8",
"coalitionID" : 84552,
"osVersion" : {
"train" : "macOS 15.6",
"build" : "24G84",
"releaseType" : "User"
},
"captureTime" : "2025-08-14 19:32:16.8500 +0800",
"codeSigningMonitor" : 2,
"incident" : "CCDEA146-D5B3-4866-950F-5C8795729062",
"pid" : 70559,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2025-08-14 14:27:50.3571 +0800",
"procStartAbsTime" : 10301456736556,
"procExitAbsTime" : 10675179057606,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"DD5D85C7-085B-5484-B9CC-7F123C5DE0A3","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "C646FE3B-2D8A-E277-3F5C-DC4F9C216704",
"appleIntelligenceStatus" : {"state":"unavailable","reasons":["countryBillingIneligible","countryLocationIneligible"]},
"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" : "155F7035-1114-4294-B194-2EAB2E6A39BC",
"wakeTime" : 2,
"sleepWakeUUID" : "27A792CD-480F-4150-AD37-ED48638D8F59",
"sip" : "enabled",
"vmRegionInfo" : "0x169 is not in any region. Bytes before following region: 4329832087\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 102140000-102144000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x0000000000000169","rawCodes":[1,361],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000169"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":70559},
"vmregioninfo" : "0x169 is not in any region. Bytes before following region: 4329832087\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 102140000-102144000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.9.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":4563696280},{"value":99},{"value":116},{"value":1152921511031020864},{"value":0},{"value":14823324183470528851},{"value":14823324185842989459},{"value":14757395258967641293},{"value":4294967286},{"value":4563696210},{"value":0},{"value":53},{"value":4294967280},{"value":328},{"value":8566658392},{"value":0},{"value":11},{"value":259},{"value":8549523872,"symbolLocation":224,"symbol":"_main_thread"},{"value":0},{"value":1},{"value":4350346800,"symbolLocation":0,"symbol":"faulthandler_handlers"},{"value":8510689280,"symbolLocation":0,"symbol":"OBJC_IVAR_$_NSTouchBarInputMethodCandidateList._list"},{"value":8510689280,"symbolLocation":0,"symbol":"OBJC_IVAR_$_NSTouchBarInputMethodCandidateList._list"},{"value":5},{"value":1}],"flavor":"ARM_THREAD_STATE64","lr":{"value":6704478348},"cpsr":{"value":1073741824},"fp":{"value":4563696352},"sp":{"value":4563696320},"esr":{"value":1442840704,"description":" Address size fault"},"pc":{"value":6704243592,"matchesCrashFrame":1},"far":{"value":0}},"id":21918817,"triggered":true,"name":"CrBrowserMain","queue":"com.apple.main-thread","frames":[{"imageOffset":37768,"symbol":"__pthread_kill","symbolLocation":8,"imageIndex":154},{"imageOffset":26764,"symbol":"pthread_kill","symbolLocation":296,"imageIndex":155},{"imageOffset":265476,"symbol":"raise","symbolLocation":32,"imageIndex":156},{"imageOffset":2417160,"symbol":"faulthandler_fatal_error","symbolLocation":392,"imageIndex":1},{"imageOffset":13988,"symbol":"_sigtramp","symbolLocation":56,"imageIndex":157},{"imageOffset":349344,"imageIndex":69},{"imageOffset":349160,"imageIndex":69},{"imageOffset":381256,"symbol":"_NSViewHierarchyDidChangeBackingProperties","symbolLocation":244,"imageIndex":158},{"imageOffset":12004300,"symbol":"-[NSWindow _postWindowDidChangeBackingPropertiesAndDisplayWindowForPreviousBackingScaleFactor:previousColorSpace:]","symbolLocation":192,"imageIndex":158},{"imageOffset":2071804,"symbol":"__67-[NSWindow _updateSettingsSendingScreenChangeNotificationToScreen:]_block_invoke","symbolLocation":432,"imageIndex":158},{"imageOffset":507904,"symbol":"NSPerformVisuallyAtomicChange","symbolLocation":108,"imageIndex":158},{"imageOffset":2071360,"symbol":"-[NSWindow _updateSettingsSendingScreenChangeNotificationToScreen:]","symbolLocation":96,"imageIndex":158},{"imageOffset":513356,"symbol":"-[NSWindow _setFrameCommon:display:fromServer:]","symbolLocation":2016,"imageIndex":158},{"imageOffset":11974628,"symbol":"-[NSWindow(NSScreenLayout) _setFrame:fromAdjustmentToScreen:anchorIfNeeded:animate:]","symbolLocation":616,"imageIndex":158},{"imageOffset":3236944,"symbol":"-[NSWindow _adjustWindowToScreen]","symbolLocation":1184,"imageIndex":158},{"imageOffset":3366572,"symbol":"-[NSWindow 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"path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
"name" : "HIToolbox"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6700646400,
"size" : 636280,
"uuid" : "3247e185-ced2-36ff-9e29-47a77c23e004",
"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
},
{
"size" : 0,
"source" : "A",
"base" : 0,
"uuid" : "00000000-0000-0000-0000-000000000000"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6727938048,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.Foundation",
"size" : 14587296,
"uuid" : "b9a92060-f21e-3ecf-9ded-94a65c68a6f4",
"path" : "\/System\/Library\/Frameworks\/Foundation.framework\/Versions\/C\/Foundation",
"name" : "Foundation",
"CFBundleVersion" : "3603"
}
],
"sharedCache" : {
"base" : 6699810816,
"size" : 5040898048,
"uuid" : "032c7bce-a479-35b8-97bc-ce7f8f80ccab"
},
"vmSummary" : "ReadOnly portion of Libraries: Total=1.9G resident=0K(0%) swapped_out_or_unallocated=1.9G(100%)\nWritable regions: Total=4.2G written=84.4M(2%) resident=2500K(0%) swapped_out=82.0M(2%) unallocated=4.1G(98%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 384K 3 \nActivity Tracing 256K 1 \nCG image 1440K 64 \nColorSync 624K 33 \nCoreAnimation 3072K 155 \nCoreGraphics 32K 2 \nCoreImage 80K 5 \nCoreServices 624K 2 \nCoreUI image data 3600K 52 \nFoundation 48K 2 \nKernel Alloc Once 64K 2 \nMALLOC 3.1G 138 \nMALLOC guard page 288K 18 \nMach message 96K 5 \nOpenGL GLSL 384K 4 \nSTACK GUARD 992K 62 \nStack 476.6M 63 \nStack Guard 56.0M 1 \nVM_ALLOCATE 294.2M 217 \nVM_ALLOCATE (reserved) 320.0M 4 reserved VM address space (unallocated)\n__AUTH 5520K 696 \n__AUTH_CONST 77.4M 943 \n__CTF 824 1 \n__DATA 34.1M 1085 \n__DATA_CONST 36.9M 1104 \n__DATA_DIRTY 2777K 342 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 647.8M 155 \n__OBJC_RO 61.4M 1 \n__OBJC_RW 2396K 1 \n__TEXT 1.3G 1119 \n__TEXT (graphics) 2672K 5 \n__TPRO_CONST 128K 2 \ndyld private memory 3360K 28 \nmapped file 605.0M 113 \npage table in kernel 2500K 1 \nshared memory 3744K 27 \n=========== ======= ======= \nTOTAL 7.0G 6459 \nTOTAL, minus reserved VM space 6.7G 6459 \n",
"legacyInfo" : {
"threadTriggered" : {
"name" : "CrBrowserMain",
"queue" : "com.apple.main-thread"
}
},
"logWritingSignature" : "0d8251ec21904051cfb07435e512bc7a0d74dd61",
"trialInfo" : {
"rollouts" : [
{
"rolloutId" : "67fd77fe1f9da9148f70d6ed",
"factorPackIds" : {
},
"deploymentId" : 240000011
},
{
"rolloutId" : "661464ecda55e5192b100804",
"factorPackIds" : {
},
"deploymentId" : 240000005
}
],
"experiments" : [
]
}
}
===== Log before crash start =====
Startup Messages
---
warning | Registration file '/Users/hongwenchen/Library/Application Support/ChimeraX/registration' has expired
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-
> Model/apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86.mrc
Opened apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86.mrc as #1, grid size
224,224,224, pixel 1.1, shown at level 0.101, step 1, values float32
> ui tool show Registration
Thank you for registering your copy of ChimeraX. By providing the information
requested you will be helping us document the impact this software is having
in the scientific community. The information you supplied will only be used
for reporting summary usage statistics; no individual data will be released.
hongwen.chen@sjtu.edu.cn has been invited to the ChimeraX announcements list
> set bgColor white
> volume #1 level 0.1961
> ui tool show "Side View"
> open "/Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-
> Model/apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86 copy.mrc"
Opened apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86 copy.mrc as #2, grid
size 224,224,224, pixel 1.1, shown at level 0.101, step 1, values float32
> volume #2 color #7a81ff
> volume #2 color #0433ff
> volume #2 color #0096ff
> volume #2 level 0.2594
> volume #1 color #b2b2b249
> volume #1 level 0.101
> ui tool show "Hide Dust"
> surface dust #1 size 6.6
> volume #1 color darkgrey
> volume #1 color #a9a9a917
> volume #1 color #a9a9a914
> volume #1 level 0.1141
> volume #1 level 0.1075
> volume #1 step 2
> volume #1 step 16
> volume #1 step 1
> volume #1 style image
> volume #1 style mesh
> volume #1 style image
> volume #1 level -0.02944,0 level 0.1008,0.8 level 2.166,1
> volume #1 level -0.02944,0 level 0.1008,0.8 level 2.133,0.03077
> volume #1 level -0.02944,0 level 0.09431,0.6154 level 2.133,0.03077
> volume #1 level -0.02944,0 level 0.09431,0.6154 level 2.133,1
> volume #1 level 0.003188,0.01538 level 0.09431,0.6154 level 2.133,1
> volume #1 color #929292 color white color white
> volume #1 color #929292a2 color white color white
> volume #1 color #929292b0 color white color white
> volume #1 style surface
> volume #1 color #929292a4
> volume #1 color #92929200
> volume #1 color #9292920a
> volume #1 color #9292920d
> volume #1 style image region 0,0,111,223,223,111 step 1 showOutlineBox true
> volume #1 region 0,0,0,223,223,223 step 1
> volume #1 region 0,0,0,223,223,223 step 1 colorMode opaque8 orthoplanes xyz
> positionPlanes 111,111,111 imageMode orthoplanes
> volume #1 imageMode "box faces"
> volume #1 colorMode auto8 imageMode "tilted slab" tiltedSlabAxis
> -0.7615,0.6301,0.1521 tiltedSlabOffset -21.67 tiltedSlabSpacing 1.1
> tiltedSlabPlaneCount 44
> volume #1 maximumIntensityProjection true imageMode "full region"
> volume #1 maximumIntensityProjection false
> volume #1 style surface
> volume #1 color #424242
> volume #1 color #4242420f
> volume #1 color darkgrey
> volume #1 color #a9a9a90d
> surface dust #1 size 5.86
> surface dust #1 size 1.79
> surface dust #1 size 5
> open /Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-
> Model/R_apo_2.86.pdb
Chain information for R_apo_2.86.pdb #3
---
Chain | Description
A C | No description available
B D | No description available
> volume #1 tiltedSlabAxis -0.7959,0.6004,-0.07808 tiltedSlabOffset -60.3
> volume #1 tiltedSlabAxis -0.7654,0.4927,-0.4141 tiltedSlabOffset -116.5
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> turn x 90
> select #2:A
Nothing selected
> select #3:A
Nothing selected
> select #3/A
3205 atoms, 3267 bonds, 340 residues, 1 model selected
> ui tool show "Color Actions"
> color sel forest green
> color sel #00ffffff
> color sel #00ff00ff
> color sel #00fa92ff
> color sel #00f900ff
> color sel #00fa00ff
> color sel #00fb00ff
> color sel #00fd00ff
> color sel #00ff00ff
> select #3/C
3205 atoms, 3274 bonds, 340 residues, 1 model selected
> ui tool show "Color Actions"
> color sel cyan
> select clear
> select #3/b
426 atoms, 434 bonds, 53 residues, 1 model selected
> ui tool show "Color Actions"
> color sel orange
> select #3/d
426 atoms, 434 bonds, 53 residues, 1 model selected
> color sel magenta
> select #3
7262 atoms, 7409 bonds, 786 residues, 1 model selected
> select #3/a/b/c/d
7262 atoms, 7409 bonds, 786 residues, 1 model selected
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> ui tool show "Color Zone"
> color zone #2 near #3 distance 6.6
> color zone #2 near #3 distance 5
> volume #2 color #d6d6d6
> color zone #2 near #3 distance 5
> color zone #2 near #3 distance 4.9
> color zone #2 near #3 distance 4.8
> color zone #2 near #3 distance 4.7
> color zone #2 near #3 distance 4.6
> color zone #2 near #3 distance 4.5
> color zone #2 near #3 distance 4.4
> color zone #2 near #3 distance 3
> volume #2 tiltedSlabAxis -0.7647,0.1135,-0.6343 tiltedSlabOffset -195.8
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> select clear
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> color zone #2 near #3 distance 3
> volume #2 tiltedSlabAxis 0.7825,-0.6224,0.014 tiltedSlabOffset 18.6
> select clear
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> select clear
> select backbone
3008 atoms, 3004 bonds, 752 residues, 1 model selected
> color zone #2 near #3 distance 3
> color single #2
> color zone #2 near #3 distance 3
> color single #2
> color zone #2 near #3 distance 3
> volume #2 tiltedSlabAxis -0.5036,0.6449,0.5748 tiltedSlabOffset 45.17
> ui tool show "Side View"
> open "/Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-Model/R_apo_2.86
> copy.pdb"
Summary of feedback from opening /Users/hongwenchen/Desktop/MS_OSTalpha-
beta/Map-and-Model/R_apo_2.86 copy.pdb
---
warnings | CONECT record to nonexistent atom: (1196, 3093)
CONECT record to nonexistent atom: (1202, 3144)
CONECT record to nonexistent atom: (1208, 3110)
CONECT record to nonexistent atom: (1214, 3127)
CONECT record to nonexistent atom: (1220, 3161)
2 messages similar to the above omitted
CONECT record for nonexistent atom: 2512
Cannot find LINK/SSBOND residue PLM (501 )
Cannot find LINK/SSBOND residue PLM (504 )
Cannot find LINK/SSBOND residue PLM (502 )
Cannot find LINK/SSBOND residue PLM (503 )
Cannot find LINK/SSBOND residue PLM (505 )
2 messages similar to the above omitted
Chain information for R_apo_2.86 copy.pdb #4
---
Chain | Description
A C | No description available
B D | No description available
> close #3
> select #3/a/b/c/d
Nothing selected
> color single #2
> color zone #2 near #4 distance 3
> color single #2
> select #3/a/b/c/d
Nothing selected
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> color zone #2 near #4 distance 3
> color zone #2 near #4 distance 3.06
> color zone #2 near #4 distance 11.74
> color single #2
> select #3/a
Nothing selected
> ui tool show "Color Actions"
> color light sea green
> select /A
2510 atoms, 2565 bonds, 323 residues, 1 model selected
> ui tool show "Color Actions"
> color sel forest green
> color sel sea green
> select /C
2510 atoms, 2565 bonds, 323 residues, 1 model selected
> color sel turquoise
> color sel dark turquoise
> select /B
426 atoms, 434 bonds, 53 residues, 1 model selected
> color sel deep sky blue
> color sel bychain
> color sel dark orange
> color sel sandy brown
> color sel dark salmon
> color sel sandy brown
> color sel dark salmon
> select /D
426 atoms, 434 bonds, 53 residues, 1 model selected
> color sel orange
> color sel dark orange
> color sel orange
> color sel sandy brown
> select clear
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> color zone #2 near #4 distance 11.74
> color zone #2 near #4 distance 5
> volume #2 color #d6d6d6
> color zone #2 near #4 distance 5
> color zone #2 near #4 distance 3
> surface dust #2 size 5
> surface dust #2 size 5.1
> surface dust #2 size 5.2
> surface dust #2 size 5.3
> surface dust #2 size 5.4
> surface dust #2 size 5.5
> surface dust #2 size 5.6
> surface dust #2 size 5.7
> surface dust #2 size 5.8
> surface dust #2 size 5.9
> surface dust #2 size 6
> surface dust #2 size 6.1
> surface dust #2 size 6.2
> surface dust #2 size 6.3
> surface dust #2 size 6.4
> surface dust #2 size 6.5
> surface dust #2 size 6.6
> surface dust #2 size 6.7
> surface dust #2 size 6.8
> surface dust #2 size 6.9
> color zone #2 near #4 distance 2
> color zone #2 near #4 distance 1.82
> color zone #2 near #4 distance 1.54
> color zone #2 near #4 distance 1.57
> color zone #2 near #4 distance 2.22
> volume #1 color #d6d6d6
> volume #1 color #d6d6d60e
> volume #1 color #d6d6d60d
> volume #1 tiltedSlabAxis 0.5781,-0.8108,0.09155 tiltedSlabOffset -18.43
> volume #1 tiltedSlabAxis -0.6739,-0.5874,-0.4481 tiltedSlabOffset -191.6
> volume #1 tiltedSlabAxis -0.8986,0.4256,0.107 tiltedSlabOffset -12.68
> volume #1 tiltedSlabAxis -0.2212,0.6595,0.7185 tiltedSlabOffset 122.3
> volume #1 tiltedSlabAxis 0.02117,0.8896,0.4562 tiltedSlabOffset 136.9
> volume #1 tiltedSlabAxis 0.8534,0.4668,0.2319 tiltedSlabOffset 118.8
> volume #1 tiltedSlabAxis 0.07207,0.9432,0.3244 tiltedSlabOffset 154.7
> volume #1 tiltedSlabAxis 0.01583,0.7326,-0.6805 tiltedSlabOffset -18.59
> volume #1 tiltedSlabAxis 0.9353,0.2476,-0.2529 tiltedSlabOffset 22.19
> volume #1 tiltedSlabAxis 0.4005,-0.9033,0.1539 tiltedSlabOffset -87.4
> volume #1 tiltedSlabAxis 0.3787,-0.5673,0.7313 tiltedSlabOffset 34.41
> volume #1 tiltedSlabAxis -0.9146,-0.2582,-0.3113 tiltedSlabOffset -182.9
> surface dust #1 size 6.9
> surface dust #1 size 7.08
> surface dust #1 size 7.89
> surface dust #1 size 8.06
> surface dust #1 size 8
> surface dust #2 size 6.9
> surface dust #2 size 7
> surface dust #2 size 7.1
> surface dust #2 size 7.2
> surface dust #2 size 7.1
> surface dust #2 size 7
> volume #1 tiltedSlabAxis -0.2134,-0.1246,0.969 tiltedSlabOffset 59.07
> volume #1 tiltedSlabAxis 0.4435,-0.8226,0.3558 tiltedSlabOffset -33.53
> turn x 90
> turn x -90
> volume #2 tiltedSlabAxis -0.2602,0.3572,0.8971 tiltedSlabOffset 85.73
> color zone #2 near #4 distance 2.32
> color zone #2 near #4 distance 2.42
> color zone #2 near #4 distance 2.52
> color zone #2 near #4 distance 2.62
> color zone #2 near #4 distance 2.72
> color zone #2 near #4 distance 2.82
> color zone #2 near #4 distance 2.92
> color zone #2 near #4 distance 3.02
> color zone #2 near #4 distance 3.12
> color zone #2 near #4 distance 3.22
> color zone #2 near #4 distance 3.12
> color zone #2 near #4 distance 3.02
> color zone #2 near #4 distance 2.92
> color zone #2 near #4 distance 3.02
> color zone #2 near #4 distance 3
> color zone #2 near #4 distance 2
> color zone #2 near #4 distance 2.8
> surface dust #2 size 10
> surface dust #2 size 5
> surface undust #2
> surface dust #2 size 5
> surface undust #2
> surface dust #2 size 5
> surface dust #2 size 15
> surface dust #2 size 5
> surface dust #2 size 10
> surface dust #2 size 5
> surface dust #2 size 8
> volume #2 tiltedSlabAxis 0.4785,-0.5277,0.7018 tiltedSlabOffset 59.68
> select clear
> turn x -90
> turn x 90
> volume #2 tiltedSlabAxis -0.6778,0.6923,-0.2476 tiltedSlabOffset -53.3
> turn x -90
> turn x 90
> volume #2 tiltedSlabAxis -0.4628,0.769,0.441 tiltedSlabOffset 61.28
> save /Users/hongwenchen/Desktop/Overall_map.png width 2715 height 1920
> supersample 3 transparentBackground true
> hide #4 models
> save /Users/hongwenchen/Desktop/Overall_map.png width 2941 height 2080
> supersample 3 transparentBackground true
> save /Users/hongwenchen/Desktop/Overall_micell.png width 2941 height 2080
> supersample 3
> save /Users/hongwenchen/Desktop/Overall_micell.png width 2941 height 2080
> supersample 3 transparentBackground true
> volume #1 step 2
> volume #1 step 1
> save /Users/hongwenchen/Desktop/Overall_map.png width 2941 height 2080
> supersample 3 transparentBackground true
> volume #1 color #d6d6d613
> volume #1 color darkgrey
> volume #1 color #a9a9a90c
> volume #1 color #a9a9a90d
> save "/Users/hongwenchen/Desktop/Overall structure.cxs" includeMaps true
> ui tool show "Color Actions"
> turn x 90
> turn x -90
> volume #1 color #a9a9a91a
> volume #1 color #929292
> volume #1 color #9292921a
> volume #1 color #797979
> volume #1 color #7979791a
> save /Users/hongwenchen/Desktop/Overall_micell.png width 2715 height 1920
> supersample 3 transparentBackground true
> turn x -90
> volume #2 tiltedSlabAxis -0.3547,0.6697,0.6524 tiltedSlabOffset 87.27
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> save /Users/hongwenchen/Desktop/Overall_map-2.png width 2715 height 1920
> supersample 3 transparentBackground true
> save /Users/hongwenchen/Desktop/Overall_micell.png width 2715 height 1920
> supersample 3 transparentBackground true
> turn x -90
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> save /Users/hongwenchen/Desktop/Overall_map-2.png width 2715 height 1920
> supersample 3 transparentBackground true
> save /Users/hongwenchen/Desktop/Overall_micell.png width 2715 height 1920
> supersample 3 transparentBackground true
> volume #1 level 0.1167
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/hongwenchen/Desktop/Overall structure.cxs"
Opened apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86.mrc as #1, grid size
224,224,224, pixel 1.1, shown at level 0.108, step 1, values float32
Opened apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86 copy.mrc as #2, grid
size 224,224,224, pixel 1.1, shown at level 0.259, step 1, values float32
Log from Thu Aug 14 16:18:15 2025 Startup Messages
---
warning | Registration file '/Users/hongwenchen/Library/Application Support/ChimeraX/registration' has expired
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-
> Model/apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86.mrc
Opened apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86.mrc as #1, grid size
224,224,224, pixel 1.1, shown at level 0.101, step 1, values float32
> ui tool show Registration
Thank you for registering your copy of ChimeraX. By providing the information
requested you will be helping us document the impact this software is having
in the scientific community. The information you supplied will only be used
for reporting summary usage statistics; no individual data will be released.
hongwen.chen@sjtu.edu.cn has been invited to the ChimeraX announcements list
> set bgColor white
> volume #1 level 0.1961
> ui tool show "Side View"
> open "/Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-
> Model/apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86 copy.mrc"
Opened apo_cryosparc_P95_J1807_003_volume_map_sharp_2.86 copy.mrc as #2, grid
size 224,224,224, pixel 1.1, shown at level 0.101, step 1, values float32
> volume #2 color #7a81ff
> volume #2 color #0433ff
> volume #2 color #0096ff
> volume #2 level 0.2594
> volume #1 color #b2b2b249
> volume #1 level 0.101
> ui tool show "Hide Dust"
> surface dust #1 size 6.6
> volume #1 color darkgrey
> volume #1 color #a9a9a917
> volume #1 color #a9a9a914
> volume #1 level 0.1141
> volume #1 level 0.1075
[Repeated 1 time(s)]
> volume #1 step 2
> volume #1 step 16
> volume #1 step 1
> volume #1 style image
> volume #1 style mesh
> volume #1 style image
> volume #1 level -0.02944,0 level 0.1008,0.8 level 2.166,1
> volume #1 level -0.02944,0 level 0.1008,0.8 level 2.133,0.03077
> volume #1 level -0.02944,0 level 0.09431,0.6154 level 2.133,0.03077
> volume #1 level -0.02944,0 level 0.09431,0.6154 level 2.133,1
> volume #1 level 0.003188,0.01538 level 0.09431,0.6154 level 2.133,1
> volume #1 color #929292 color white color white
> volume #1 color #929292a2 color white color white
> volume #1 color #929292b0 color white color white
> volume #1 style surface
> volume #1 color #929292a4
> volume #1 color #92929200
> volume #1 color #9292920a
> volume #1 color #9292920d
> volume #1 style image region 0,0,111,223,223,111 step 1 showOutlineBox true
> volume #1 region 0,0,0,223,223,223 step 1
> volume #1 region 0,0,0,223,223,223 step 1 colorMode opaque8 orthoplanes xyz
> positionPlanes 111,111,111 imageMode orthoplanes
> volume #1 imageMode "box faces"
> volume #1 colorMode auto8 imageMode "tilted slab" tiltedSlabAxis
> -0.7615,0.6301,0.1521 tiltedSlabOffset -21.67 tiltedSlabSpacing 1.1
> tiltedSlabPlaneCount 44
> volume #1 maximumIntensityProjection true imageMode "full region"
> volume #1 maximumIntensityProjection false
> volume #1 style surface
> volume #1 color #424242
> volume #1 color #4242420f
> volume #1 color darkgrey
> volume #1 color #a9a9a90d
> surface dust #1 size 5.86
> surface dust #1 size 1.79
> surface dust #1 size 5
[Repeated 2 time(s)]
> open /Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-
> Model/R_apo_2.86.pdb
Chain information for R_apo_2.86.pdb #3
---
Chain | Description
A C | No description available
B D | No description available
> volume #1 tiltedSlabAxis -0.7959,0.6004,-0.07808 tiltedSlabOffset -60.3
> volume #1 tiltedSlabAxis -0.7654,0.4927,-0.4141 tiltedSlabOffset -116.5
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> turn x 90
> turn x -90
> turn x 90
> select #2:A
Nothing selected
> select #3:A
Nothing selected
> select #3/A
3205 atoms, 3267 bonds, 340 residues, 1 model selected
> ui tool show "Color Actions"
> color sel forest green
> color sel #00ffffff
> color sel #00ff00ff
> color sel #00fa92ff
> color sel #00f900ff
> color sel #00fa00ff
[Repeated 1 time(s)]
> color sel #00fb00ff
> color sel #00fd00ff
> color sel #00ff00ff
> select #3/C
3205 atoms, 3274 bonds, 340 residues, 1 model selected
> ui tool show "Color Actions"
> color sel cyan
> select clear
> select #3/b
426 atoms, 434 bonds, 53 residues, 1 model selected
> ui tool show "Color Actions"
> color sel orange
> select #3/d
426 atoms, 434 bonds, 53 residues, 1 model selected
> color sel magenta
> select #3
7262 atoms, 7409 bonds, 786 residues, 1 model selected
> select #3/a/b/c/d
7262 atoms, 7409 bonds, 786 residues, 1 model selected
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> ui tool show "Color Zone"
> color zone #2 near #3 distance 6.6
> color zone #2 near #3 distance 5
> volume #2 color #d6d6d6
> color zone #2 near #3 distance 5
> color zone #2 near #3 distance 4.9
> color zone #2 near #3 distance 4.8
> color zone #2 near #3 distance 4.7
> color zone #2 near #3 distance 4.6
> color zone #2 near #3 distance 4.5
> color zone #2 near #3 distance 4.4
[Repeated 1 time(s)]
> color zone #2 near #3 distance 3
[Repeated 1 time(s)]
> volume #2 tiltedSlabAxis -0.7647,0.1135,-0.6343 tiltedSlabOffset -195.8
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> select clear
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> color zone #2 near #3 distance 3
> volume #2 tiltedSlabAxis 0.7825,-0.6224,0.014 tiltedSlabOffset 18.6
> select clear
[Repeated 2 time(s)]
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> select clear
> select backbone
3008 atoms, 3004 bonds, 752 residues, 1 model selected
> color zone #2 near #3 distance 3
[Repeated 1 time(s)]
> color single #2
> color zone #2 near #3 distance 3
> color single #2
> color zone #2 near #3 distance 3
> volume #2 tiltedSlabAxis -0.5036,0.6449,0.5748 tiltedSlabOffset 45.17
> ui tool show "Side View"
> open "/Users/hongwenchen/Desktop/MS_OSTalpha-beta/Map-and-Model/R_apo_2.86
> copy.pdb"
Summary of feedback from opening /Users/hongwenchen/Desktop/MS_OSTalpha-
beta/Map-and-Model/R_apo_2.86 copy.pdb
---
warnings | CONECT record to nonexistent atom: (1196, 3093)
CONECT record to nonexistent atom: (1202, 3144)
CONECT record to nonexistent atom: (1208, 3110)
CONECT record to nonexistent atom: (1214, 3127)
CONECT record to nonexistent atom: (1220, 3161)
2 messages similar to the above omitted
CONECT record for nonexistent atom: 2512
Cannot find LINK/SSBOND residue PLM (501 )
Cannot find LINK/SSBOND residue PLM (504 )
Cannot find LINK/SSBOND residue PLM (502 )
Cannot find LINK/SSBOND residue PLM (503 )
Cannot find LINK/SSBOND residue PLM (505 )
2 messages similar to the above omitted
Chain information for R_apo_2.86 copy.pdb #4
---
Chain | Description
A C | No description available
B D | No description available
> close #3
> select #3/a/b/c/d
Nothing selected
> color single #2
> color zone #2 near #4 distance 3
> color single #2
> select #3/a/b/c/d
Nothing selected
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> color zone #2 near #4 distance 3
> color zone #2 near #4 distance 3.06
> color zone #2 near #4 distance 11.74
[Repeated 1 time(s)]
> color single #2
> select #3/a
Nothing selected
> ui tool show "Color Actions"
> color light sea green
> select /A
2510 atoms, 2565 bonds, 323 residues, 1 model selected
> ui tool show "Color Actions"
> color sel forest green
> color sel sea green
> select /C
2510 atoms, 2565 bonds, 323 residues, 1 model selected
> color sel turquoise
> color sel dark turquoise
> select /B
426 atoms, 434 bonds, 53 residues, 1 model selected
> color sel deep sky blue
> color sel bychain
> color sel dark orange
> color sel sandy brown
> color sel dark salmon
> color sel sandy brown
> color sel dark salmon
> select /D
426 atoms, 434 bonds, 53 residues, 1 model selected
> color sel orange
> color sel dark orange
> color sel orange
> color sel sandy brown
> select clear
> select protein
5872 atoms, 5998 bonds, 752 residues, 1 model selected
> color zone #2 near #4 distance 11.74
> color zone #2 near #4 distance 5
[Repeated 1 time(s)]
> volume #2 color #d6d6d6
> color zone #2 near #4 distance 5
> color zone #2 near #4 distance 3
[Repeated 1 time(s)]
> surface dust #2 size 5
> surface dust #2 size 5.1
> surface dust #2 size 5.2
> surface dust #2 size 5.3
> surface dust #2 size 5.4
> surface dust #2 size 5.5
> surface dust #2 size 5.6
> surface dust #2 size 5.7
> surface dust #2 size 5.8
> surface dust #2 size 5.9
> surface dust #2 size 6
> surface dust #2 size 6.1
> surface dust #2 size 6.2
> surface dust #2 size 6.3
> surface dust #2 size 6.4
> surface dust #2 size 6.5
> surface dust #2 size 6.6
> surface dust #2 size 6.7
> surface dust #2 size 6.8
> surface dust #2 size 6.9
[Repeated 1 time(s)]
> color zone #2 near #4 distance 2
[Repeated 3 time(s)]
> color zone #2 near #4 distance 1.82
> color zone #2 near #4 distance 1.54
> color zone #2 near #4 distance 1.57
> color zone #2 near #4 distance 2.22
> volume #1 color #d6d6d6
> volume #1 color #d6d6d60e
> volume #1 color #d6d6d60d
> volume #1 tiltedSlabAxis 0.5781,-0.8108,0.09155 tiltedSlabOffset -18.43
> volume #1 tiltedSlabAxis -0.6739,-0.5874,-0.4481 tiltedSlabOffset -191.6
> volume #1 tiltedSlabAxis -0.8986,0.4256,0.107 tiltedSlabOffset -12.68
> volume #1 tiltedSlabAxis -0.2212,0.6595,0.7185 tiltedSlabOffset 122.3
> volume #1 tiltedSlabAxis 0.02117,0.8896,0.4562 tiltedSlabOffset 136.9
> volume #1 tiltedSlabAxis 0.8534,0.4668,0.2319 tiltedSlabOffset 118.8
> volume #1 tiltedSlabAxis 0.07207,0.9432,0.3244 tiltedSlabOffset 154.7
> volume #1 tiltedSlabAxis 0.01583,0.7326,-0.6805 tiltedSlabOffset -18.59
> volume #1 tiltedSlabAxis 0.9353,0.2476,-0.2529 tiltedSlabOffset 22.19
> volume #1 tiltedSlabAxis 0.4005,-0.9033,0.1539 tiltedSlabOffset -87.4
> volume #1 tiltedSlabAxis 0.3787,-0.5673,0.7313 tiltedSlabOffset 34.41
> volume #1 tiltedSlabAxis -0.9146,-0.2582,-0.3113 tiltedSlabOffset -182.9
> surface dust #1 size 6.9
> surface dust #1 size 7.08
> surface dust #1 size 7.89
> surface dust #1 size 8.06
> surface dust #1 size 8
[Repeated 1 time(s)]
> surface dust #2 size 6.9
> surface dust #2 size 7
> surface dust #2 size 7.1
> surface dust #2 size 7.2
> surface dust #2 size 7.1
> surface dust #2 size 7
[Repeated 1 time(s)]
> volume #1 tiltedSlabAxis -0.2134,-0.1246,0.969 tiltedSlabOffset 59.07
> volume #1 tiltedSlabAxis 0.4435,-0.8226,0.3558 tiltedSlabOffset -33.53
> turn x 90
> turn x -90
> volume #2 tiltedSlabAxis -0.2602,0.3572,0.8971 tiltedSlabOffset 85.73
> color zone #2 near #4 distance 2.32
> color zone #2 near #4 distance 2.42
> color zone #2 near #4 distance 2.52
> color zone #2 near #4 distance 2.62
> color zone #2 near #4 distance 2.72
> color zone #2 near #4 distance 2.82
> color zone #2 near #4 distance 2.92
> color zone #2 near #4 distance 3.02
> color zone #2 near #4 distance 3.12
> color zone #2 near #4 distance 3.22
> color zone #2 near #4 distance 3.12
> color zone #2 near #4 distance 3.02
> color zone #2 near #4 distance 2.92
> color zone #2 near #4 distance 3.02
> color zone #2 near #4 distance 3
[Repeated 1 time(s)]
> color zone #2 near #4 distance 2
> color zone #2 near #4 distance 2.8
[Repeated 1 time(s)]
> surface dust #2 size 10
[Repeated 2 time(s)]
> surface dust #2 size 5
[Repeated 1 time(s)]
> surface undust #2
> surface dust #2 size 5
> surface undust #2
> surface dust #2 size 5
> surface dust #2 size 15
[Repeated 1 time(s)]
> surface dust #2 size 5
[Repeated 1 time(s)]
> surface dust #2 size 10
> surface dust #2 size 5
> surface dust #2 size 8
[Repeated 1 time(s)]
> volume #2 tiltedSlabAxis 0.4785,-0.5277,0.7018 tiltedSlabOffset 59.68
> select clear
> turn x -90
> turn x 90
> volume #2 tiltedSlabAxis -0.6778,0.6923,-0.2476 tiltedSlabOffset -53.3
> turn x -90
> turn x 90
> volume #2 tiltedSlabAxis -0.4628,0.769,0.441 tiltedSlabOffset 61.28
> save /Users/hongwenchen/Desktop/Overall_map.png width 2715 height 1920
> supersample 3 transparentBackground true
> hide #4 models
> save /Users/hongwenchen/Desktop/Overall_map.png width 2941 height 2080
> supersample 3 transparentBackground true
> save /Users/hongwenchen/Desktop/Overall_micell.png width 2941 height 2080
> supersample 3
> save /Users/hongwenchen/Desktop/Overall_micell.png width 2941 height 2080
> supersample 3 transparentBackground true
> volume #1 step 2
> volume #1 step 1
> save /Users/hongwenchen/Desktop/Overall_map.png width 2941 height 2080
> supersample 3 transparentBackground true
> volume #1 color #d6d6d613
> volume #1 color darkgrey
> volume #1 color #a9a9a90c
> volume #1 color #a9a9a90d
> save "/Users/hongwenchen/Desktop/Overall structure.cxs" includeMaps true
——— End of log from Thu Aug 14 16:18:15 2025 ———
opened ChimeraX session
OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M4 Pro
OpenGL vendor: Apple
Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac16,8
Model Number: MX2J3LL/A
Chip: Apple M4 Pro
Total Number of Cores: 14 (10 performance and 4 efficiency)
Memory: 24 GB
System Firmware Version: 11881.140.96
OS Loader Version: 11881.140.96
Software:
System Software Overview:
System Version: macOS 15.6 (24G84)
Kernel Version: Darwin 24.6.0
Time since boot: 7 days, 19 hours, 37 minutes
Graphics/Displays:
Apple M4 Pro:
Chipset Model: Apple M4 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 20
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
HP M27fq QHD:
Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
UI Looks like: 2560 x 1440 @ 60.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
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: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
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: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
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: 1.2.6
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: 1.2.1
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: 2.1.6
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
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
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-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
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: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
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: 1.18.1
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
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: 1.41
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
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
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
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
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
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
prompt_toolkit: 3.0.48
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: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
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: 8.0.2
sphinx-autodoc-typehints: 2.2.3
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: 0.6.3
tables: 3.10.1
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: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
Change History (2)
comment:1 by , 2 months ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Mac wake from sleep crash |
comment:2 by , 2 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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