id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 16359 Crash on Mac waking from sleep helen.duyvesteyn@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-13.6.7-arm64-arm-64bit ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Bus error Current thread 0x00000001de8be100 (most recent call first): File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 315 in event_loop File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1003 in init File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1166 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.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, chimerax.surface._surface, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, psutil._psutil_osx, psutil._psutil_posix, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, PIL._imagingmath, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw (total: 56) {""app_name"":""ChimeraX"",""timestamp"":""2024-11-21 17:29:57.00 +0000"",""app_version"":""1.8.0"",""slice_uuid"":""17982d98-65bc-3327-8526-577ec996453c"",""build_version"":""1.8.0.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":0,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 13.6.7 (22G720)"",""roots_installed"":0,""name"":""ChimeraX"",""incident_id"":""39AA4A83-4710-4EE7-A98A-2E7105C48D99""} { ""uptime"" : 170000, ""procRole"" : ""Background"", ""version"" : 2, ""userID"" : 501, ""deployVersion"" : 210, ""modelCode"" : ""Mac14,9"", ""coalitionID"" : 5506, ""osVersion"" : { ""train"" : ""macOS 13.6.7"", ""build"" : ""22G720"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2024-11-21 17:29:50.6979 +0000"", ""incident"" : ""39AA4A83-4710-4EE7-A98A-2E7105C48D99"", ""pid"" : 58361, ""translated"" : false, ""cpuType"" : ""ARM-64"", ""roots_installed"" : 0, ""bug_type"" : ""309"", ""procLaunch"" : ""2024-11-17 08:04:01.4740 +0000"", ""procStartAbsTime"" : 965478063085, ""procExitAbsTime"" : 4107893712824, ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.8.0"",""CFBundleVersion"":""1.8.0.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""89B6C8C4-930E-5610-9016-F2F4E6C6E053"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""B97F65CB-AB70-2664-1BC6-992D64AA7B45"", ""codeSigningID"" : ""edu.ucsf.cgl.ChimeraX"", ""codeSigningTeamID"" : ""LWV8X224YF"", ""codeSigningFlags"" : 570491649, ""codeSigningValidationCategory"" : 6, ""codeSigningTrustLevel"" : 0, ""wakeTime"" : 1, ""sleepWakeUUID"" : ""C8437E8B-3C7D-4889-B27C-959920D450B7"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x612d65653131 is not in any region. Bytes after previous region: 1292875673906 \n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n MALLOC_NANO (reserved) 600058000000-600060000000 [128.0M] rw-\/rwx SM=NUL ...(unallocated)\n---> \n UNUSED SPACE AT END"", ""exception"" : {""codes"":""0x0000000000000101, 0x3039612d65653131"",""rawCodes"":[257,3474915435095601457],""type"":""EXC_BAD_ACCESS"",""signal"":""SIGBUS"",""subtype"":""UNKNOWN_0x101 at 0x3039612d65653131 -> 0x0000612d65653131 (possible pointer authentication failure)""}, ""termination"" : {""flags"":0,""code"":10,""namespace"":""SIGNAL"",""indicator"":""Bus error: 10"",""byProc"":""ChimeraX"",""byPid"":58361}, ""vmregioninfo"" : ""0x612d65653131 is not in any region. Bytes after previous region: 1292875673906 \n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n MALLOC_NANO (reserved) 600058000000-600060000000 [128.0M] rw-\/rwx SM=NUL ...(unallocated)\n---> \n UNUSED SPACE AT END"", ""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"" : [{""triggered"":true,""id"":783547,""threadState"":{""x"":[{""value"":0},{""value"":0},{""value"":1},{""value"":5369461400},{""value"":99},{""value"":117},{""value"":105553237562144},{""value"":1},{""value"":8463061049357940051},{""value"":8463061046446740563},{""value"":14757395258967641293},{""value"":4294967286},{""value"":5369461330},{""value"":0},{""value"":53},{""value"":4294967280},{""value"":328},{""value"":8107719160},{""value"":0},{""value"":10},{""value"":8028676352,""symbolLocation"":0,""symbol"":""_main_thread""},{""value"":259},{""value"":8028676576,""symbolLocation"":224,""symbol"":""_main_thread""},{""value"":1},{""value"":4388242992,""symbolLocation"":0,""symbol"":""faulthandler_handlers""},{""value"":7986495488,""symbolLocation"":0,""symbol"":""OBJC_IVAR_$__NSSliderCellDataDrivenMetrics._state""},{""value"":7986495488,""symbolLocation"":0,""symbol"":""OBJC_IVAR_$__NSSliderCellDataDrivenMetrics._state""},{""value"":5},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6494256168},""cpsr"":{""value"":1073745920},""fp"":{""value"":5369461472},""sp"":{""value"":5369461440},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6494029572,""matchesCrashFrame"":1},""far"":{""value"":0}},""name"":""CrBrowserMain"",""queue"":""com.apple.main-thread"",""frames"":[{""imageOffset"":38660,""symbol"":""__pthread_kill"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":27688,""symbol"":""pthread_kill"",""symbolLocation"":288,""imageIndex"":151},{""imageOffset"":259180,""symbol"":""raise"",""symbolLocation"":32,""imageIndex"":152},{""imageOffset"":2417160,""symbol"":""faulthandler_fatal_error"",""symbolLocation"":392,""imageIndex"":1},{""imageOffset"":14884,""symbol"":""_sigtramp"",""symbolLocation"":56,""imageIndex"":153},{""imageOffset"":343344,""imageIndex"":69},{""imageOffset"":343184,""imageIndex"":69},{""imageOffset"":379620,""symbol"":""_NSViewHierarchyDidChangeBackingProperties"",""symbolLocation"":244,""imageIndex"":154},{""imageOffset"":8459524,""symbol"":""-[NSWindow _postWindowDidChangeBackingPropertiesAndDisplayWindowForPreviousBackingScaleFactor:previousColorSpace:]"",""symbolLocation"":192,""imageIndex"":154},{""imageOffset"":2099076,""symbol"":""__67-[NSWindow _updateSettingsSendingScreenChangeNotificationToScreen:]_block_invoke"",""symbolLocation"":448,""imageIndex"":154},{""imageOffset"":510620,""symbol"":""NSPerformVisuallyAtomicChange"",""symbolLocation"":108,""imageIndex"":154},{""imageOffset"":2098616,""symbol"":""-[NSWindow _updateSettingsSendingScreenChangeNotificationToScreen:]"",""symbolLocation"":96,""imageIndex"":154},{""imageOffset"":515964,""symbol"":""-[NSWindow _setFrameCommon:display:fromServer:]"",""symbolLocation"":1856,""imageIndex"":154},{""imageOffset"":8434184,""symbol"":""-[NSWindow(NSScreenLayout) _setFrame:fromAdjustmentToScreen:anchorIfNeeded:animate:]"",""symbolLocation"":576,""imageIndex"":154},{""imageOffset"":3283184,""symbol"":""-[NSWindow _adjustWindowToScreen]"",""symbolLocation"":1100,""imageIndex"":154},{""imageOffset"":3412432,""symbol"":""-[NSWindow _displayChangedSoAdjustWindows:]"",""symbolLocation"":100,""imageIndex"":154},{""imageOffset"":11200672,""symbol"":""___NSApplicationPerformScreenInvalidationReactions_block_invoke"",""symbolLocation"":72,""imageIndex"":154},{""imageOffset"":214864,""symbol"":""-[NSApplication enumerateWindowsWithOptions:usingBlock:]"",""symbolLocation"":236,""imageIndex"":154},{""imageOffset"":11199412,""symbol"":""___NSApplicationReactToScreenInvalidation_block_invoke"",""symbolLocation"":848,""imageIndex"":154},{""imageOffset"":11197812,""symbol"":""_NSApplicationReactToScreenInvalidation"",""symbolLocation"":292,""imageIndex"":154},{""imageOffset"":11198284,""symbol"":""-[NSApplication(ScreenHandling) _reactToDisplayChanges:]"",""symbolLocation"":372,""imageIndex"":154},{""imageOffset"":6681856,""symbol"":""_NSCGSDisplayConfigurationUpdateAndInvokeObservers"",""symbolLocation"":416,""imageIndex"":154},{""imageOffset"":6682760,""symbol"":""_NSCGSDisplayConfigurationDidReconfigureNotificationHandler"",""symbolLocation"":308,""imageIndex"":154},{""imageOffset"":46908,""symbol"":""(anonymous namespace)::notify_datagram_handler(unsigned int, CGSDatagramType, void*, unsigned long, void*)"",""symbolLocation"":888,""imageIndex"":155},{""imageOffset"":3465928,""symbol"":""CGSDatagramReadStream::dispatchMainQueueDatagrams()"",""symbolLocation"":228,""imageIndex"":155},{""imageOffset"":3465668,""symbol"":""invocation function for block in CGSDatagramReadStream::mainQueueWakeup()"",""symbolLocation"":28,""imageIndex"":155},{""imageOffset"":10356,""symbol"":""_dispatch_call_block_and_release"",""symbolLocation"":32,""imageIndex"":156},{""imageOffset"":17408,""symbol"":""_dispatch_client_callout"",""symbolLocation"":20,""imageIndex"":156},{""imageOffset"":76792,""symbol"":""_dispatch_main_queue_drain"",""symbolLocation"":928,""imageIndex"":156},{""imageOffset"":75848,""symbol"":""_dispatch_main_queue_callback_4CF"",""symbolLocation"":44,""imageIndex"":156},{""imageOffset"":789380,""symbol"":""__CFRUNLOOP_IS_SERVICING_THE_MAIN_DISPATCH_QUEUE__"",""symbolLocation"":16,""imageIndex"":157},{""imageOffset"":516868,""symbol"":""__CFRunLoopRun"",""symbolLocation"":1992,""imageIndex"":157},{""imageOffset"":513000,""symbol"":""CFRunLoopRunSpecific"",""symbolLocation"":612,""imageIndex"":157},{""imageOffset"":200176,""symbol"":""RunCurrentEventLoopInMode"",""symbolLocation"":292,""imageIndex"":158},{""imageOffset"":199724,""symbol"":""ReceiveNextEventCommon"",""symbolLocation"":648,""imageIndex"":158},{""imageOffset"":199044,""symbol"":""_BlockUntilNextEventMatchingListInModeWithFilter"",""symbolLocation"":76,""imageIndex"":158},{""imageOffset"":233780,""symbol"":""_DPSNextEvent"",""symbolLocation"":636,""imageIndex"":154},{""imageOffset"":230096,""symbol"":""-[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:]"",""symbolLocation"":716,""imageIndex"":154},{""imageOffset"":182068,""symbol"":""-[NSApplication run]"",""symbolLocation"":464,""imageIndex"":154},{""imageOffset"":81772,""imageIndex"":69},{""imageOffset"":573772,""symbol"":""QEventLoop::exec(QFlags)"",""symbolLocation"":540,""imageIndex"":45},{""imageOffset"":535260,""symbol"":""QCoreApplication::exec()"",""symbolLocation"":112,""imageIndex"":45},{""imageOffset"":2507676,""symbol"":""meth_QApplication_exec(_object*, _object*)"",""symbolLocation"":96,""imageIndex"":48},{""imageOffset"":1004504,""symbol"":""cfunction_call"",""symbolLocation"":96,""imageIndex"":1},{""imageOffset"":594156,""symbol"":""_PyObject_MakeTpCall"",""symbolLocation"":128,""imageIndex"":1},{""imageOffset"":1789244,""symbol"":""_PyEval_EvalFrameDefault"",""symbolLocation"":54984,""imageIndex"":1},{""imageOffset"":1729512,""symbol"":""PyEval_EvalCode"",""symbolLocation"":276,""imageIndex"":1},{""imageOffset"":1707120,""symbol"":""builtin_exec"",""symbolLocation"":428,""imageIndex"":1},{""imageOffset"":1007044,""symbol"":""cfunction_vectorcall_FASTCALL_KEYWORDS"",""symbolLocation"":80,""imageIndex"":1},{""imageOffset"":1788292,""symbol"":""_PyEval_EvalFrameDefault"",""symbolLocation"":54032,""imageIndex"":1},{""imageOffset"":1811404,""symbol"":""_PyEval_Vector"",""symbolLocation"":156,""imageIndex"":1},{""imageOffset"":2389028,""symbol"":""pymain_run_module"",""symbolLocation"":256,""imageIndex"":1},{""imageOffset"":2387652,""symbol"":""Py_RunMain"",""symbolLocation"":1784,""imageIndex"":1},{""imageOffset"":2392180,""symbol"":""pymain_main"",""symbolLocation"":52,""imageIndex"":1},{""imageOffset"":2392116,""symbol"":""Py_Main"",""symbolLocation"":36,""imageIndex"":1},{""imageOffset"":15700,""symbol"":""main"",""symbolLocation"":128,""imageIndex"":0},{""imageOffset"":24360,""symbol"":""start"",""symbolLocation"":2236,""imageIndex"":159}]},{""id"":783574,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783575,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783576,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783577,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783578,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783579,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783580,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783581,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783582,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783583,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783584,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":1502040,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":19},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783697,""name"":""ThreadPoolServiceThread"",""frames"":[{""imageOffset"":52680,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":66705848,""imageIndex"":56},{""imageOffset"":66705328,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66384288,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783698,""name"":""ThreadPoolForegroundWorker"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66429892,""imageIndex"":56},{""imageOffset"":66433464,""imageIndex"":56},{""imageOffset"":66432016,""imageIndex"":56},{""imageOffset"":66431744,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783699,""name"":""ThreadPoolBackgroundWorker"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66429892,""imageIndex"":56},{""imageOffset"":66433464,""imageIndex"":56},{""imageOffset"":66431884,""imageIndex"":56},{""imageOffset"":66431792,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783700,""name"":""Chrome_IOThread"",""frames"":[{""imageOffset"":52680,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":66705848,""imageIndex"":56},{""imageOffset"":66705328,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":42148336,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783701,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66197084,""imageIndex"":56},{""imageOffset"":65870644,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783705,""name"":""Chrome_InProcGpuThread"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66197084,""imageIndex"":56},{""imageOffset"":65870644,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783706,""name"":""Chrome_ChildIOThread"",""frames"":[{""imageOffset"":52680,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":66705848,""imageIndex"":56},{""imageOffset"":66705328,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":107949588,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783707,""name"":""CompositorTileWorker1"",""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":66586532,""imageIndex"":56},{""imageOffset"":99447652,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783709,""name"":""ThreadPoolSingleThreadSharedForeground0"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66429892,""imageIndex"":56},{""imageOffset"":66432404,""imageIndex"":56},{""imageOffset"":66432060,""imageIndex"":56},{""imageOffset"":66431816,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783713,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66197084,""imageIndex"":56},{""imageOffset"":65870644,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783714,""name"":""VizCompositorThread"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":65870544,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783727,""name"":""NetworkService"",""frames"":[{""imageOffset"":52680,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":66705848,""imageIndex"":56},{""imageOffset"":66705328,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783728,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66197084,""imageIndex"":56},{""imageOffset"":65870644,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783730,""name"":""ThreadPoolSingleThreadForegroundBlocking1"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66429892,""imageIndex"":56},{""imageOffset"":66433464,""imageIndex"":56},{""imageOffset"":66432104,""imageIndex"":56},{""imageOffset"":66431804,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783753,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66197084,""imageIndex"":56},{""imageOffset"":65870644,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783775,""name"":""com.apple.NSEventThread"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":522004,""symbol"":""__CFRunLoopServiceMachPort"",""symbolLocation"":160,""imageIndex"":157},{""imageOffset"":516084,""symbol"":""__CFRunLoopRun"",""symbolLocation"":1208,""imageIndex"":157},{""imageOffset"":513000,""symbol"":""CFRunLoopRunSpecific"",""symbolLocation"":612,""imageIndex"":157},{""imageOffset"":1456064,""symbol"":""_NSEventThread"",""symbolLocation"":172,""imageIndex"":154},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783781,""name"":""MemoryInfra"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66197084,""imageIndex"":56},{""imageOffset"":65870644,""imageIndex"":56},{""imageOffset"":66336288,""imageIndex"":56},{""imageOffset"":66064512,""imageIndex"":56},{""imageOffset"":66483648,""imageIndex"":56},{""imageOffset"":66484032,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783782,""name"":""ThreadPoolSingleThreadSharedBackgroundBlocking2"",""frames"":[{""imageOffset"":3828,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":78368,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":150},{""imageOffset"":39768,""symbol"":""mach_msg_overwrite"",""symbolLocation"":604,""imageIndex"":150},{""imageOffset"":4720,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":150},{""imageOffset"":66741424,""imageIndex"":56},{""imageOffset"":66197236,""imageIndex"":56},{""imageOffset"":66429892,""imageIndex"":56},{""imageOffset"":66432404,""imageIndex"":56},{""imageOffset"":66431928,""imageIndex"":56},{""imageOffset"":66431840,""imageIndex"":56},{""imageOffset"":66589352,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783817,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783818,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783819,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783820,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783821,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783822,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783823,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783824,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783825,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783826,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783827,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":783828,""frames"":[{""imageOffset"":18160,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":150},{""imageOffset"":30068,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1232,""imageIndex"":151},{""imageOffset"":77552,""symbol"":""std::__1::condition_variable::wait(std::__1::unique_lock&)"",""symbolLocation"":28,""imageIndex"":160},{""imageOffset"":95156600,""imageIndex"":56},{""imageOffset"":95160968,""imageIndex"":56},{""imageOffset"":28584,""symbol"":""_pthread_start"",""symbolLocation"":148,""imageIndex"":151},{""imageOffset"":7584,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":151}]},{""id"":4075684,""frames"":[{""imageOffset"":7564,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":151}]},{""id"":4107519,""frames"":[{""imageOffset"":7564,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":151}]},{""id"":4107520,""frames"":[{""imageOffset"":7564,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":151}]},{""id"":4122421,""frames"":[{""imageOffset"":7564,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":151}]},{""id"":4122422,""frames"":[{""imageOffset"":7564,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":151}]},{""id"":4181752,""frames"":[{""imageOffset"":7564,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":151}]}], ""usedImages"" : [ { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4369367040, ""CFBundleShortVersionString"" : ""1.8.0"", ""CFBundleIdentifier"" : ""edu.ucsf.cgl.ChimeraX"", ""size"" : 16384, ""uuid"" : ""17982d98-65bc-3327-8526-577ec996453c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX"", ""name"" : ""ChimeraX"", ""CFBundleVersion"" : ""1.8.0.0"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4383965184, ""CFBundleShortVersionString"" : ""3.11.4, (c) 2001-2023 Python Software Foundation."", ""CFBundleIdentifier"" : ""org.python.python"", ""size"" : 3948544, ""uuid"" : ""88bffd37-99d8-36ab-9b95-9f54b30bd667"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/Python"", ""name"" : ""Python"", ""CFBundleVersion"" : ""3.11.4"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4372496384, ""size"" : 49152, ""uuid"" : ""51d31d0d-1dcc-31ad-b6c1-73d57e544a3a"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/math.cpython-311-darwin.so"", ""name"" : ""math.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4372234240, ""size"" : 81920, ""uuid"" : ""3b2e1e73-f5e1-3fa3-80b3-e46009060893"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_datetime.cpython-311-darwin.so"", ""name"" : ""_datetime.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4372414464, ""size"" : 16384, ""uuid"" : ""39aa96c6-b691-3e20-9540-292b9dd1c861"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_typing.cpython-311-darwin.so"", ""name"" : ""_typing.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4374953984, ""size"" : 32768, ""uuid"" : ""65172ede-2b95-337d-970f-ed6c4a217cb1"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/zlib.cpython-311-darwin.so"", ""name"" : ""zlib.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376117248, ""size"" : 16384, ""uuid"" : ""dc7a591b-ef8a-3b77-9396-ecee27303fdb"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_bz2.cpython-311-darwin.so"", ""name"" : ""_bz2.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376788992, ""size"" : 196608, ""uuid"" : ""a4b86716-73ef-3046-b7ee-1d069dfd7cd0"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_lzma.cpython-311-darwin.so"", ""name"" : ""_lzma.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376199168, ""size"" : 16384, ""uuid"" : ""a97f3cfd-a5a7-3ce2-9eb6-5ebc0943bd1d"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_bisect.cpython-311-darwin.so"", ""name"" : ""_bisect.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376281088, ""size"" : 16384, ""uuid"" : ""1eab426b-5d06-3a22-b7b5-6dbc112704d6"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_random.cpython-311-darwin.so"", ""name"" : ""_random.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376363008, ""size"" : 16384, ""uuid"" : ""487467f0-5417-397f-8fb9-43ce116abec8"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_sha512.cpython-311-darwin.so"", ""name"" : ""_sha512.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376444928, ""size"" : 32768, ""uuid"" : ""c4b2ad90-cc7d-3780-bee9-9f1dbc2aa560"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/binascii.cpython-311-darwin.so"", ""name"" : ""binascii.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376543232, ""size"" : 32768, ""uuid"" : ""167d8231-8346-37b6-9d67-149a1fe3df21"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_struct.cpython-311-darwin.so"", ""name"" : ""_struct.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4376657920, ""size"" : 16384, ""uuid"" : ""9e9f3dfb-1383-3420-bfcf-d996842d8e9e"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/fcntl.cpython-311-darwin.so"", ""name"" : ""fcntl.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4377083904, ""size"" : 16384, ""uuid"" : ""d685528c-5d21-3c1a-b720-81f8ba0b399a"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_posixsubprocess.cpython-311-darwin.so"", ""name"" : ""_posixsubprocess.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4377165824, ""size"" : 32768, ""uuid"" : ""d25f2f2d-a87d-3870-ad6a-3d977d50c9ca"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/select.cpython-311-darwin.so"", ""name"" : ""select.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4378312704, ""size"" : 16384, ""uuid"" : ""6fbbcdd9-e49c-3a59-9ff0-32d41317e11c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/arrays\/_arrays.cpython-311-darwin.so"", ""name"" : ""_arrays.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4380360704, ""size"" : 458752, ""uuid"" : ""3ef7d30f-bd93-3167-a91a-3f0a3f161d1b"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/arrays\/lib\/libarrays.dylib"", ""name"" : ""libarrays.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4400087040, ""size"" : 2670592, ""uuid"" : ""744b099b-9156-3efd-95ee-949f9bec068e"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/core\/_multiarray_umath.cpython-311-darwin.so"", ""name"" : ""_multiarray_umath.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4496097280, ""size"" : 21299200, ""uuid"" : ""9854a721-2573-3169-81ec-19ea40ce8077"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libopenblas64_.0.dylib"", ""name"" : ""libopenblas64_.0.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4391305216, ""size"" : 3522560, ""uuid"" : ""dd0e012a-b6de-31b1-a28e-260c7b51e595"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libgfortran.5.dylib"", ""name"" : ""libgfortran.5.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4380999680, ""size"" : 311296, ""uuid"" : ""6d39d54b-d80e-3218-a095-b81ad0b3be90"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libquadmath.0.dylib"", ""name"" : ""libquadmath.0.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4374724608, ""size"" : 65536, ""uuid"" : ""d9875303-8f38-33d9-a0d3-ab0adff3b915"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libgcc_s.1.1.dylib"", ""name"" : ""libgcc_s.1.1.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4379836416, ""size"" : 98304, ""uuid"" : ""ad5b1457-a682-3233-ac84-0f75b349239d"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_pickle.cpython-311-darwin.so"", ""name"" : ""_pickle.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4374872064, ""size"" : 16384, ""uuid"" : ""c1a0a0c0-1986-3338-a63d-eb396e783c91"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_contextvars.cpython-311-darwin.so"", ""name"" : ""_contextvars.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4380016640, ""size"" : 65536, ""uuid"" : ""340d4f4e-8cd4-3e24-9215-eb9235031bd3"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/core\/_multiarray_tests.cpython-311-darwin.so"", ""name"" : ""_multiarray_tests.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4380164096, ""size"" : 81920, ""uuid"" : ""6c214dd2-6044-3285-949b-8d8ba72ca17b"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_ctypes.cpython-311-darwin.so"", ""name"" : ""_ctypes.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4379443200, ""size"" : 98304, ""uuid"" : ""09f94631-f551-3559-ba88-aff49917d8fe"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/linalg\/_umath_linalg.cpython-311-darwin.so"", ""name"" : ""_umath_linalg.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4379623424, ""size"" : 65536, ""uuid"" : ""7b5335ce-92a1-3ae2-bde0-0e5d5641b2c9"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/fft\/_pocketfft_internal.cpython-311-darwin.so"", ""name"" : ""_pocketfft_internal.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4397613056, ""size"" : 622592, ""uuid"" : ""05ddaab9-9d7f-3317-a3c4-5e9936fe3ceb"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/mtrand.cpython-311-darwin.so"", ""name"" : ""mtrand.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4396089344, ""size"" : 147456, ""uuid"" : ""377e255e-f9a4-3173-8265-a899000c5d0f"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/bit_generator.cpython-311-darwin.so"", ""name"" : ""bit_generator.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4383473664, ""size"" : 196608, ""uuid"" : ""8590d52a-d755-3ffd-8f68-f9cb638359fc"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_common.cpython-311-darwin.so"", ""name"" : ""_common.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4383752192, ""size"" : 32768, ""uuid"" : ""322b4be7-35a8-331a-a549-7a0297d9dd70"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_hashlib.cpython-311-darwin.so"", ""name"" : ""_hashlib.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4475748352, ""size"" : 1687552, ""uuid"" : ""59149ee6-b873-3c5d-8fed-d11966210295"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/libcrypto.1.1.dylib"", ""name"" : ""libcrypto.1.1.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4383866880, ""size"" : 32768, ""uuid"" : ""3206e248-2c9b-345c-98ac-8f9dfc6d639b"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_blake2.cpython-311-darwin.so"", ""name"" : ""_blake2.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4397170688, ""size"" : 311296, ""uuid"" : ""0033ea49-a161-3564-b09e-6a6c3b902698"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_bounded_integers.cpython-311-darwin.so"", ""name"" : ""_bounded_integers.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4396630016, ""size"" : 65536, ""uuid"" : ""7dab4595-a351-3061-861b-c426baee85b3"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_mt19937.cpython-311-darwin.so"", ""name"" : ""_mt19937.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4396777472, ""size"" : 65536, ""uuid"" : ""d3035eea-ed0e-398a-afbe-f9a8016701db"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_philox.cpython-311-darwin.so"", ""name"" : ""_philox.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4396318720, ""size"" : 81920, ""uuid"" : ""35fb9307-f991-3159-86db-21f6c67b9198"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_pcg64.cpython-311-darwin.so"", ""name"" : ""_pcg64.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4396482560, ""size"" : 49152, ""uuid"" : ""17a4344b-3221-36c4-9019-53cc1223e124"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_sfc64.cpython-311-darwin.so"", ""name"" : ""_sfc64.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4398350336, ""size"" : 737280, ""uuid"" : ""49451e8a-e3c8-3429-83d8-249e81e378cd"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_generator.cpython-311-darwin.so"", ""name"" : ""_generator.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4379754496, ""size"" : 16384, ""uuid"" : ""5973ec29-8c62-3285-97ee-5797aef28b1c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_opcode.cpython-311-darwin.so"", ""name"" : ""_opcode.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4396924928, ""size"" : 114688, ""uuid"" : ""229d2556-e1e0-3432-9458-1636804585a5"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/geometry\/_geometry.cpython-311-darwin.so"", ""name"" : ""_geometry.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4399398912, ""size"" : 32768, ""uuid"" : ""0722922a-a378-3dee-b11b-96d1ae381b09"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_json.cpython-311-darwin.so"", ""name"" : ""_json.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4485578752, ""size"" : 1769472, ""uuid"" : ""80f789cb-18ee-3995-a59b-03dc33158c84"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtCore.abi3.so"", ""name"" : ""QtCore.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4478074880, ""size"" : 4849664, ""uuid"" : ""113c92ac-6022-34c0-8532-0a96c67af294"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtCore.framework\/Versions\/A\/QtCore"", ""name"" : ""QtCore"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 4399759360, ""CFBundleShortVersionString"" : ""3.0"", ""CFBundleIdentifier"" : ""com.apple.security.csparser"", ""size"" : 131072, ""uuid"" : ""abed212e-e2e6-390b-988a-e61519c41581"", ""path"" : ""\/System\/Library\/Frameworks\/Security.framework\/Versions\/A\/PlugIns\/csparser.bundle\/Contents\/MacOS\/csparser"", ""name"" : ""csparser"", ""CFBundleVersion"" : ""60420.140.26.702.2"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4475273216, ""size"" : 81920, ""uuid"" : ""b6b22843-cb0a-3d00-952e-37e8808d2ee8"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/sip.cpython-311-darwin.so"", ""name"" : ""sip.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4489347072, ""size"" : 3112960, ""uuid"" : ""ee8cff87-6a5d-38d1-8403-031c9916b0fb"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWidgets.abi3.so"", ""name"" : ""QtWidgets.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4824498176, ""size"" : 4554752, ""uuid"" : ""3f78f0e3-d0d9-3375-a27c-2906014b5fe2"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWidgets.framework\/Versions\/A\/QtWidgets"", ""name"" : ""QtWidgets"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5055315968, ""size"" : 6537216, ""uuid"" : ""e1e85506-35dd-32b9-b614-7f3179359271"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtGui.framework\/Versions\/A\/QtGui"", ""name"" : ""QtGui"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4821434368, ""size"" : 507904, ""uuid"" : ""7a365b1d-ddab-3dec-80b0-d21186597d32"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtDBus.framework\/Versions\/A\/QtDBus"", ""name"" : ""QtDBus"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5045600256, ""size"" : 1572864, ""uuid"" : ""c8d7e625-2a13-3c34-9dff-b6656a6f86e7"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtGui.abi3.so"", ""name"" : ""QtGui.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4474961920, ""size"" : 65536, ""uuid"" : ""e159845d-c85f-317e-a1d0-225a578b8d24"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWebEngineWidgets.abi3.so"", ""name"" : ""QtWebEngineWidgets.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4475469824, ""size"" : 98304, ""uuid"" : ""16db4b50-36fd-3e6b-a27f-a1c2f3f65a0e"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWebEngineWidgets.framework\/Versions\/A\/QtWebEngineWidgets"", ""name"" : ""QtWebEngineWidgets"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5038981120, ""size"" : 278528, ""uuid"" : ""69a381be-74c3-3943-839e-c2710e3b1221"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtPrintSupport.framework\/Versions\/A\/QtPrintSupport"", ""name"" : ""QtPrintSupport"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5771362304, ""size"" : 165756928, ""uuid"" : ""72eb72da-af14-3e6d-a878-889044e69fe6"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWebEngineCore.framework\/Versions\/A\/QtWebEngineCore"", ""name"" : ""QtWebEngineCore"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5048926208, ""size"" : 3899392, ""uuid"" : ""cd78ea4b-fdea-35f8-9425-2acf80e29b96"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQuick.framework\/Versions\/A\/QtQuick"", ""name"" : ""QtQuick"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5043879936, ""size"" : 409600, ""uuid"" : ""69fc8b0b-b6a0-3e08-8bac-584a6a3a93b0"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtOpenGL.framework\/Versions\/A\/QtOpenGL"", ""name"" : ""QtOpenGL"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5042601984, ""size"" : 540672, ""uuid"" : ""054ea112-953a-32d0-a58f-bc186ae37747"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQmlModels.framework\/Versions\/A\/QtQmlModels"", ""name"" : ""QtQmlModels"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4495704064, ""size"" : 163840, ""uuid"" : ""bcc67564-cc1c-3017-b5f1-0b6e1b0e993c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWebChannel.framework\/Versions\/A\/QtWebChannel"", ""name"" : ""QtWebChannel"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5072928768, ""size"" : 3833856, ""uuid"" : ""432c2bd3-2e4c-3089-b092-df3547feaafd"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQml.framework\/Versions\/A\/QtQml"", ""name"" : ""QtQml"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5066096640, ""size"" : 1081344, ""uuid"" : ""fed592df-e45a-3887-b02f-65e20ff51c4b"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtNetwork.framework\/Versions\/A\/QtNetwork"", ""name"" : ""QtNetwork"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5044502528, ""size"" : 442368, ""uuid"" : ""a02974a0-e1a7-316f-8e3b-ae2e03dc4433"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtPositioning.framework\/Versions\/A\/QtPositioning"", ""name"" : ""QtPositioning"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4485382144, ""size"" : 81920, ""uuid"" : ""55f5d063-f2ad-361c-ad8d-afc759bfeec1"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQuickWidgets.framework\/Versions\/A\/QtQuickWidgets"", ""name"" : ""QtQuickWidgets"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5067538432, ""size"" : 491520, ""uuid"" : ""07f8ba95-385f-3636-aaf1-1cee596fe424"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtNetwork.abi3.so"", ""name"" : ""QtNetwork.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5043339264, ""size"" : 163840, ""uuid"" : ""88b20f5e-7cfd-31bb-ac2c-68580822b362"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtPrintSupport.abi3.so"", ""name"" : ""QtPrintSupport.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 4495966208, ""size"" : 32768, ""uuid"" : ""a169d745-309d-33d5-a2e6-e7c4e96708be"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWebChannel.abi3.so"", ""name"" : ""QtWebChannel.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5054349312, ""size"" : 229376, ""uuid"" : ""5b3816f5-31a1-3950-9b9a-77d1f921188c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWebEngineCore.abi3.so"", ""name"" : ""QtWebEngineCore.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5064966144, ""size"" : 638976, ""uuid"" : ""68fd5eb3-4cdf-3190-8b80-e5378d6b4c9d"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/platforms\/libqcocoa.dylib"", ""name"" : ""libqcocoa.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 5070176256, ""CFBundleShortVersionString"" : ""1.0"", ""CFBundleIdentifier"" : ""com.apple.AppleMetalOpenGLRenderer"", ""size"" : 442368, ""uuid"" : ""f7afa15d-51d8-3351-8830-475ee922d329"", ""path"" : ""\/System\/Library\/Extensions\/AppleMetalOpenGLRenderer.bundle\/Contents\/MacOS\/AppleMetalOpenGLRenderer"", ""name"" : ""AppleMetalOpenGLRenderer"", ""CFBundleVersion"" : ""1"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5064622080, ""size"" : 147456, ""uuid"" : ""240cb694-5652-380e-a13f-72e024b43ffc"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/styles\/libqmacstyle.dylib"", ""name"" : ""libqmacstyle.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5072535552, ""size"" : 163840, ""uuid"" : ""78ab6dee-103a-31de-bb4e-ea5e9b694cb0"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/pyexpat.cpython-311-darwin.so"", ""name"" : ""pyexpat.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5063360512, ""size"" : 65536, ""uuid"" : ""ff7c6b72-2303-3d40-a4fa-f3d840425be2"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_socket.cpython-311-darwin.so"", ""name"" : ""_socket.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5065867264, ""size"" : 49152, ""uuid"" : ""0895ead1-fff8-3401-9c5c-5c4254ce969b"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/array.cpython-311-darwin.so"", ""name"" : ""array.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5064884224, ""size"" : 16384, ""uuid"" : ""157e3710-caca-35b5-9fda-d1c4efc75429"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_heapq.cpython-311-darwin.so"", ""name"" : ""_heapq.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5065998336, ""size"" : 16384, ""uuid"" : ""b3287e1f-ce2c-3c6f-bc12-deb15c14593c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_queue.cpython-311-darwin.so"", ""name"" : ""_queue.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5099667456, ""size"" : 98304, ""uuid"" : ""5c15959b-b36d-32f8-80b0-b0558dbb9fcc"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_ssl.cpython-311-darwin.so"", ""name"" : ""_ssl.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5071962112, ""size"" : 344064, ""uuid"" : ""edcc52bf-058b-3550-8a40-7e432a5ee6bb"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/libssl.1.1.dylib"", ""name"" : ""libssl.1.1.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5070815232, ""size"" : 16384, ""uuid"" : ""cd5f3f7c-54a3-322d-a180-6c7b94deed82"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_scproxy.cpython-311-darwin.so"", ""name"" : ""_scproxy.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5072814080, ""size"" : 16384, ""uuid"" : ""ecf905dd-b03f-3e39-a475-0f3103f3e6d3"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/grp.cpython-311-darwin.so"", ""name"" : ""grp.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5100093440, ""size"" : 32768, ""uuid"" : ""d197680c-26b9-3292-85bc-f61af0ff34bb"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_csv.cpython-311-darwin.so"", ""name"" : ""_csv.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5100191744, ""size"" : 16384, ""uuid"" : ""0d834156-6229-3383-833b-5e4dbda14b77"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/_load_libs.cpython-311-darwin.so"", ""name"" : ""_load_libs.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5264900096, ""size"" : 1114112, ""uuid"" : ""fd7b00a2-d609-31e8-8ce3-7c101acdcbbe"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/lib\/libatomstruct.dylib"", ""name"" : ""libatomstruct.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5099896832, ""size"" : 32768, ""uuid"" : ""3db66b4e-c7b2-34b6-ae7b-bb92d644ccb7"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/lib\/libelement.dylib"", ""name"" : ""libelement.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5236097024, ""size"" : 16384, ""uuid"" : ""5f3c3a7c-ae17-3758-b5c7-5e9a0d0a4a39"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/lib\/libpyinstance.dylib"", ""name"" : ""libpyinstance.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5254594560, ""size"" : 180224, ""uuid"" : ""106fe191-9c12-3ced-bb2f-fa38a412daf1"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/libmolc.dylib"", ""name"" : ""libmolc.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5284823040, ""size"" : 425984, ""uuid"" : ""de33f8cb-88d5-3371-851a-e5de0f9689c2"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/cymol.cpython-311-darwin.so"", ""name"" : ""cymol.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5236178944, ""size"" : 98304, ""uuid"" : ""12f930bf-d331-3ae7-88cb-fbf14c2f66f7"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/tinyarray.cpython-311-darwin.so"", ""name"" : ""tinyarray.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5235933184, ""size"" : 49152, ""uuid"" : ""fe5b0329-3d3a-3bfa-a7e9-e6c0e583311e"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/cytmpl.cpython-311-darwin.so"", ""name"" : ""cytmpl.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5290508288, ""size"" : 409600, ""uuid"" : ""358a0dd4-0955-30b7-a45c-561026d32a66"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/map\/_map.cpython-311-darwin.so"", ""name"" : ""_map.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5255036928, ""size"" : 16384, ""uuid"" : ""89141903-d9ce-369c-b76f-2f794585b0e3"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/charset_normalizer\/md.cpython-311-darwin.so"", ""name"" : ""md.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5255118848, ""size"" : 147456, ""uuid"" : ""3a5bf6ce-7cc0-327a-8ff1-52f7adac24a4"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/charset_normalizer\/md__mypyc.cpython-311-darwin.so"", ""name"" : ""md__mypyc.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5314478080, ""size"" : 1114112, ""uuid"" : ""5200c6a0-ccdb-3607-9947-1defdd6fb647"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/unicodedata.cpython-311-darwin.so"", ""name"" : ""unicodedata.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5236424704, ""size"" : 32768, ""uuid"" : ""7503f11a-978c-3a80-b5da-ab207a441c5e"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_multibytecodec.cpython-311-darwin.so"", ""name"" : ""_multibytecodec.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5255380992, ""size"" : 16384, ""uuid"" : ""8eb0c267-c007-3e24-9604-1f0a78868795"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_uuid.cpython-311-darwin.so"", ""name"" : ""_uuid.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5290065920, ""size"" : 262144, ""uuid"" : ""f2c706bd-a2c4-39ce-b4c0-048c01ea0eca"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_decimal.cpython-311-darwin.so"", ""name"" : ""_decimal.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5335154688, ""size"" : 376832, ""uuid"" : ""be0ff669-9570-3fbc-b643-583c25c53bcc"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/_imaging.cpython-311-darwin.so"", ""name"" : ""_imaging.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5335711744, ""size"" : 688128, ""uuid"" : ""15feb07e-8bff-3562-a02a-8cf33732e6df"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libtiff.6.dylib"", ""name"" : ""libtiff.6.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5336530944, ""size"" : 524288, ""uuid"" : ""f077add4-3b80-3e03-9f5d-d46370a8594f"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libjpeg.62.4.0.dylib"", ""name"" : ""libjpeg.62.4.0.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5337169920, ""size"" : 606208, ""uuid"" : ""78bac0b1-a0df-3e6e-b906-cbc961cdb354"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libopenjp2.2.5.2.dylib"", ""name"" : ""libopenjp2.2.5.2.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5267718144, ""size"" : 114688, ""uuid"" : ""aa2246c4-3418-31d6-b63c-b12523be454f"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libz.1.3.1.dylib"", ""name"" : ""libz.1.3.1.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5285494784, ""size"" : 163840, ""uuid"" : ""72b5dc2b-0af5-32a5-8a55-1a0cc0dd14e0"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libxcb.1.dylib"", ""name"" : ""libxcb.1.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5317394432, ""size"" : 262144, ""uuid"" : ""8a87fb4d-f743-3c9e-bee7-721b8d2f34ac"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/liblzma.5.dylib"", ""name"" : ""liblzma.5.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5267898368, ""size"" : 16384, ""uuid"" : ""55c39336-6291-32f1-a957-7d880570affd"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libXau.6.0.0.dylib"", ""name"" : ""libXau.6.0.0.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5285789696, ""size"" : 16384, ""uuid"" : ""10cb0192-6e54-3232-ba83-11bac176e9df"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/termios.cpython-311-darwin.so"", ""name"" : ""termios.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5314347008, ""size"" : 16384, ""uuid"" : ""fdd4ed4b-946d-3635-b962-de82abc3462a"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/_c_internal_utils.cpython-311-darwin.so"", ""name"" : ""_c_internal_utils.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5317132288, ""size"" : 114688, ""uuid"" : ""f78c05df-89c8-38d5-90fa-ae102328b198"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/_path.cpython-311-darwin.so"", ""name"" : ""_path.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5348409344, ""size"" : 589824, ""uuid"" : ""d33db4fb-c546-3a3f-af92-06b3acf9a005"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/ft2font.cpython-311-darwin.so"", ""name"" : ""ft2font.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5316722688, ""size"" : 114688, ""uuid"" : ""7d718d62-a2e1-318a-8f9d-9b2ac2293986"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/kiwisolver\/_cext.cpython-311-darwin.so"", ""name"" : ""_cext.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5318180864, ""size"" : 114688, ""uuid"" : ""5d45ac62-e87c-31ae-9f9a-8bdc101f61d2"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/_image.cpython-311-darwin.so"", ""name"" : ""_image.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5314183168, ""size"" : 49152, ""uuid"" : ""4c5d42bf-4e9d-3c59-bf2e-303deda3aeb2"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/errorchecker.cpython-311-darwin.so"", ""name"" : ""errorchecker.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5317738496, ""size"" : 196608, ""uuid"" : ""c4b0c9bc-a01b-3cf7-b16b-77f9b13b6cd9"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/arraydatatype.cpython-311-darwin.so"", ""name"" : ""arraydatatype.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5344165888, ""size"" : 229376, ""uuid"" : ""33919aef-b02e-386a-8f81-a661fe002ddc"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/wrapper.cpython-311-darwin.so"", ""name"" : ""wrapper.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5348032512, ""size"" : 65536, ""uuid"" : ""d9a192eb-4bf9-362f-99d4-f6bc1e368b01"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/formathandler.cpython-311-darwin.so"", ""name"" : ""formathandler.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5317001216, ""size"" : 49152, ""uuid"" : ""38eab131-624a-32cf-8d4e-374bca53e017"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/latebind.cpython-311-darwin.so"", ""name"" : ""latebind.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5347737600, ""size"" : 131072, ""uuid"" : ""3ef700f1-b0ef-333f-8291-6877887bedaa"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/vbo.cpython-311-darwin.so"", ""name"" : ""vbo.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5318066176, ""size"" : 16384, ""uuid"" : ""6ea2ba5a-5354-35d2-a092-0249bbb6d929"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb_lib\/_load_libs.cpython-311-darwin.so"", ""name"" : ""_load_libs.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5348196352, ""size"" : 32768, ""uuid"" : ""b0eab6c4-6692-3eac-bea4-60c69e87993c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb_lib\/lib\/libpdbconnect.dylib"", ""name"" : ""libpdbconnect.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5512364032, ""size"" : 147456, ""uuid"" : ""93458d84-c67a-3585-8201-ff7b58cc50a6"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/surface\/_surface.cpython-311-darwin.so"", ""name"" : ""_surface.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5348311040, ""size"" : 32768, ""uuid"" : ""e00ce596-2864-3abf-bdff-8a38c7f22299"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqgif.dylib"", ""name"" : ""libqgif.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5535121408, ""size"" : 32768, ""uuid"" : ""dbf1d60b-d923-3193-a32e-96d3a81b9556"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqwbmp.dylib"", ""name"" : ""libqwbmp.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5547245568, ""size"" : 442368, ""uuid"" : ""d64ad34b-954b-3e65-b4b7-cb030bea2c1e"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqwebp.dylib"", ""name"" : ""libqwebp.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5535219712, ""size"" : 32768, ""uuid"" : ""0552b37d-fa94-3519-9b5c-94cb314a2cd1"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqico.dylib"", ""name"" : ""libqico.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5535318016, ""size"" : 32768, ""uuid"" : ""df91425d-7fd1-3fc7-90c3-147cb82c19db"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqmacheif.dylib"", ""name"" : ""libqmacheif.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5535416320, ""size"" : 425984, ""uuid"" : ""faac1c6c-772a-36fc-99b1-1796fe013571"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqjpeg.dylib"", ""name"" : ""libqjpeg.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5535924224, ""size"" : 393216, ""uuid"" : ""d172365c-3e61-356e-841b-8eebabcb45da"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqtiff.dylib"", ""name"" : ""libqtiff.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5547769856, ""size"" : 32768, ""uuid"" : ""77608453-0c22-327c-909a-3e61997f035f"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqsvg.dylib"", ""name"" : ""libqsvg.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5548654592, ""size"" : 229376, ""uuid"" : ""6ae5d9b1-7feb-31a5-b3c1-09bfbb908790"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtSvg.framework\/Versions\/A\/QtSvg"", ""name"" : ""QtSvg"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5547868160, ""size"" : 32768, ""uuid"" : ""2170e2a2-3e24-3e7d-889f-70bfe1445514"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqpdf.dylib"", ""name"" : ""libqpdf.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5549031424, ""size"" : 8011776, ""uuid"" : ""2297c440-bc47-3988-b508-c4f43a12de4c"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtPdf.framework\/Versions\/A\/QtPdf"", ""name"" : ""QtPdf"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5547966464, ""size"" : 32768, ""uuid"" : ""aaf72e4f-a4b5-3143-abe4-cd0b9c88e736"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqicns.dylib"", ""name"" : ""libqicns.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5548064768, ""size"" : 32768, ""uuid"" : ""97f0c601-577c-3e3d-9728-1b67a04a846f"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqtga.dylib"", ""name"" : ""libqtga.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5548163072, ""size"" : 32768, ""uuid"" : ""73065b31-2315-3d94-8ece-5a8b66a743b4"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqmacjp2.dylib"", ""name"" : ""libqmacjp2.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 5534908416, ""size"" : 49152, ""uuid"" : ""106e99a0-0b8d-34fb-ad61-91eca3d8285c"", ""path"" : ""\/usr\/lib\/libobjc-trampolines.dylib"", ""name"" : ""libobjc-trampolines.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5534990336, ""size"" : 16384, ""uuid"" : ""117d4c42-f31b-3051-a57f-edb1c3f20c84"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/core\/_mac_util.cpython-311-darwin.so"", ""name"" : ""_mac_util.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 6105333760, ""size"" : 81920, ""uuid"" : ""703104dc-b212-3b8d-9c78-4f57b3c9cb18"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/numpy_formathandler.cpython-311-darwin.so"", ""name"" : ""numpy_formathandler.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 6024986624, ""size"" : 49152, ""uuid"" : ""12c53516-421d-3f7a-a81e-95bcfdb8a3ff"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/nones_formathandler.cpython-311-darwin.so"", ""name"" : ""nones_formathandler.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 6106726400, ""size"" : 32768, ""uuid"" : ""2c043e84-38d8-33d9-a9a4-ff18ae1f885f"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/psutil\/_psutil_osx.abi3.so"", ""name"" : ""_psutil_osx.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 6104875008, ""size"" : 16384, ""uuid"" : ""802f0c32-e7ad-3a81-ac8d-ae72c0022ae6"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/psutil\/_psutil_posix.abi3.so"", ""name"" : ""_psutil_posix.abi3.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 6106841088, ""size"" : 147456, ""uuid"" : ""96691a20-aa26-3905-98c4-0939edf5bdd4"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb\/_pdbio.cpython-311-darwin.so"", ""name"" : ""_pdbio.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 6173474816, ""size"" : 81920, ""uuid"" : ""2f167b0b-b0ab-3b3f-a99e-27fc153b427d"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/_ribbons.cpython-311-darwin.so"", ""name"" : ""_ribbons.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 6107136000, ""size"" : 16384, ""uuid"" : ""c802abe8-4352-3827-8717-7d4c0f0892ff"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/graphics\/_graphics.cpython-311-darwin.so"", ""name"" : ""_graphics.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 11117461504, ""size"" : 458752, ""uuid"" : ""6b6db01c-1280-3773-b08f-d693798baba7"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/mmcif\/mmcif.cpython-311-darwin.so"", ""name"" : ""mmcif.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 11230248960, ""size"" : 409600, ""uuid"" : ""f03f0cb6-82d1-33ee-a10b-cc8d92c14417"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/mmcif\/_mmcif.cpython-311-darwin.so"", ""name"" : ""_mmcif.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5954748416, ""size"" : 32768, ""uuid"" : ""f6112c45-e8b3-3787-a9ab-c7209e77530f"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/_imagingmath.cpython-311-darwin.so"", ""name"" : ""_imagingmath.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5957074944, ""size"" : 16384, ""uuid"" : ""370842e5-ccc2-376e-8dec-03f37f99d12d"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/alignment_algs\/_sw.cpython-311-darwin.so"", ""name"" : ""_sw.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5957156864, ""size"" : 16384, ""uuid"" : ""44f5649d-7eb7-3266-bfeb-a8c867c97d85"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/alignment_algs\/libalign_algs.dylib"", ""name"" : ""libalign_algs.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5959991296, ""size"" : 16384, ""uuid"" : ""c62ad20e-2943-300a-8583-f8d01bcdffc7"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/dssp\/_dssp.cpython-311-darwin.so"", ""name"" : ""_dssp.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 5956911104, ""size"" : 32768, ""uuid"" : ""0b918cd1-028a-3096-be4e-175a2cf8f343"", ""path"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/alignment_algs\/_nw.cpython-311-darwin.so"", ""name"" : ""_nw.cpython-311-darwin.so"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6493990912, ""size"" : 237560, ""uuid"" : ""b151ef35-ea9a-3703-ab2f-d31b34c7c75c"", ""path"" : ""\/usr\/lib\/system\/libsystem_kernel.dylib"", ""name"" : ""libsystem_kernel.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6494228480, ""size"" : 53248, ""uuid"" : ""7acb080f-eabe-3a59-8d9f-7459f33bb263"", ""path"" : ""\/usr\/lib\/system\/libsystem_pthread.dylib"", ""name"" : ""libsystem_pthread.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6492778496, ""size"" : 520184, ""uuid"" : ""840fe68c-8175-347b-bfb1-3b6bce431935"", ""path"" : ""\/usr\/lib\/system\/libsystem_c.dylib"", ""name"" : ""libsystem_c.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6494433280, ""size"" : 28668, ""uuid"" : ""444c6830-b32f-3e36-bf91-eef686fd4de0"", ""path"" : ""\/usr\/lib\/system\/libsystem_platform.dylib"", ""name"" : ""libsystem_platform.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6547517440, ""CFBundleShortVersionString"" : ""6.9"", ""CFBundleIdentifier"" : ""com.apple.AppKit"", ""size"" : 15794176, ""uuid"" : ""de70fc2d-53d4-361b-ac10-2f27ce8b9aa9"", ""path"" : ""\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit"", ""name"" : ""AppKit"", ""CFBundleVersion"" : ""2299.77.138"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6574911488, ""CFBundleShortVersionString"" : ""1.600.0"", ""CFBundleIdentifier"" : ""com.apple.SkyLight"", ""size"" : 4378624, ""uuid"" : ""37f3ea1e-c97c-36fb-b13b-379c3e80e013"", ""path"" : ""\/System\/Library\/PrivateFrameworks\/SkyLight.framework\/Versions\/A\/SkyLight"", ""name"" : ""SkyLight"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6492471296, ""size"" : 294912, ""uuid"" : ""b86c558f-d7cd-340d-97a6-7c19135943bb"", ""path"" : ""\/usr\/lib\/system\/libdispatch.dylib"", ""name"" : ""libdispatch.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6494646272, ""CFBundleShortVersionString"" : ""6.9"", ""CFBundleIdentifier"" : ""com.apple.CoreFoundation"", ""size"" : 5087232, ""uuid"" : ""41e90fb7-54c4-352b-83b9-1c2f4d8f11ea"", ""path"" : ""\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation"", ""name"" : ""CoreFoundation"", ""CFBundleVersion"" : ""1979.104"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6654697472, ""CFBundleShortVersionString"" : ""2.1.1"", ""CFBundleIdentifier"" : ""com.apple.HIToolbox"", ""size"" : 3358720, ""uuid"" : ""4e1025f1-7083-3323-8c04-ac349fd79b73"", ""path"" : ""\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox"", ""name"" : ""HIToolbox"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6490726400, ""size"" : 583048, ""uuid"" : ""0fe04188-19e9-3aab-a84a-e4b8ef13225d"", ""path"" : ""\/usr\/lib\/dyld"", ""name"" : ""dyld"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6493298688, ""size"" : 577528, ""uuid"" : ""6866b472-e07d-3405-a9f5-c35eae010385"", ""path"" : ""\/usr\/lib\/libc++.1.dylib"", ""name"" : ""libc++.1.dylib"" }, { ""size"" : 0, ""source"" : ""A"", ""base"" : 0, ""uuid"" : ""00000000-0000-0000-0000-000000000000"" } ], ""sharedCache"" : { ""base"" : 6490062848, ""size"" : 3585998848, ""uuid"" : ""25db5951-85df-32a8-87f1-aaca60d31046"" }, ""vmSummary"" : ""ReadOnly portion of Libraries: Total=1.7G resident=0K(0%) swapped_out_or_unallocated=1.7G(100%)\nWritable regions: Total=9.5G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=9.5G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 384K 3 \nActivity Tracing 256K 1 \nCG backing stores 9312K 13 \nCG image 1296K 67 \nColorSync 656K 30 \nCoreAnimation 992K 59 \nCoreGraphics 144K 9 \nCoreUI image data 5520K 55 \nFoundation 48K 2 \nKernel Alloc Once 32K 1 \nMALLOC 7.4G 1719 \nMALLOC guard page 192K 10 \nMALLOC_MEDIUM (reserved) 608.0M 10 reserved VM address space (unallocated)\nMALLOC_NANO (reserved) 128.0M 1 reserved VM address space (unallocated)\nMach message 64K 2 \nOpenGL GLSL 384K 4 \nSTACK GUARD 752K 47 \nStack 160.2M 48 \nStack Guard 56.0M 1 \nVM_ALLOCATE 943.7M 644 \nVM_ALLOCATE (reserved) 288.0M 1 reserved VM address space (unallocated)\n__AUTH 1879K 380 \n__AUTH_CONST 29.2M 615 \n__CTF 824 1 \n__DATA 20.5M 762 \n__DATA_CONST 39.7M 767 \n__DATA_DIRTY 2021K 238 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 832.0M 151 \n__OBJC_RO 66.4M 1 \n__OBJC_RW 2012K 1 \n__TEXT 871.7M 787 \ndyld private memory 272K 2 \nmapped file 217.8M 60 \nshared memory 3184K 24 \n=========== ======= ======= \nTOTAL 11.6G 6519 \nTOTAL, minus reserved VM space 10.6G 6519 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""95daa07a2a6a81f96cb70807745bcf539237a7c0"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""6297d96be2c9387df974efa4"", ""factorPackIds"" : { }, ""deploymentId"" : 240000032 }, { ""rolloutId"" : ""63582c5f8a53461413999550"", ""factorPackIds"" : { }, ""deploymentId"" : 240000002 } ], ""experiments"" : [ { ""treatmentId"" : ""45f4e2a5-551b-4bc2-a2dc-19c244dda8f8"", ""experimentId"" : ""6643969b3099cf28e049862f"", ""deploymentId"" : 400000007 } ] } } ===== Log before crash start ===== 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 /Users/hmed/Documents/nipah/nipah1/simonus_J97z.mrc > /Users/hmed/Documents/nipah/nipah1/nipah-inzmap.pdb Opened simonus_J97z.mrc as #1, grid size 300,300,300, pixel 1.1, shown at level 0.0882, step 2, values float32 nipah-inzmap.pdb title: Nipah virus attachment glycoprotein head domain In complex with A broadly neutralizing antibody 1E5 [more info...] Chain information for nipah-inzmap.pdb #2 --- Chain | Description | UniProt A | glycoprotein | Q4VCP5_NIPAV 176-602 B | glycoprotein | Q4VCP5_NIPAV 176-602 > volume #1 step 1 > volume #1 level 0.1539 > set bgColor white > transparency 50 > volume #1 level 0.2571 > hide #!2 models > open /Users/hmed/Documents/nipah/nipah1/nipah-inzmap-coot-5.pdb Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/nipah- inzmap-coot-5.pdb --- warnings | Start residue of secondary structure not found: HELIX 1 1 GLY A 328 ASN A 331 1 4 End residue of secondary structure not found: SHEET 5 5 5 LEU A 234 ARG A 236 0 Start residue of secondary structure not found: SHEET 25 2525 ILE A 545 GLN A 550 0 Start residue of secondary structure not found: SHEET 50 5050 ILE B 545 GLN B 550 0 nipah-inzmap-coot-5.pdb title: Nipah virus attachment glycoprotein head domain In complex with A broadly neutralizing antibody 1E5 [more info...] Chain information for nipah-inzmap-coot-5.pdb #3 --- Chain | Description | UniProt A | glycoprotein | Q4VCP5_NIPAV 176-602 B | glycoprotein | Non-standard residues in nipah-inzmap-coot-5.pdb #3 --- NAG — 2-acetamido-2-deoxy-β-D-glucopyranose (N-acetyl-β-D- glucosamine;2-acetamido-2-deoxy-β- D-glucose;2-acetamido-2-deoxy-D- glucose;2-acetamido- 2-deoxy-glucose;N-acetyl-D-glucosamine) > lighting soft > graphics silhouettes true > lighting full > lighting soft > lighting simple > color #3 bychain > show #3 atoms > color #3 byhetero The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > close #3 > open /Users/hmed/Downloads/7dzx.pdb 7dzx.pdb title: Spike protein from sars-COV2 with fab fragment of enhancing antibody 8D2 [more info...] Chain information for 7dzx.pdb #3 --- Chain | Description | UniProt A B C | spike glycoprotein | SPIKE_SARS2 27-1147 H | fab heavy chain of enhancing antibody | L | fab light chain of enhancing antibody | > delete #3/A-C > show #3 atoms > style #3 stick Changed 1760 atom styles > select add #3 1760 atoms, 1758 bonds, 440 residues, 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #3,1,0,0,2.4195,0,1,0,9.8361,0,0,1,-55.818 > view matrix models #3,1,0,0,5.93,0,1,0,25.45,0,0,1,-53.576 > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.063306,-0.79284,-0.60613,409.5,0.54446,0.48157,-0.68678,99.532,0.8364,-0.37349,0.40118,-68.207 > view matrix models > #3,0.06868,-0.75418,-0.65306,388.12,0.68771,0.51001,-0.51666,37.27,0.72273,-0.41364,0.55369,-69.604 > ui mousemode right ""translate selected models"" > view matrix models > #3,0.06868,-0.75418,-0.65306,399.01,0.68771,0.51001,-0.51666,45.702,0.72273,-0.41364,0.55369,-72.905 > view matrix models > #3,0.06868,-0.75418,-0.65306,398.34,0.68771,0.51001,-0.51666,45.477,0.72273,-0.41364,0.55369,-70.961 > view matrix models > #3,0.06868,-0.75418,-0.65306,400.59,0.68771,0.51001,-0.51666,44.159,0.72273,-0.41364,0.55369,-71.072 > view matrix models > #3,0.06868,-0.75418,-0.65306,399.35,0.68771,0.51001,-0.51666,44.709,0.72273,-0.41364,0.55369,-71.612 > view matrix models > #3,0.06868,-0.75418,-0.65306,398.64,0.68771,0.51001,-0.51666,44.496,0.72273,-0.41364,0.55369,-70.062 > view matrix models > #3,0.06868,-0.75418,-0.65306,399.19,0.68771,0.51001,-0.51666,44.771,0.72273,-0.41364,0.55369,-70.142 > view matrix models > #3,0.06868,-0.75418,-0.65306,399.18,0.68771,0.51001,-0.51666,44.792,0.72273,-0.41364,0.55369,-70.148 > view matrix models > #3,0.06868,-0.75418,-0.65306,401.53,0.68771,0.51001,-0.51666,44.055,0.72273,-0.41364,0.55369,-69.965 > ui tool show ""Fit in Map"" The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > fitmap #3 inMap #1 Fit molecule 7dzx.pdb (#3) to map simonus_J97z.mrc (#1) using 1760 atoms average map value = 0.1847, steps = 160 shifted from previous position = 3.61 rotated from previous position = 11.9 degrees atoms outside contour = 1281, contour level = 0.25708 Position of 7dzx.pdb (#3) relative to simonus_J97z.mrc (#1) coordinates: Matrix rotation and translation 0.06835338 -0.71145514 -0.69939932 402.18859098 0.81368412 0.44539619 -0.37355105 -0.69852271 0.57727461 -0.54355664 0.60934408 -36.59042108 Axis -0.08516425 -0.63954942 0.76401806 Axis point 227.03392794 260.61146038 0.00000000 Rotation angle (degrees) 86.47139648 Shift along axis -61.76109173 > select subtract #3 Nothing selected > delete #3/H:127-226 > delete #3/H:127-227 > delete #3/L > fitmap #3 inMap #1 Fit molecule 7dzx.pdb (#3) to map simonus_J97z.mrc (#1) using 504 atoms average map value = 0.269, steps = 52 shifted from previous position = 0.241 rotated from previous position = 6.91 degrees atoms outside contour = 245, contour level = 0.25708 Position of 7dzx.pdb (#3) relative to simonus_J97z.mrc (#1) coordinates: Matrix rotation and translation 0.05668574 -0.77773561 -0.62603039 397.12432719 0.85484959 0.36173753 -0.37199213 0.22335219 0.51577021 -0.51407517 0.68535232 -42.88112920 Axis -0.07113735 -0.57167039 0.81739369 Axis point 219.91514889 238.07971714 -0.00000000 Rotation angle (degrees) 87.02571249 Shift along axis -63.42882088 > open /Users/hmed/Downloads/7duo.pdb 7duo.pdb title: Crystal structure of daratumumab fab and CD38 complex [more info...] Chain information for 7duo.pdb #4 --- Chain | Description | UniProt B | adp-ribosyl cyclase/cyclic adp-ribose hydrolase 1 | CD38_HUMAN 13-241 H | fab heavy chain | L | fab light chain | > mmaker #4/H to #3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 7dzx.pdb, chain H (#3) with 7duo.pdb, chain H (#4), sequence alignment score = 810.2 RMSD between 111 pruned atom pairs is 0.638 angstroms; (across all 120 pairs: 1.734) > delete #4/B #4/H > delete #4/L:108-213 > fitmap #4 inMap #1 Fit molecule 7duo.pdb (#4) to map simonus_J97z.mrc (#1) using 820 atoms average map value = 0.2598, steps = 64 shifted from previous position = 2.23 rotated from previous position = 12 degrees atoms outside contour = 419, contour level = 0.25708 Position of 7duo.pdb (#4) relative to simonus_J97z.mrc (#1) coordinates: Matrix rotation and translation -0.57337704 0.33780233 0.74641031 190.70776058 -0.03565061 -0.92046768 0.38918927 162.75297494 0.81851561 0.19654221 0.53981789 85.57826238 Axis -0.45184589 -0.16912006 -0.87591877 Axis point 81.33481903 66.62335957 0.00000000 Rotation angle (degrees) 167.69135314 Shift along axis -188.65491718 > open /Users/hmed/Documents/nipah/nipah1/nipah-inzmap-coot-6.pdb Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/nipah- inzmap-coot-6.pdb --- warnings | Start residue of secondary structure not found: HELIX 1 1 GLY A 328 ASN A 331 1 4 End residue of secondary structure not found: SHEET 5 5 5 LEU A 234 ARG A 236 0 Start residue of secondary structure not found: SHEET 25 2525 ILE A 545 GLN A 550 0 Start residue of secondary structure not found: SHEET 50 5050 ILE B 545 GLN B 550 0 nipah-inzmap-coot-6.pdb title: Nipah virus attachment glycoprotein head domain In complex with A broadly neutralizing antibody 1E5 [more info...] Chain information for nipah-inzmap-coot-6.pdb #5 --- Chain | Description | UniProt A | glycoprotein | Q4VCP5_NIPAV 176-602 B | glycoprotein | Non-standard residues in nipah-inzmap-coot-6.pdb #5 --- NAG — 2-acetamido-2-deoxy-β-D-glucopyranose (N-acetyl-β-D- glucosamine;2-acetamido-2-deoxy-β- D-glucose;2-acetamido-2-deoxy-D- glucose;2-acetamido- 2-deoxy-glucose;N-acetyl-D-glucosamine) The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > save /Users/hmed/Documents/nipah/nipah1/7dzx_H.pdb models #3 relModel #1 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > save /Users/hmed/Documents/nipah/nipah1/7duo_L.pdb models #4 relModel #1 > open /Users/hmed/Downloads/3ghe.pdb 3ghe.pdb title: Crystal structure of ANTI-hiv-1 fab 537-10D In complex with V3 peptide Mn [more info...] Chain information for 3ghe.pdb #6 --- Chain | Description | UniProt H | fab 537-10D, heavy chain | L | fab 537-10D, light chain | P | envelope glycoprotein | P88403_9HIV1 304-320 > mmaker #6 to #3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 7dzx.pdb, chain H (#3) with 3ghe.pdb, chain H (#6), sequence alignment score = 818.1 RMSD between 111 pruned atom pairs is 0.544 angstroms; (across all 126 pairs: 3.717) > hide #!3 models > delete #6/H:127-227 > delete #6/L > delete #6/H:115-127 > fitmap #6 inMap #1 Fit molecule 3ghe.pdb (#6) to map simonus_J97z.mrc (#1) using 1303 atoms average map value = 0.1836, steps = 44 shifted from previous position = 0.245 rotated from previous position = 1.79 degrees atoms outside contour = 854, contour level = 0.25708 Position of 3ghe.pdb (#6) relative to simonus_J97z.mrc (#1) coordinates: Matrix rotation and translation -0.94997927 -0.13407243 -0.28207086 230.60090282 -0.04482579 -0.83528299 0.54798994 124.74430407 -0.30907933 0.53322313 0.78749162 123.21191942 Axis -0.15641822 0.28608877 0.94534997 Axis point 124.35060738 46.83549507 0.00000000 Rotation angle (degrees) 177.29446396 Shift along axis 116.09614429 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > save /Users/hmed/Documents/nipah/nipah1/3ghe_H.pdb models #6 relModel #1 > show #5#!4,6 atoms > select ::name=""HOH"" 140 atoms, 140 residues, 1 model selected > delete sel The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > save /Users/hmed/Documents/nipah/nipah1/3ghe_H.pdb models #6 relModel #6 > open /Users/hmed/Downloads/cryosparc_P1027_J174_003_volume_map_sharp.mrc Opened cryosparc_P1027_J174_003_volume_map_sharp.mrc as #7, grid size 240,240,240, pixel 1.46, shown at level 0.0252, step 1, values float32 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #7 level 0.1527 > open /Users/hmed/Downloads/cryosparc_P1027_J174_003_volume_map_sharp.mrc Opened cryosparc_P1027_J174_003_volume_map_sharp.mrc as #8, grid size 240,240,240, pixel 1.46, shown at level 0.0252, step 1, values float32 > volume #8 level 0.1099 > open /Users/hmed/Downloads/cryosparc_P1027_J176_002_volume_map_sharp.mrc Opened cryosparc_P1027_J176_002_volume_map_sharp.mrc as #9, grid size 240,240,240, pixel 1.46, shown at level 0.022, step 1, values float32 > volume #9 level 0.1037 > open /Users/hmed/Downloads/cryosparc_P1027_J154_005_volume_map_sharp.mrc Opened cryosparc_P1027_J154_005_volume_map_sharp.mrc as #10, grid size 240,240,240, pixel 1.46, shown at level 0.0394, step 1, values float32 > volume #10 level 0.1904 > volume #10 level -0.1803 > volume #10 level 0.3551 > open > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_0.cif Chain information for fold_2024_11_19_11_37_model_0.cif #11 --- Chain | Description A | . B | . > open > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_1.cif Chain information for fold_2024_11_19_11_37_model_1.cif #12 --- Chain | Description A | . B | . > open > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_2.cif Chain information for fold_2024_11_19_11_37_model_2.cif #13 --- Chain | Description A | . B | . > open > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_3.cif Chain information for fold_2024_11_19_11_37_model_3.cif #14 --- Chain | Description A | . B | . > open > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_4.cif Chain information for fold_2024_11_19_11_37_model_4.cif #15 --- Chain | Description A | . B | . > show #!1 models > hide #!4 models > show #!10 models > hide #!10 models > show #!3 models > hide #!3 models > show #!4 models > hide #!4 models > mmaker #11-15 to #4 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 7duo.pdb, chain L (#4) with fold_2024_11_19_11_37_model_0.cif, chain B (#11), sequence alignment score = 509.3 RMSD between 105 pruned atom pairs is 0.448 angstroms; (across all 107 pairs: 0.545) Matchmaker 7duo.pdb, chain L (#4) with fold_2024_11_19_11_37_model_1.cif, chain B (#12), sequence alignment score = 516.5 RMSD between 107 pruned atom pairs is 0.409 angstroms; (across all 107 pairs: 0.409) Matchmaker 7duo.pdb, chain L (#4) with fold_2024_11_19_11_37_model_2.cif, chain B (#13), sequence alignment score = 509.3 RMSD between 106 pruned atom pairs is 0.474 angstroms; (across all 107 pairs: 0.518) Matchmaker 7duo.pdb, chain L (#4) with fold_2024_11_19_11_37_model_3.cif, chain B (#14), sequence alignment score = 509.3 RMSD between 106 pruned atom pairs is 0.470 angstroms; (across all 107 pairs: 0.514) Matchmaker 7duo.pdb, chain L (#4) with fold_2024_11_19_11_37_model_4.cif, chain B (#15), sequence alignment score = 509.3 RMSD between 106 pruned atom pairs is 0.470 angstroms; (across all 107 pairs: 0.520) > hide #13 models > show #13 models > hide #12 models > hide #11 models > hide #14 models > fitmap #13 inMap #1 Fit molecule fold_2024_11_19_11_37_model_2.cif (#13) to map simonus_J97z.mrc (#1) using 1833 atoms average map value = 0.2104, steps = 48 shifted from previous position = 1 rotated from previous position = 5.52 degrees atoms outside contour = 1121, contour level = 0.25708 Position of fold_2024_11_19_11_37_model_2.cif (#13) relative to simonus_J97z.mrc (#1) coordinates: Matrix rotation and translation 0.80069766 -0.56638708 0.19516387 197.63373490 -0.18405445 0.07744073 0.97986065 142.10736848 -0.57009404 -0.82049291 -0.04223945 134.90982390 Axis -0.90322229 0.38392348 0.19181307 Axis point 0.00000000 191.43486060 -3.21399292 Rotation angle (degrees) 94.70644026 Shift along axis -98.07137072 > hide #15 models > show #15 models > hide #15 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > save /Users/hmed/Downloads/model2.pdb models #13 relModel #1 > hide #13 models > hide #5 models > hide #!6 models > open /Users/hmed/Downloads/cryosparc_P22_J263_011_volume_map_sharp.mrc Opened cryosparc_P22_J263_011_volume_map_sharp.mrc as #16, grid size 270,270,270, pixel 0.976, shown at level 0.0826, step 2, values float32 > volume #16 level 0.1594 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #16 step 1 > view orient > volume #16 level 0.2943 > show #5 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > delete #5/B > select add #5 3584 atoms, 3681 bonds, 450 residues, 1 model selected > hide sel atoms > ui mousemode right ""translate selected models"" > view matrix models #5,1,0,0,-11.596,0,1,0,-27.013,0,0,1,-24.957 > ui mousemode right ""rotate selected models"" > view matrix models > #5,-0.36512,0.93093,0.0074457,55.835,0.53464,0.20313,0.8203,-97.837,0.76213,0.30349,-0.57189,21.98 > view matrix models > #5,-0.15234,0.86788,0.47285,-29.321,0.55021,-0.32296,0.77004,-13.933,0.82101,0.37747,-0.42831,-17.389 > view matrix models > #5,-0.41979,0.21269,0.88235,56.166,0.55688,-0.7073,0.43545,87.815,0.7167,0.67416,0.17847,-127.22 > view matrix models > #5,0.36032,0.76311,0.5365,-100.55,-0.19079,-0.50269,0.84315,117.08,0.91311,-0.40616,-0.035539,34.648 > view matrix models > #5,0.21472,0.31646,0.92399,-62.345,-0.020455,-0.94439,0.3282,226.48,0.97646,-0.089369,-0.1963,-1.5418 > view matrix models > #5,0.30539,0.80165,0.5139,-94.941,0.25183,-0.58846,0.76831,72.198,0.91833,-0.10522,-0.38159,34.481 > ui mousemode right ""translate selected models"" > view matrix models > #5,0.30539,0.80165,0.5139,-55.432,0.25183,-0.58846,0.76831,39.667,0.91833,-0.10522,-0.38159,52.61 > view matrix models > #5,0.30539,0.80165,0.5139,-55.238,0.25183,-0.58846,0.76831,39.92,0.91833,-0.10522,-0.38159,50.517 > show sel surfaces > view matrix models > #5,0.30539,0.80165,0.5139,-56.864,0.25183,-0.58846,0.76831,42.731,0.91833,-0.10522,-0.38159,42.614 > show sel cartoons > hide sel surfaces > view matrix models > #5,0.30539,0.80165,0.5139,-66.333,0.25183,-0.58846,0.76831,39.783,0.91833,-0.10522,-0.38159,36.589 > view matrix models > #5,0.30539,0.80165,0.5139,-101.33,0.25183,-0.58846,0.76831,68.852,0.91833,-0.10522,-0.38159,27.6 > ui mousemode right ""rotate selected models"" > view matrix models > #5,0.92112,0.31073,0.2345,-84.176,0.054143,-0.69879,0.71328,123.18,0.3855,-0.64432,-0.66049,228.03 > view matrix models > #5,0.99992,0.011068,0.0063597,-20.493,0.0050803,-0.80208,0.59719,161.82,0.011711,-0.59711,-0.80207,297.07 > view matrix models > #5,0.97219,-0.20275,0.11722,1.3155,-0.21021,-0.53472,0.81846,124.86,-0.10326,-0.82034,-0.56247,316.5 > view matrix models > #5,0.96889,-0.21251,0.12687,2.0122,-0.2219,-0.51885,0.82556,123.3,-0.10962,-0.82803,-0.54987,316.96 > view matrix models > #5,0.97739,-0.18041,0.11028,-1.9361,-0.19603,-0.57766,0.79239,132.66,-0.079246,-0.79609,-0.59997,314.15 > view matrix models > #5,0.96291,-0.2606,0.069998,17.788,-0.21826,-0.59965,0.76992,142.39,-0.15867,-0.75664,-0.63428,324.94 > view matrix models > #5,0.94955,-0.28418,0.13262,15.049,-0.28295,-0.594,0.75306,153.7,-0.13522,-0.7526,-0.64445,322.09 > ui mousemode right ""translate selected models"" > view matrix models > #5,0.94955,-0.28418,0.13262,14.864,-0.28295,-0.594,0.75306,154.97,-0.13522,-0.7526,-0.64445,328.46 > view matrix models > #5,0.94955,-0.28418,0.13262,9.8668,-0.28295,-0.594,0.75306,157.2,-0.13522,-0.7526,-0.64445,328.5 > view matrix models > #5,0.94955,-0.28418,0.13262,9.7352,-0.28295,-0.594,0.75306,156.81,-0.13522,-0.7526,-0.64445,326.82 > view matrix models > #5,0.94955,-0.28418,0.13262,11.923,-0.28295,-0.594,0.75306,156.38,-0.13522,-0.7526,-0.64445,327.57 > view matrix models > #5,0.94955,-0.28418,0.13262,10.6,-0.28295,-0.594,0.75306,155.02,-0.13522,-0.7526,-0.64445,325.63 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > fitmap #5 inMap #16 Fit molecule nipah-inzmap-coot-6.pdb (#5) to map cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) using 3584 atoms average map value = 0.09614, steps = 104 shifted from previous position = 4.25 rotated from previous position = 6.28 degrees atoms outside contour = 2912, contour level = 0.29427 Position of nipah-inzmap-coot-6.pdb (#5) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) coordinates: Matrix rotation and translation 0.97211289 -0.19483107 0.13052733 -7.53290057 -0.22786728 -0.65316452 0.72211675 162.29048434 -0.05543496 -0.73172191 -0.67934528 317.44736412 Axis -0.99166652 0.12684528 -0.02253407 Axis point 0.00000000 150.59611967 123.69338518 Rotation angle (degrees) 132.85915333 Shift along axis 20.90252801 > view matrix models > #5,0.97211,-0.19483,0.13053,-2.8348,-0.22787,-0.65316,0.72212,164.07,-0.055435,-0.73172,-0.67935,315.7 > fitmap #5 inMap #16 Fit molecule nipah-inzmap-coot-6.pdb (#5) to map cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) using 3584 atoms average map value = 0.08462, steps = 56 shifted from previous position = 1.62 rotated from previous position = 4.45 degrees atoms outside contour = 2994, contour level = 0.29427 Position of nipah-inzmap-coot-6.pdb (#5) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) coordinates: Matrix rotation and translation 0.97575287 -0.14112013 0.16730641 -15.20901311 -0.21886788 -0.62287366 0.75108271 154.06480357 -0.00178213 -0.76948912 -0.63865743 308.55802907 Axis -0.99259315 0.11037698 -0.05075189 Axis point 0.00000000 148.84853267 118.91146025 Rotation angle (degrees) 130.00759239 Shift along axis 16.44166871 > view matrix models > #5,0.97575,-0.14112,0.16731,16.108,-0.21887,-0.62287,0.75108,204.82,-0.0017821,-0.76949,-0.63866,302.6 > view matrix models > #5,0.97575,-0.14112,0.16731,0.49905,-0.21887,-0.62287,0.75108,184.68,-0.0017821,-0.76949,-0.63866,308.18 > view matrix models > #5,0.97575,-0.14112,0.16731,10.04,-0.21887,-0.62287,0.75108,197.83,-0.0017821,-0.76949,-0.63866,306.81 > ui mousemode right ""rotate selected models"" > view matrix models > #5,-0.69251,0.72139,0.0043097,157.02,0.46316,0.44918,-0.76402,133.21,-0.5531,-0.5271,-0.64518,355.52 > view matrix models > #5,0.74602,0.45265,-0.48844,42.9,0.29665,-0.88256,-0.3648,306.94,-0.5962,0.12726,-0.79268,282.81 > view matrix models > #5,0.80358,0.57737,-0.14454,-30.663,0.58859,-0.80695,0.048931,195.57,-0.088388,-0.1244,-0.98829,269.13 > view matrix models > #5,0.67667,0.70629,-0.20804,-22.241,0.72341,-0.69035,0.0092437,162.55,-0.13709,-0.15675,-0.97808,280.13 > view matrix models > #5,0.53539,0.80291,-0.26209,-7.9927,0.82129,-0.56732,-0.060269,138.21,-0.19708,-0.18299,-0.96316,291.3 > view matrix models > #5,0.19925,0.95992,0.19711,-41.471,0.919,-0.11321,-0.37766,96.876,-0.34021,0.25639,-0.90472,238.98 > view matrix models > #5,-0.077988,0.87553,0.47682,-23.519,0.82027,0.32819,-0.46846,57.347,-0.56663,0.35459,-0.74377,237.36 > view matrix models > #5,-0.10432,0.89213,0.43958,-17.026,0.78258,0.34639,-0.51728,66.884,-0.61375,0.29004,-0.7343,253.09 > ui mousemode right ""translate selected models"" > view matrix models > #5,-0.10432,0.89213,0.43958,-47.386,0.78258,0.34639,-0.51728,27.186,-0.61375,0.29004,-0.7343,262.65 > view matrix models > #5,-0.10432,0.89213,0.43958,-39.714,0.78258,0.34639,-0.51728,21.201,-0.61375,0.29004,-0.7343,261.32 > volume flip #16 Opened cryosparc_P22_J263_011_volume_map_sharp.mrc z flip as #17, grid size 270,270,270, pixel 0.976, shown at step 1, values float32 > view matrix models > #5,-0.10432,0.89213,0.43958,-52.06,0.78258,0.34639,-0.51728,18.928,-0.61375,0.29004,-0.7343,332.69 > view matrix models > #5,-0.10432,0.89213,0.43958,-63.57,0.78258,0.34639,-0.51728,79.628,-0.61375,0.29004,-0.7343,293.89 > ui mousemode right ""rotate selected models"" > view matrix models > #5,0.29593,0.84061,-0.45366,2.019,0.81179,0.028974,0.58324,-23.626,0.50342,-0.54087,-0.67382,240.28 > view matrix models > #5,0.71298,-0.61974,-0.32799,142.25,0.48988,0.10559,0.86537,-23.506,-0.50168,-0.77767,0.37888,289.75 > view matrix models > #5,-0.18072,-0.88272,-0.43375,333.12,0.50081,-0.46215,0.73185,78.512,-0.84648,-0.084971,0.52559,218.24 > view matrix models > #5,-0.24396,-0.94256,-0.22817,324.45,0.66347,-0.33382,0.6696,42.47,-0.70731,0.011967,0.7068,158.07 > view matrix models > #5,0.49065,-0.6338,0.59796,54.942,0.31458,0.7688,0.55676,-55.799,-0.81259,-0.085068,0.57659,206.26 > view matrix models > #5,0.85055,-0.18755,0.49131,-53.507,0.0029338,0.93592,0.35219,-6.0233,-0.52588,-0.29812,0.7966,165.19 > view matrix models > #5,0.7365,-0.23367,0.6348,-48.187,-0.12966,0.87227,0.47152,8.0136,-0.66389,-0.42958,0.61213,230.84 > ui mousemode right ""translate selected models"" > view matrix models > #5,0.7365,-0.23367,0.6348,-38.654,-0.12966,0.87227,0.47152,-46.58,-0.66389,-0.42958,0.61213,236.89 > ui mousemode right ""rotate selected models"" > view matrix models > #5,0.7984,-0.25676,0.54464,-32.623,-0.32884,0.57179,0.75161,-7.9544,-0.50441,-0.77918,0.37208,297.35 > view matrix models > #5,0.81906,-0.53129,-0.21649,107.26,0.43192,0.32268,0.84221,-98.967,-0.3776,-0.78333,0.49377,262.31 > view matrix models > #5,0.87704,-0.4001,-0.26593,85.125,0.42615,0.39234,0.81515,-105.01,-0.2218,-0.82825,0.5146,242.44 > fitmap #5 inMap #16 Fit molecule nipah-inzmap-coot-6.pdb (#5) to map cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) using 3584 atoms average map value = 0.0723, steps = 68 shifted from previous position = 3.82 rotated from previous position = 8.24 degrees atoms outside contour = 3151, contour level = 0.29427 Position of nipah-inzmap-coot-6.pdb (#5) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) coordinates: Matrix rotation and translation 0.90331393 -0.39823675 -0.15947232 67.77304548 0.36108855 0.50515960 0.78385511 -109.05507216 -0.23160094 -0.76565087 0.60011644 226.25716707 Axis -0.89719140 0.04176374 0.43966280 Axis point 0.00000000 152.14309288 236.99082724 Rotation angle (degrees) 59.71543669 Shift along axis 34.11691780 > view matrix models > #5,0.89233,-0.39781,-0.21328,76.569,0.40847,0.51062,0.75658,-113.51,-0.19207,-0.76224,0.61814,217.28 > fitmap #5 inMap #16 Fit molecule nipah-inzmap-coot-6.pdb (#5) to map cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) using 3584 atoms average map value = 0.0723, steps = 56 shifted from previous position = 0.206 rotated from previous position = 3.6 degrees atoms outside contour = 3152, contour level = 0.29427 Position of nipah-inzmap-coot-6.pdb (#5) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) coordinates: Matrix rotation and translation 0.90321049 -0.39844516 -0.15953766 67.83375654 0.36130360 0.50521440 0.78372069 -109.08466504 -0.23166899 -0.76550627 0.60027462 226.22604465 Axis -0.89706307 0.04176686 0.43992428 Axis point 0.00000000 152.13637439 237.05439132 Rotation angle (degrees) 59.71180285 Shift along axis 34.11504803 > ui mousemode right ""rotate selected models"" > view matrix models > #5,0.90153,-0.36756,-0.22835,72.598,0.37458,0.39869,0.8371,-102.13,-0.21664,-0.8402,0.49711,248.98 > view matrix models > #5,0.91579,-0.31539,-0.2487,65.233,0.37076,0.4257,0.82542,-104.07,-0.15446,-0.84812,0.50678,239.36 > fitmap #5 inMap #16 Fit molecule nipah-inzmap-coot-6.pdb (#5) to map cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) using 3584 atoms average map value = 0.0723, steps = 104 shifted from previous position = 0.517 rotated from previous position = 8.56 degrees atoms outside contour = 3151, contour level = 0.29427 Position of nipah-inzmap-coot-6.pdb (#5) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc (#16) coordinates: Matrix rotation and translation 0.90328495 -0.39825501 -0.15959088 67.79574185 0.36120950 0.50517832 0.78378732 -109.06977445 -0.23152537 -0.76562903 0.60017346 226.23432689 Axis -0.89715369 0.04165201 0.43975035 Axis point 0.00000000 152.12058201 237.00756148 Rotation angle (degrees) 59.71388583 Shift along axis 34.12044931 > view matrix models > #5,0.87172,-0.44471,-0.20574,85.818,0.40155,0.40772,0.82007,-105.35,-0.28081,-0.79749,0.534,247.44 > view matrix models > #5,0.88273,-0.43369,-0.18085,79.144,0.37202,0.40992,0.8328,-102.86,-0.28704,-0.80242,0.52319,250.58 > view matrix models > #5,0.9163,-0.36038,-0.17473,62.091,0.3493,0.50564,0.78887,-107.99,-0.19594,-0.78387,0.58919,225 > view matrix models > #5,0.91779,-0.35551,-0.17683,61.406,0.34969,0.51277,0.78408,-108.49,-0.18807,-0.78146,0.59494,222.67 > view matrix models > #5,0.91962,-0.3442,-0.18926,61.073,0.35101,0.50381,0.78928,-108.03,-0.17632,-0.79227,0.58414,223.94 > view matrix models > #5,0.95589,-0.26897,-0.11801,34.628,0.25336,0.55177,0.79458,-101.03,-0.1486,-0.78943,0.59558,217.74 > ui mousemode right ""translate selected models"" > view matrix models > #5,0.95589,-0.26897,-0.11801,33.664,0.25336,0.55177,0.79458,-99.245,-0.1486,-0.78943,0.59558,216.11 > view matrix models > #5,0.95589,-0.26897,-0.11801,36.357,0.25336,0.55177,0.79458,-99.077,-0.1486,-0.78943,0.59558,217.89 > view matrix models > #5,0.95589,-0.26897,-0.11801,35.92,0.25336,0.55177,0.79458,-98.663,-0.1486,-0.78943,0.59558,217.3 > view matrix models > #5,0.95589,-0.26897,-0.11801,36.01,0.25336,0.55177,0.79458,-98.452,-0.1486,-0.78943,0.59558,217.5 > fitmap #5 inMap #17 Fit molecule nipah-inzmap-coot-6.pdb (#5) to map cryosparc_P22_J263_011_volume_map_sharp.mrc z flip (#17) using 3584 atoms average map value = 0.372, steps = 84 shifted from previous position = 4.27 rotated from previous position = 13.8 degrees atoms outside contour = 1497, contour level = 0.29427 Position of nipah-inzmap-coot-6.pdb (#5) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc z flip (#17) coordinates: Matrix rotation and translation 0.99144703 -0.12635800 -0.03265620 1.03431449 0.08541180 0.43901641 0.89441009 -68.45460983 -0.09867926 -0.88954946 0.44605398 242.16583227 Axis -0.99235790 0.03672645 0.11780056 Axis point 0.00000000 158.65700839 177.07342981 Rotation angle (degrees) 64.00716689 Shift along axis 24.98676513 > select subtract #5 1 model selected > transparency #5.1#17.1 50 > open /Users/hmed/Downloads/model2.pdb Chain information for model2.pdb #18 --- Chain | Description A | No description available B | No description available > select add #18 1833 atoms, 1882 bonds, 235 residues, 1 model selected > view matrix models #18,1,0,0,2.4487,0,1,0,-8.1392,0,0,1,-27.048 > view matrix models #18,1,0,0,-53.622,0,1,0,-7.3341,0,0,1,-30.863 > ui mousemode right ""rotate selected models"" > view matrix models > #18,0.56827,-0.16668,0.80578,-56.745,0.38702,0.91833,-0.08299,-60.189,-0.72614,0.35902,0.58637,117.86 > view matrix models > #18,0.53499,-0.034069,0.84417,-74.138,0.36294,0.91156,-0.19322,-39.335,-0.76293,0.40975,0.50004,129.84 > ui mousemode right ""translate selected models"" > view matrix models > #18,0.53499,-0.034069,0.84417,-80.403,0.36294,0.91156,-0.19322,-49.876,-0.76293,0.40975,0.50004,140.2 > view matrix models > #18,0.53499,-0.034069,0.84417,-80.67,0.36294,0.91156,-0.19322,-48.239,-0.76293,0.40975,0.50004,140.3 > view matrix models > #18,0.53499,-0.034069,0.84417,-85.043,0.36294,0.91156,-0.19322,-46.24,-0.76293,0.40975,0.50004,141.5 > fitmap #5 inMap #17 Fit molecule nipah-inzmap-coot-6.pdb (#5) to map cryosparc_P22_J263_011_volume_map_sharp.mrc z flip (#17) using 3584 atoms average map value = 0.372, steps = 44 shifted from previous position = 0.00585 rotated from previous position = 0.0249 degrees atoms outside contour = 1494, contour level = 0.29427 Position of nipah-inzmap-coot-6.pdb (#5) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc z flip (#17) coordinates: Matrix rotation and translation 0.99141463 -0.12651339 -0.03303611 1.11783968 0.08583265 0.43908699 0.89433515 -68.52483168 -0.09863964 -0.88949254 0.44617625 242.13569957 Axis -0.99232773 0.03649467 0.11812624 Axis point 0.00000000 158.61692039 177.12288156 Rotation angle (degrees) 64.00205337 Shift along axis 24.99252667 > fitmap #18 inMap #17 Fit molecule model2.pdb (#18) to map cryosparc_P22_J263_011_volume_map_sharp.mrc z flip (#17) using 1833 atoms average map value = 0.3677, steps = 140 shifted from previous position = 2.56 rotated from previous position = 27.2 degrees atoms outside contour = 732, contour level = 0.29427 Position of model2.pdb (#18) relative to cryosparc_P22_J263_011_volume_map_sharp.mrc z flip (#17) coordinates: Matrix rotation and translation 0.26987021 0.34993679 0.89705870 -92.77685153 0.27818059 0.86356571 -0.42055895 6.68831907 -0.92183818 0.36304065 0.13570504 229.55053088 Axis 0.39539632 0.91779669 -0.03620744 Axis point 94.47967612 0.00000000 163.19505320 Rotation angle (degrees) 82.26621655 Shift along axis -38.85654552 > select subtract #18 Nothing selected > open > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_4.cif > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_3.cif > /Users/hmed/Downloads/fold_2024_11_19_11_37/fold_2024_11_19_11_37_model_1.cif Chain information for fold_2024_11_19_11_37_model_4.cif #19 --- Chain | Description A | . B | . Chain information for fold_2024_11_19_11_37_model_3.cif #20 --- Chain | Description A | . B | . Chain information for fold_2024_11_19_11_37_model_1.cif #21 --- Chain | Description A | . B | . > mmaker #19-21 to #18 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker model2.pdb, chain A (#18) with fold_2024_11_19_11_37_model_4.cif, chain A (#19), sequence alignment score = 680.8 RMSD between 123 pruned atom pairs is 0.414 angstroms; (across all 128 pairs: 0.746) Matchmaker model2.pdb, chain A (#18) with fold_2024_11_19_11_37_model_3.cif, chain A (#20), sequence alignment score = 673.6 RMSD between 117 pruned atom pairs is 0.233 angstroms; (across all 128 pairs: 1.819) Matchmaker model2.pdb, chain A (#18) with fold_2024_11_19_11_37_model_1.cif, chain A (#21), sequence alignment score = 673.6 RMSD between 116 pruned atom pairs is 0.185 angstroms; (across all 128 pairs: 1.765) > open /Users/hmed/Downloads/cryosparc_P844_J98__localfilter.mrc Opened cryosparc_P844_J98__localfilter.mrc as #22, grid size 360,360,360, pixel 0.829, shown at level 0.0351, step 2, values float32 > hide #18 models > hide #19 models > hide #20 models > hide #21 models > volume #22 level 0.2731 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #22 step 1 > hide #!22 models > show #!22 models > hide #!5 models > open /Users/hmed/Downloads/cryosparc_P844_J93__localfilter.mrc Opened cryosparc_P844_J93__localfilter.mrc as #23, grid size 360,360,360, pixel 0.829, shown at level 0.039, step 2, values float32 > volume #23 level 0.09806 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #23 step 1 > volume #23 level 0.09045 > open /Users/hmed/Downloads/5toj.pdb 5toj.pdb title: Crystal structure of the RSV F glycoprotein In complex with the neutralizing single-domain antibody F-VHH-4 [more info...] Chain information for 5toj.pdb #24 --- Chain | Description | UniProt A B C | protein F | FUS_HRSVA 1-513 D E F | single-domain antibody F-VHH-4 | Non-standard residues in 5toj.pdb #24 --- NAG — 2-acetamido-2-deoxy-β-D-glucopyranose (N-acetyl-β-D-glucosamine; 2-acetamido-2-deoxy-β-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-acetyl-D-glucosamine) > select add #24 14124 atoms, 14399 bonds, 3 pseudobonds, 1826 residues, 2 models selected > show sel cartoons > hide sel atoms > ui mousemode right ""translate selected models"" > view matrix models #24,1,0,0,165.03,0,1,0,171.74,0,0,1,-16.092 > view matrix models #24,1,0,0,149.04,0,1,0,203.97,0,0,1,-31.202 > ui mousemode right ""rotate selected models"" > view matrix models > #24,-0.72767,-0.58504,0.35807,116.23,-0.17791,0.66515,0.7252,67.327,-0.66245,0.46401,-0.5881,290.25 > view matrix models > #24,-0.65892,-0.75221,0.0030998,164.52,-0.52964,0.46687,0.70818,71.365,-0.53414,0.46499,-0.70603,305.79 > view matrix models > #24,0.14062,-0.81189,0.56662,36.228,-0.78647,0.25604,0.56205,93.255,-0.6014,-0.52467,-0.60253,233.02 > view matrix models > #24,0.040829,-0.94366,0.32838,72.756,-0.70714,0.20489,0.67673,67.882,-0.70589,-0.25984,-0.65894,261.8 > view matrix models > #24,0.92532,0.30719,-0.2223,207.48,-0.13171,0.81013,0.57126,100.32,0.35558,-0.49932,0.79009,-37.276 > view matrix models > #24,0.13032,0.91735,0.37613,169.62,-0.48382,-0.27229,0.83173,5.6781,0.86541,-0.29037,0.40835,21.561 > view matrix models > #24,-0.55348,0.028906,0.83236,64.837,0.26879,-0.93972,0.21137,45.47,0.7883,0.34072,0.51234,43.317 > view matrix models > #24,-0.41231,0.36612,0.83424,79.043,0.20371,-0.85546,0.47611,7.6006,0.88797,0.36625,0.27814,81.122 > view matrix models > #24,-0.32489,0.018787,0.94556,36.727,0.21939,-0.97103,0.094676,65.313,0.91995,0.23821,0.31136,66.863 > ui mousemode right ""translate selected models"" > view matrix models > #24,-0.32489,0.018787,0.94556,0.20919,0.21939,-0.97103,0.094676,75.563,0.91995,0.23821,0.31136,108.68 > ui mousemode right ""rotate selected models"" > view matrix models > #24,0.063236,-0.76535,0.6405,-7.3852,0.51985,-0.52258,-0.67577,222.11,0.85191,0.3757,0.36482,110.01 > view matrix models > #24,0.21637,-0.73419,0.64354,-11.607,0.63471,-0.39507,-0.66413,223.4,0.74184,0.55216,0.38052,121.56 > ui mousemode right ""translate selected models"" > view matrix models > #24,0.21637,-0.73419,0.64354,-3.6322,0.63471,-0.39507,-0.66413,225.46,0.74184,0.55216,0.38052,121.22 > view matrix models > #24,0.21637,-0.73419,0.64354,0.42671,0.63471,-0.39507,-0.66413,223.22,0.74184,0.55216,0.38052,115.45 > view matrix models > #24,0.21637,-0.73419,0.64354,-1.5294,0.63471,-0.39507,-0.66413,221.48,0.74184,0.55216,0.38052,115.26 > ui mousemode right ""rotate selected models"" > view matrix models > #24,-0.43758,-0.53641,0.72166,20.213,0.04201,0.7895,0.61231,94.199,-0.8982,0.29825,-0.32293,279.43 > view matrix models > #24,-0.53931,0.76655,0.34864,163.21,0.44548,0.61103,-0.65437,285.13,-0.71463,-0.19759,-0.67101,303.3 > ui mousemode right ""translate selected models"" > view matrix models > #24,-0.53931,0.76655,0.34864,149.77,0.44548,0.61103,-0.65437,295.28,-0.71463,-0.19759,-0.67101,275.19 > view matrix models > #24,-0.53931,0.76655,0.34864,147.57,0.44548,0.61103,-0.65437,284.35,-0.71463,-0.19759,-0.67101,271.96 > ui mousemode right ""rotate selected models"" > view matrix models > #24,-0.57114,0.63241,0.5233,111.15,0.37718,0.76842,-0.51698,272.55,-0.72906,-0.097892,-0.67741,279.36 > view matrix models > #24,-0.56822,0.60113,0.56193,102.65,0.23807,0.77378,-0.58702,289.81,-0.78769,-0.19977,-0.58279,259.43 > view matrix models > #24,-0.57075,0.59451,0.56639,101.59,0.32461,0.79695,-0.50941,274.82,-0.75423,-0.10689,-0.64785,274.71 > view matrix models > #24,-0.43389,0.78293,0.44582,128.17,0.32666,0.59786,-0.73202,301.1,-0.83966,-0.17199,-0.51516,251.39 > view matrix models > #24,0.24283,0.052711,-0.96863,302.35,-0.35725,0.9332,-0.038778,227.1,0.90189,0.35546,0.24544,89.73 > ui mousemode right ""translate selected models"" > view matrix models > #24,0.24283,0.052711,-0.96863,295.11,-0.35725,0.9332,-0.038778,222.4,0.90189,0.35546,0.24544,121.33 > view matrix models > #24,0.24283,0.052711,-0.96863,304.72,-0.35725,0.9332,-0.038778,216.04,0.90189,0.35546,0.24544,121.75 > view matrix models > #24,0.24283,0.052711,-0.96863,303.74,-0.35725,0.9332,-0.038778,215.17,0.90189,0.35546,0.24544,124.87 > view matrix models > #24,0.24283,0.052711,-0.96863,304.61,-0.35725,0.9332,-0.038778,212.23,0.90189,0.35546,0.24544,126.91 > view matrix models > #24,0.24283,0.052711,-0.96863,303.94,-0.35725,0.9332,-0.038778,212.36,0.90189,0.35546,0.24544,128.52 > view matrix models > #24,0.24283,0.052711,-0.96863,304.12,-0.35725,0.9332,-0.038778,210.71,0.90189,0.35546,0.24544,118.21 > view matrix models > #24,0.24283,0.052711,-0.96863,304.32,-0.35725,0.9332,-0.038778,216.21,0.90189,0.35546,0.24544,130.37 > view matrix models > #24,0.24283,0.052711,-0.96863,306.37,-0.35725,0.9332,-0.038778,216.64,0.90189,0.35546,0.24544,130.06 > ui tool show ""Fit in Map"" > fitmap #24 inMap #22 Fit molecule 5toj.pdb (#24) to map cryosparc_P844_J98__localfilter.mrc (#22) using 14124 atoms average map value = 0.06074, steps = 132 shifted from previous position = 3.56 rotated from previous position = 5.82 degrees atoms outside contour = 12772, contour level = 0.27307 Position of 5toj.pdb (#24) relative to cryosparc_P844_J98__localfilter.mrc (#22) coordinates: Matrix rotation and translation 0.31506627 -0.01363833 -0.94897168 296.04815580 -0.34792317 0.92862520 -0.12885923 234.18851599 0.88299644 0.37076843 0.28783339 123.67669304 Axis 0.25913261 -0.95015293 -0.17337732 Axis point 114.54107458 0.00000000 274.96388960 Rotation angle (degrees) 74.58773835 Shift along axis -167.24190688 > view matrix models > #24,0.31507,-0.013638,-0.94897,295.13,-0.34792,0.92863,-0.12886,232.24,0.883,0.37077,0.28783,123.22 > view matrix models > #24,0.31507,-0.013638,-0.94897,294.24,-0.34792,0.92863,-0.12886,231.1,0.883,0.37077,0.28783,123.16 > view matrix models > #24,0.31507,-0.013638,-0.94897,198.44,-0.34792,0.92863,-0.12886,193.27,0.883,0.37077,0.28783,117.53 > view matrix models > #24,0.31507,-0.013638,-0.94897,300.64,-0.34792,0.92863,-0.12886,214.71,0.883,0.37077,0.28783,112.63 > view matrix models > #24,0.31507,-0.013638,-0.94897,295.39,-0.34792,0.92863,-0.12886,231.84,0.883,0.37077,0.28783,117.18 > view matrix models > #24,0.31507,-0.013638,-0.94897,294.67,-0.34792,0.92863,-0.12886,229.01,0.883,0.37077,0.28783,122.92 > view matrix models > #24,0.31507,-0.013638,-0.94897,295.98,-0.34792,0.92863,-0.12886,230.72,0.883,0.37077,0.28783,123.12 > volume flip #22 Opened cryosparc_P844_J98__localfilter.mrc z flip as #25, grid size 360,360,360, pixel 0.829, shown at step 1, values float32 > ui mousemode right ""rotate selected models"" > view matrix models > #24,0.44342,0.4042,-0.8,290.27,0.84101,-0.49629,0.2154,46.371,-0.30997,-0.76832,-0.56,244.32 > view matrix models > #24,0.42595,0.45145,-0.78406,290.93,0.64604,-0.75847,-0.085753,89.464,-0.63341,-0.47001,-0.61473,282.64 > view matrix models > #24,-0.21492,0.82077,-0.52929,292.07,0.18721,-0.49728,-0.84715,250.92,-0.95852,-0.28116,-0.046783,208.55 > ui mousemode right ""translate selected models"" > view matrix models > #24,-0.21492,0.82077,-0.52929,285.56,0.18721,-0.49728,-0.84715,242.34,-0.95852,-0.28116,-0.046783,149.64 > view matrix models > #24,-0.21492,0.82077,-0.52929,282.59,0.18721,-0.49728,-0.84715,255.86,-0.95852,-0.28116,-0.046783,145.55 > ui mousemode right ""rotate selected models"" > view matrix models > #24,0.46657,0.20668,-0.86,278.69,0.18781,-0.97329,-0.13201,106.3,-0.86432,-0.099923,-0.49292,228.72 > view matrix models > #24,0.41134,0.32331,-0.85221,286.14,0.22572,-0.94199,-0.24842,126.59,-0.88309,-0.090182,-0.46046,224.43 > ui mousemode right ""translate selected models"" > view matrix models > #24,0.41134,0.32331,-0.85221,301.32,0.22572,-0.94199,-0.24842,131.67,-0.88309,-0.090182,-0.46046,225.42 > view matrix models > #24,0.41134,0.32331,-0.85221,303.29,0.22572,-0.94199,-0.24842,130.34,-0.88309,-0.090182,-0.46046,222.96 > view matrix models > #24,0.41134,0.32331,-0.85221,301.66,0.22572,-0.94199,-0.24842,132.21,-0.88309,-0.090182,-0.46046,225.02 > fitmap #24 inMap #25 Fit molecule 5toj.pdb (#24) to map cryosparc_P844_J98__localfilter.mrc z flip (#25) using 14124 atoms average map value = 0.06259, steps = 276 shifted from previous position = 3.49 rotated from previous position = 5.57 degrees atoms outside contour = 12638, contour level = 0.27307 Position of 5toj.pdb (#24) relative to cryosparc_P844_J98__localfilter.mrc z flip (#25) coordinates: Matrix rotation and translation 0.34375823 0.31012481 -0.88637062 304.93381541 0.27755267 -0.93527698 -0.21959390 125.12350606 -0.89710356 -0.17052732 -0.40758513 212.26952115 Axis 0.81963749 0.17928938 -0.54410450 Axis point 0.00000000 26.49299204 208.23346759 Rotation angle (degrees) 178.28477349 Shift along axis 156.87169891 > view matrix models > #24,0.34376,0.31012,-0.88637,340.94,0.27755,-0.93528,-0.21959,161.21,-0.8971,-0.17053,-0.40759,168.11 > volume #22 level 0.253 > volume #25 level 0.09891 > ui mousemode right ""rotate selected models"" > view matrix models > #24,-0.66912,0.2887,0.68479,108.44,-0.17771,-0.95688,0.22976,99.779,0.7216,0.032041,0.69157,-65.708 > view matrix models > #24,-0.5595,-0.26799,0.78431,55.163,0.32325,-0.9419,-0.091245,137.31,0.7632,0.20247,0.61363,-44.013 > ui mousemode right ""translate selected models"" > view matrix models > #24,-0.5595,-0.26799,0.78431,45.759,0.32325,-0.9419,-0.091245,115.12,0.7632,0.20247,0.61363,42.108 > view matrix models > #24,-0.5595,-0.26799,0.78431,5.2269,0.32325,-0.9419,-0.091245,112.37,0.7632,0.20247,0.61363,40.599 > ui mousemode right ""rotate selected models"" > view matrix models > #24,-0.10302,-0.84848,0.51911,0.22027,0.67521,-0.44287,-0.58988,213.69,0.7304,0.28974,0.61852,46.02 > view matrix models > #24,-0.18125,-0.81392,0.55198,-0.55398,0.61786,-0.53092,-0.57998,208.94,0.76512,0.23592,0.59912,44.947 > ui mousemode right ""translate selected models"" > view matrix models > #24,-0.18125,-0.81392,0.55198,14.437,0.61786,-0.53092,-0.57998,203.86,0.76512,0.23592,0.59912,48.727 > view matrix models > #24,-0.18125,-0.81392,0.55198,15.936,0.61786,-0.53092,-0.57998,203.53,0.76512,0.23592,0.59912,48.006 > ui mousemode right ""rotate selected models"" > view matrix models > #24,-0.10292,-0.8131,0.57295,9.589,0.70508,-0.46593,-0.53458,196.43,0.70162,0.34896,0.62125,53.094 > view matrix models > #24,-0.086073,-0.755,0.65006,-0.77766,0.60239,-0.55914,-0.56964,200.68,0.79355,0.34256,0.50293,69.573 > ui mousemode right ""translate selected models"" > view matrix models > #24,-0.086073,-0.755,0.65006,1.884,0.60239,-0.55914,-0.56964,200.75,0.79355,0.34256,0.50293,71.32 > view matrix models > #24,-0.086073,-0.755,0.65006,-0.76548,0.60239,-0.55914,-0.56964,196.84,0.79355,0.34256,0.50293,84.18 > view matrix models > #24,-0.086073,-0.755,0.65006,4.061,0.60239,-0.55914,-0.56964,195.21,0.79355,0.34256,0.50293,83.592 > ui mousemode right ""rotate selected models"" > view matrix models > #24,0.24419,-0.86749,0.43338,22.545,0.63947,-0.19192,-0.74448,245.03,0.72901,0.45893,0.50787,91.842 > view matrix models > #24,0.099889,-0.89039,0.44409,24.586,0.44618,-0.35885,-0.81985,255.12,0.88935,0.28004,0.36143,100.62 > volume #22 level 0.06542 > view matrix models > #24,0.46078,-0.496,-0.73598,235.61,-0.26961,-0.8683,0.41637,40.624,-0.84557,0.0065789,-0.53382,299.75 > view matrix models > #24,0.3448,0.48637,-0.80285,308.31,0.26537,-0.87091,-0.41363,162.64,-0.90039,-0.070429,-0.42936,279.45 > ui mousemode right ""translate selected models"" > view matrix models > #24,0.3448,0.48637,-0.80285,304.35,0.26537,-0.87091,-0.41363,156.6,-0.90039,-0.070429,-0.42936,243.77 > view matrix models > #24,0.3448,0.48637,-0.80285,306.05,0.26537,-0.87091,-0.41363,155.93,-0.90039,-0.070429,-0.42936,243.25 > view matrix models > #24,0.3448,0.48637,-0.80285,306.68,0.26537,-0.87091,-0.41363,160.74,-0.90039,-0.070429,-0.42936,238.83 > ui mousemode right ""rotate selected models"" > view matrix models > #24,0.27863,0.48489,-0.829,313.43,0.64945,-0.73103,-0.20931,120.22,-0.70752,-0.48007,-0.5186,223.27 > view matrix models > #24,0.37302,0.49804,-0.78283,302.93,0.59101,-0.77795,-0.21331,120.28,-0.71524,-0.38309,-0.58453,240.43 > view matrix models > #24,0.31389,0.49111,-0.81258,309.73,0.62821,-0.74914,-0.21009,120.07,-0.71191,-0.44452,-0.54367,229.77 > ui mousemode right ""translate selected models"" > view matrix models > #24,0.31389,0.49111,-0.81258,305.22,0.62821,-0.74914,-0.21009,124.37,-0.71191,-0.44452,-0.54367,226.32 > view matrix models > #24,0.31389,0.49111,-0.81258,306.34,0.62821,-0.74914,-0.21009,128.53,-0.71191,-0.44452,-0.54367,225.1 > ui mousemode right ""rotate selected models"" > view matrix models > #24,0.34555,0.53409,-0.77158,300.71,0.59615,-0.75993,-0.25904,137.4,-0.7247,-0.37047,-0.581,236.23 > view matrix models > #24,0.4711,0.4027,-0.78479,290.8,0.48753,-0.86033,-0.1488,116.69,-0.7351,-0.31251,-0.60163,243.49 > view matrix models > #24,0.36617,0.29571,-0.88231,304.98,0.49378,-0.86541,-0.085121,105.32,-0.78873,-0.4045,-0.46291,216.43 > view matrix models > #24,0.39921,0.31046,-0.8627,301.3,0.492,-0.86652,-0.084158,105.15,-0.77367,-0.39085,-0.49867,222.78 > view matrix models > #24,0.45276,0.2062,-0.86746,294.12,0.44783,-0.89387,0.021263,87.189,-0.77101,-0.3981,-0.49705,221.98 > view matrix models > #24,0.46053,0.18989,-0.8671,292.83,0.44048,-0.89698,0.037507,84.505,-0.77064,-0.39921,-0.49673,221.85 > view matrix models > #24,0.42702,0.17731,-0.88669,296.65,0.48309,-0.87365,0.057944,80.844,-0.76438,-0.45309,-0.45872,212.01 > close #23 > fitmap #24 inMap #22 Fit molecule 5toj.pdb (#24) to map cryosparc_P844_J98__localfilter.mrc (#22) using 14124 atoms average map value = 0.06401, steps = 80 shifted from previous position = 1.48 rotated from previous position = 2.56 degrees atoms outside contour = 9146, contour level = 0.065418 Position of 5toj.pdb (#24) relative to cryosparc_P844_J98__localfilter.mrc (#22) coordinates: Matrix rotation and translation 0.44516007 0.15489284 -0.88195279 293.44939612 0.44463257 -0.89316121 0.06756415 80.24675256 -0.77726082 -0.42222180 -0.46647011 215.28181104 Axis -0.84647421 -0.18093424 0.50074367 Axis point 0.00000000 34.33950373 189.88190728 Rotation angle (degrees) 163.18338234 Shift along axis -155.11572663 > volume #22 level 0.3066 > view matrix models > #24,0.42031,0.1669,-0.8919,296.74,0.48099,-0.87445,0.063034,80.797,-0.76941,-0.45549,-0.44782,209.89 > open /Users/hmed/Downloads/7lue.pdb 7lue.pdb title: Prefusion RSV F glycoprotein bound by neutralizing site V-directed antibody adi-14442 [more info...] Chain information for 7lue.pdb #23 --- Chain | Description | UniProt A B C | fusion glycoprotein F0 | W8RJF9_HRSV 26-513 H I J | heavy chain of human antibody fab adi-14442 | L M N | light chain of human antibody fab adi-14442 | > show sel cartoons > hide sel atoms > show sel cartoons > select subtract #24 Nothing selected > select add #23 15018 atoms, 15303 bonds, 9 pseudobonds, 1947 residues, 2 models selected > hide sel atoms > show sel cartoons > hide #!24 models > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.058109,0.18108,0.98175,-24.421,0.15419,0.97324,-0.17038,8.2518,-0.98633,0.14147,-0.084474,320.75 > view matrix models > #23,-0.81662,0.56398,-0.12272,226.46,0.57432,0.81513,-0.075668,-51.167,0.05736,-0.13227,-0.98955,348.57 > view matrix models > #23,-0.4192,0.83708,-0.35153,160,0.88644,0.46105,0.040784,-67.143,0.19621,-0.29451,-0.93529,341.76 > view matrix models > #23,-0.41296,0.81711,-0.40222,170.64,0.88216,0.46866,0.046353,-68.56,0.22638,-0.33569,-0.91437,339.63 > view matrix models > #23,-0.37258,0.85652,-0.35715,150.52,0.90388,0.42211,0.069384,-68.874,0.21019,-0.29697,-0.93147,339.24 > view matrix models > #23,-0.43873,0.85053,-0.29002,150.64,0.88172,0.46973,0.043755,-68.213,0.17345,-0.23652,-0.95602,340.11 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.43873,0.85053,-0.29002,127.46,0.88172,0.46973,0.043755,-76.406,0.17345,-0.23652,-0.95602,326.68 > view matrix models > #23,-0.43873,0.85053,-0.29002,127.46,0.88172,0.46973,0.043755,-72.224,0.17345,-0.23652,-0.95602,325.6 > view matrix models > #23,-0.43873,0.85053,-0.29002,128.57,0.88172,0.46973,0.043755,-73.78,0.17345,-0.23652,-0.95602,326.14 > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.5016,0.86498,-0.014183,89.647,0.8648,0.50179,0.017848,-71.545,0.022555,-0.0033128,-0.99974,322.29 > view matrix models > #23,-0.12566,0.99004,0.063463,-2.8586,0.97099,0.10961,0.21251,-61.966,0.20344,0.088325,-0.9751,275.15 > view matrix models > #23,0.062923,0.99454,0.08323,-37.148,0.97032,-0.080475,0.22806,-35.583,0.23351,0.06641,-0.97008,272.81 > view matrix models > #23,0.085084,0.98626,0.14159,-49.348,0.94574,-0.12467,0.30006,-37.139,0.31359,0.10838,-0.94335,249.05 > view matrix models > #23,0.082973,0.97398,0.21092,-58.906,0.92297,-0.15492,0.35231,-37.752,0.37582,0.16544,-0.91181,225.03 > view matrix models > #23,-0.44275,0.89663,-0.0042584,73.708,0.79914,0.39675,0.45162,-118.65,0.40663,0.19655,-0.8922,212.03 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.44275,0.89663,-0.0042584,77.712,0.79914,0.39675,0.45162,-106.14,0.40663,0.19655,-0.8922,192.8 > view matrix models > #23,-0.44275,0.89663,-0.0042584,79.022,0.79914,0.39675,0.45162,-102.57,0.40663,0.19655,-0.8922,191.69 > view matrix models > #23,-0.44275,0.89663,-0.0042584,79.215,0.79914,0.39675,0.45162,-102.96,0.40663,0.19655,-0.8922,192.81 > view matrix models > #23,-0.44275,0.89663,-0.0042584,76.021,0.79914,0.39675,0.45162,-107.05,0.40663,0.19655,-0.8922,192.93 > view matrix models > #23,-0.44275,0.89663,-0.0042584,76.815,0.79914,0.39675,0.45162,-106.61,0.40663,0.19655,-0.8922,192.16 > view matrix models > #23,-0.44275,0.89663,-0.0042584,77.743,0.79914,0.39675,0.45162,-107.73,0.40663,0.19655,-0.8922,192.36 > view matrix models > #23,-0.44275,0.89663,-0.0042584,80.02,0.79914,0.39675,0.45162,-107.1,0.40663,0.19655,-0.8922,192.52 > view matrix models > #23,-0.44275,0.89663,-0.0042584,81.456,0.79914,0.39675,0.45162,-107.4,0.40663,0.19655,-0.8922,194.13 > fitmap #23 inMap #22 Fit molecule 7lue.pdb (#23) to map cryosparc_P844_J98__localfilter.mrc (#22) using 15018 atoms average map value = 0.05889, steps = 120 shifted from previous position = 1.84 rotated from previous position = 3.81 degrees atoms outside contour = 13876, contour level = 0.30656 Position of 7lue.pdb (#23) relative to cryosparc_P844_J98__localfilter.mrc (#22) coordinates: Matrix rotation and translation -0.48219330 0.87543428 0.03323307 86.41164844 0.77596682 0.40918271 0.48004689 -108.93895351 0.40665111 0.25726315 -0.87661311 181.67364929 Axis -0.49945058 -0.83715202 -0.22299242 Axis point 63.33502457 0.00000000 111.42821778 Rotation angle (degrees) 167.11300788 Shift along axis 7.52827052 > show #!25 models > hide #!22 models > view matrix models > #23,-0.48219,0.87543,0.033233,84.762,0.77597,0.40918,0.48005,-115.37,0.40665,0.25726,-0.87661,179.75 > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.38594,0.092133,0.91791,38.32,0.50661,-0.81038,0.29434,144.85,0.77097,0.57862,0.26608,-121.49 > view matrix models > #23,-0.94275,0.14798,-0.29889,325.65,-0.15536,-0.98786,0.00091976,327.83,-0.29512,0.047301,0.95429,13.539 > view matrix models > #23,-0.68181,-0.70605,-0.1914,395.45,0.72954,-0.67555,-0.1068,156.66,-0.053897,-0.21245,0.97568,10.72 > view matrix models > #23,-0.62782,-0.77764,-0.033518,370.88,0.77579,-0.62167,-0.10804,141.25,0.063177,-0.093831,0.99358,-29.139 > view matrix models > #23,-0.89249,-0.43274,-0.12725,376.79,0.44088,-0.89652,-0.043434,225.82,-0.095284,-0.094866,0.99092,-3.1108 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.89249,-0.43274,-0.12725,386.7,0.44088,-0.89652,-0.043434,233.29,-0.095284,-0.094866,0.99092,23.213 > view matrix models > #23,-0.89249,-0.43274,-0.12725,391.91,0.44088,-0.89652,-0.043434,229.72,-0.095284,-0.094866,0.99092,23.793 > view matrix models > #23,-0.89249,-0.43274,-0.12725,389.31,0.44088,-0.89652,-0.043434,233.46,-0.095284,-0.094866,0.99092,29.147 > view matrix models > #23,-0.89249,-0.43274,-0.12725,387.85,0.44088,-0.89652,-0.043434,232.31,-0.095284,-0.094866,0.99092,29.106 > view matrix models > #23,-0.89249,-0.43274,-0.12725,386.9,0.44088,-0.89652,-0.043434,231.6,-0.095284,-0.094866,0.99092,27.27 > view matrix models > #23,-0.89249,-0.43274,-0.12725,387.54,0.44088,-0.89652,-0.043434,230.26,-0.095284,-0.094866,0.99092,25.461 > view matrix models > #23,-0.89249,-0.43274,-0.12725,387.53,0.44088,-0.89652,-0.043434,229.55,-0.095284,-0.094866,0.99092,25.794 > view matrix models > #23,-0.89249,-0.43274,-0.12725,388.29,0.44088,-0.89652,-0.043434,230.78,-0.095284,-0.094866,0.99092,25.858 > volume #25 level 0.3401 > view matrix models > #23,-0.89249,-0.43274,-0.12725,388.32,0.44088,-0.89652,-0.043434,230.57,-0.095284,-0.094866,0.99092,25.962 > fitmap #23 inMap #25 Fit molecule 7lue.pdb (#23) to map cryosparc_P844_J98__localfilter.mrc z flip (#25) using 15018 atoms average map value = 0.06772, steps = 60 shifted from previous position = 1.58 rotated from previous position = 2.62 degrees atoms outside contour = 13978, contour level = 0.34005 Position of 7lue.pdb (#23) relative to cryosparc_P844_J98__localfilter.mrc z flip (#25) coordinates: Matrix rotation and translation -0.87184845 -0.47312012 -0.12663974 391.27512350 0.48035838 -0.87646711 -0.03257658 219.36184765 -0.09558293 -0.08923430 0.99141371 23.45870689 Axis -0.05928616 -0.03249758 0.99771191 Axis point 168.39905238 159.89026979 0.00000000 Rotation angle (degrees) 151.45606036 Shift along axis -6.92089965 > view matrix models > #23,-0.87185,-0.47312,-0.12664,391,0.48036,-0.87647,-0.032577,219.27,-0.095583,-0.089234,0.99141,23.387 > volume #25 level 0.1592 > open /Users/hmed/Downloads/cryosparc_P844_J89_003_volume_map_sharp.mrc Opened cryosparc_P844_J89_003_volume_map_sharp.mrc as #26, grid size 360,360,360, pixel 0.829, shown at level 0.0489, step 2, values float32 > volume #26 level 0.1322 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #26 step 1 > view matrix models > #23,-0.87185,-0.47312,-0.12664,441.18,0.48036,-0.87647,-0.032577,188.24,-0.095583,-0.089234,0.99141,14.636 > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.25443,0.95263,0.16661,75.518,0.9146,0.18104,0.36156,-109.16,0.31427,0.24437,-0.91734,222.08 > view matrix models > #23,-0.5685,0.81909,0.076756,161.46,0.77231,0.49922,0.39283,-140.03,0.28345,0.2826,-0.9164,221.06 > view matrix models > #23,-0.010629,0.92597,0.37745,4.6824,0.95273,-0.10524,0.28501,-58.738,0.30364,0.36263,-0.88108,199.65 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.010629,0.92597,0.37745,-49.842,0.95273,-0.10524,0.28501,-33.943,0.30364,0.36263,-0.88108,200.85 > view matrix models > #23,-0.010629,0.92597,0.37745,-49.006,0.95273,-0.10524,0.28501,-39.119,0.30364,0.36263,-0.88108,188.4 > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.38673,0.92062,0.053769,67.071,0.91327,0.37425,0.16086,-84.649,0.12796,0.11131,-0.98551,272.53 > view matrix models > #23,-0.37294,0.87848,0.29866,29.708,0.92785,0.35386,0.11778,-76.577,-0.0022175,0.32103,-0.94707,254.99 > view matrix models > #23,-0.35092,0.8946,0.27667,27.455,0.93564,0.32302,0.14227,-77.291,0.037903,0.30879,-0.95037,250.98 > view matrix models > #23,-0.26003,0.92456,0.27852,8.0055,0.96403,0.23212,0.12951,-65.854,0.055087,0.30218,-0.95166,249.45 > view matrix models > #23,-0.2669,0.94569,0.18554,21.673,0.95697,0.23733,0.16695,-71.87,0.11385,0.22212,-0.96835,255.03 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.2669,0.94569,0.18554,15.937,0.95697,0.23733,0.16695,-62.079,0.11385,0.22212,-0.96835,255.37 > view matrix models > #23,-0.2669,0.94569,0.18554,16.559,0.95697,0.23733,0.16695,-63.706,0.11385,0.22212,-0.96835,254.68 > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.61768,0.69862,0.36111,80.61,0.64761,0.71237,-0.27044,-12.101,-0.44618,0.066814,-0.89245,355.25 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.61768,0.69862,0.36111,82.691,0.64761,0.71237,-0.27044,-27.146,-0.44618,0.066814,-0.89245,352.42 > view matrix models > #23,-0.61768,0.69862,0.36111,86.021,0.64761,0.71237,-0.27044,-31.42,-0.44618,0.066814,-0.89245,354.8 > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.35403,0.88521,0.30177,25.419,0.88952,0.41836,-0.18364,-40.238,-0.28881,0.20342,-0.93553,316.09 > view matrix models > #23,-0.33892,0.89184,0.2996,22.355,0.89833,0.40138,-0.17858,-39.929,-0.27952,0.20862,-0.9372,314.1 > view matrix models > #23,-0.36822,0.82682,0.42519,15.632,0.89978,0.43207,-0.060959,-64.79,-0.23411,0.36013,-0.90305,277.97 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.36822,0.82682,0.42519,17.105,0.89978,0.43207,-0.060959,-59.623,-0.23411,0.36013,-0.90305,278.64 > view matrix models > #23,-0.36822,0.82682,0.42519,17.82,0.89978,0.43207,-0.060959,-55.938,-0.23411,0.36013,-0.90305,278.06 > view matrix models > #23,-0.36822,0.82682,0.42519,18.464,0.89978,0.43207,-0.060959,-55.945,-0.23411,0.36013,-0.90305,274.65 > view matrix models > #23,-0.36822,0.82682,0.42519,18.733,0.89978,0.43207,-0.060959,-59.948,-0.23411,0.36013,-0.90305,275.15 > view matrix models > #23,-0.36822,0.82682,0.42519,17.065,0.89978,0.43207,-0.060959,-57.145,-0.23411,0.36013,-0.90305,275.71 > ui mousemode right ""rotate selected models"" > view matrix models > #23,-0.4082,0.80148,0.43703,25.321,0.88087,0.47149,-0.041926,-63.339,-0.23966,0.36786,-0.89847,274.65 > view matrix models > #23,-0.37624,0.84299,0.38447,22.802,0.87933,0.45563,-0.13852,-44.284,-0.29195,0.28596,-0.91269,297.9 > view matrix models > #23,-0.27216,0.91689,0.29197,10.564,0.92133,0.33584,-0.19584,-23.076,-0.27762,0.2157,-0.93616,310.28 > view matrix models > #23,-0.2881,0.91057,0.2964,13.33,0.93175,0.33799,-0.13267,-35.794,-0.22098,0.23795,-0.9458,299.44 > view matrix models > #23,-0.58694,0.80263,-0.10625,146.02,0.80924,0.58565,-0.046238,-68.48,0.025112,-0.11312,-0.99326,321.42 > ui mousemode right ""translate selected models"" > view matrix models > #23,-0.58694,0.80263,-0.10625,141.18,0.80924,0.58565,-0.046238,-73.034,0.025112,-0.11312,-0.99326,322.73 > view matrix models > #23,-0.58694,0.80263,-0.10625,148.8,0.80924,0.58565,-0.046238,-71.214,0.025112,-0.11312,-0.99326,315.23 > view matrix models > #23,-0.58694,0.80263,-0.10625,139.02,0.80924,0.58565,-0.046238,-66.06,0.025112,-0.11312,-0.99326,313.75 > view matrix models > #23,-0.58694,0.80263,-0.10625,135.19,0.80924,0.58565,-0.046238,-65.768,0.025112,-0.11312,-0.99326,313.68 > hide #!26 models > show #!26 models > select subtract #23 Nothing selected > hide #!23 models > volume #25 level 0.2597 > open /Users/hmed/Documents/nipah/nipah1/output_ca_points_before_pruning.cif > /Users/hmed/Documents/nipah/nipah1/see_alpha_output_p.cif > /Users/hmed/Documents/nipah/nipah1/see_alpha_output_ca.cif > /Users/hmed/Documents/nipah/nipah1/see_alpha_merged_output.cif > /Users/hmed/Documents/nipah/nipah1/output_p_points_before_pruning.cif Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/output_ca_points_before_pruning.cif --- warnings | Missing entity information. Treating each chain as a separate entity. Missing or incomplete sequence information. Inferred polymer connectivity. Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/see_alpha_output_p.cif --- warnings | Missing entity information. Treating each chain as a separate entity. Missing or incomplete sequence information. Inferred polymer connectivity. Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/see_alpha_output_ca.cif --- warnings | Missing entity information. Treating each chain as a separate entity. Missing or incomplete sequence information. Inferred polymer connectivity. Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/see_alpha_merged_output.cif --- warnings | Missing entity information. Treating each chain as a separate entity. Missing or incomplete sequence information. Inferred polymer connectivity. Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/output_p_points_before_pruning.cif --- warnings | Missing entity information. Treating each chain as a separate entity. Missing or incomplete sequence information. Inferred polymer connectivity. Chain information for output_ca_points_before_pruning.cif #27 --- Chain | Description 1 | No description available Chain information for see_alpha_output_p.cif #28 --- Chain | Description 1 | No description available Chain information for see_alpha_output_ca.cif #29 --- Chain | Description 1 | No description available Chain information for see_alpha_merged_output.cif #30 --- Chain | Description 1 | No description available 2 | No description available Chain information for output_p_points_before_pruning.cif #31 --- Chain | Description 1 | No description available > hide #!31 models > hide #!30 models > hide #!29 models > hide #!28 models > hide #!27 models > show #!28 models > hide #!28 models > show #!29 models > show #!30 models > hide #!29 models > show #!28 models > hide #!30 models > hide #!28 models > show #!29 models > hide #!29 models > show #!30 models > hide #!30 models > show #!31 models > hide #!31 models > show #!27 models > hide #!27 models > show #!23 models > hide #!23 models > show #!31 models > hide #!31 models > show #!27 models > hide #!27 models > open /Users/hmed/Documents/nipah/nipah1/job005.cif Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/job005.cif --- warnings | Missing entity information. Treating each chain as a separate entity. Missing or incomplete sequence information. Inferred polymer connectivity. Chain information for job005.cif #32 --- Chain | Description Aa | No description available Ab | No description available Ac | No description available Ad | No description available Ae | No description available Af | No description available Ag | No description available Ah | No description available Ba | No description available Bb | No description available Ca | No description available Cb | No description available Cc | No description available > open /Users/hmed/Documents/nipah/nipah1/job005_raw.cif Summary of feedback from opening /Users/hmed/Documents/nipah/nipah1/job005_raw.cif --- warnings | Missing entity information. Treating each chain as a separate entity. Missing or incomplete sequence information. Inferred polymer connectivity. Chain information for job005_raw.cif #33 --- Chain | Description 0 | No description available 1 | No description available 2 | No description available 3 | No description available 4 | No description available 5 | No description available 6 | No description available 7 | No description available 8 | No description available 9 | No description available A | No description available AA | No description available AB | No description available AC | No description available AD | No description available AE | No description available AF | No description available AG | No description available AH | No description available AI | No description available AJ | No description available AK | No description available AL | No description available AM | No description available AN | No description available AO | No description available AP | No description available AQ | No description available AR | No description available AS | No description available AT | No description available AU | No description available AV AW | No description available AX | No description available AY | No description available AZ | No description available Aa | No description available Ab | No description available Ac | No description available Ad | No description available Ae | No description available Af | No description available Ag | No description available Ah | No description available Ai | No description available Aj | No description available Ak | No description available B | No description available C | No description available D | No description available E | No description available F | No description available G | No description available H | No description available I | No description available J | No description available K | No description available L | No description available M | No description available N | No description available O | No description available P | No description available Q | No description available R | No description available S | No description available T | No description available U | No description available V | No description available W | No description available X | No description available Y | No description available Z | No description available a | No description available b | No description available c | No description available d | No description available e | No description available f | No description available g | No description available h l | No description available i | No description available j | No description available k | No description available m | No description available n | No description available o | No description available p | No description available q | No description available r | No description available s | No description available t | No description available u | No description available v | No description available w | No description available x | No description available y | No description available z | No description available > hide #!32 models > show #33 cartoons > hide #33 atoms > show #!32 models > hide #33 models > show #!32 cartoons > hide #!32 atoms > show #!25 models > hide #!25 models > show #!5 models > hide #!5 models > show #!6 models > hide #!6 models > show #!1 models > hide #!1 models > select #32/Ba /Ca 1745 atoms, 1793 bonds, 1 pseudobond, 224 residues, 2 models selected > select ~sel & ##selected 5383 atoms, 5492 bonds, 20 pseudobonds, 686 residues, 2 models selected > delete sel The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > save /Users/hmed/Documents/nipah/nipah1/ModelAngelo3_fabonly.pdb models #32 > relModel #1 > open /Users/hmed/Downloads/cryosparc_P1301_J47_007_volume_map_sharp.mrc Opened cryosparc_P1301_J47_007_volume_map_sharp.mrc as #34, grid size 352,352,352, pixel 0.96, shown at level 1.1, step 2, values float32 > volume #34 level 0.4837 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #34 step 1 > open ""/Users/hmed/Downloads/2ws9 (1).pdb"" 2ws9 (1).pdb title: Equine rhinitis A virus At low pH [more info...] Chain information for 2ws9 (1).pdb #35 --- Chain | Description | UniProt 1 | P1 | B9VV85_9PICO 1-246 2 | P1 | B9VV85_9PICO 1-230 3 | P1 | B9VV85_9PICO 1-226 4 | P1 | B9VV85_9PICO 1-80 > select add #35 5364 atoms, 5534 bonds, 693 residues, 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #35,1,0,0,291.22,0,1,0,-132.27,0,0,1,-87.441 > view matrix models #35,1,0,0,327.34,0,1,0,-129.32,0,0,1,-64.612 > view matrix models #35,1,0,0,360.84,0,1,0,-129.46,0,0,1,-41.425 > ui mousemode right ""rotate selected models"" > view matrix models > #35,0.51908,-0.33218,-0.78754,598.33,0.34963,0.9233,-0.15899,-73.989,0.77995,-0.19281,0.5954,97.896 > view matrix models > #35,0.76214,-0.46532,-0.45014,558.33,0.43495,0.88301,-0.17636,-60.259,0.47954,-0.061376,0.87537,4.8157 > view matrix models > #35,0.76073,-0.45562,-0.46227,558.77,0.4231,0.8882,-0.17913,-60.96,0.49221,-0.059315,0.86846,5.9968 > ui mousemode right ""translate selected models"" > view matrix models > #35,0.76073,-0.45562,-0.46227,483.96,0.4231,0.8882,-0.17913,-47.31,0.49221,-0.059315,0.86846,19.088 > view matrix models > #35,0.76073,-0.45562,-0.46227,469.62,0.4231,0.8882,-0.17913,-65.677,0.49221,-0.059315,0.86846,7.8672 > view matrix models > #35,0.76073,-0.45562,-0.46227,431.66,0.4231,0.8882,-0.17913,-77.037,0.49221,-0.059315,0.86846,-17.413 > view matrix models > #35,0.76073,-0.45562,-0.46227,442.63,0.4231,0.8882,-0.17913,-95.981,0.49221,-0.059315,0.86846,-20.118 > view matrix models > #35,0.76073,-0.45562,-0.46227,443.52,0.4231,0.8882,-0.17913,-92.066,0.49221,-0.059315,0.86846,-27.933 > ui mousemode right ""rotate selected models"" > view matrix models > #35,0.96596,-0.081199,-0.24563,316.07,0.1779,0.89783,0.40281,-222.31,0.18783,-0.4328,0.88171,48.67 > ui mousemode right ""translate selected models"" > view matrix models > #35,0.96596,-0.081199,-0.24563,313.02,0.1779,0.89783,0.40281,-222.21,0.18783,-0.4328,0.88171,43.313 > ui mousemode right ""rotate selected models"" > view matrix models > #35,0.95788,-0.040004,-0.28438,312.08,0.14952,0.91492,0.37492,-220.36,0.24518,-0.40165,0.88236,36.929 > view matrix models > #35,0.93117,0.010858,-0.36444,317.66,0.18362,0.84958,0.49447,-231.12,0.31499,-0.52735,0.78911,85.802 > view matrix models > #35,0.91735,0.033295,-0.39669,319.44,0.19992,0.82319,0.53141,-232.99,0.34424,-0.56679,0.7485,103.67 > view matrix models > #35,0.98423,0.089007,-0.15289,255.41,0.0013904,0.86031,0.50978,-238.99,0.17691,-0.50195,0.84661,66.118 > view matrix models > #35,0.95799,0.065121,-0.2793,287.6,0.092242,0.85216,0.51509,-237.23,0.27155,-0.51921,0.81036,78.897 > view matrix models > #35,0.90447,-0.11964,-0.4094,356.05,0.23749,0.93857,0.25039,-197.78,0.3543,-0.3237,0.87732,21.98 > ui mousemode right ""translate selected models"" > view matrix models > #35,0.90447,-0.11964,-0.4094,345.87,0.23749,0.93857,0.25039,-202.07,0.3543,-0.3237,0.87732,22.616 > view matrix models > #35,0.90447,-0.11964,-0.4094,348.91,0.23749,0.93857,0.25039,-203.7,0.3543,-0.3237,0.87732,19.067 > view matrix models > #35,0.90447,-0.11964,-0.4094,344.4,0.23749,0.93857,0.25039,-206.93,0.3543,-0.3237,0.87732,18.124 > ui mousemode right ""rotate selected models"" > view matrix models > #35,0.85072,0.064644,-0.52162,326.87,0.069158,0.97001,0.233,-212.22,0.52104,-0.2343,0.82074,12.405 > view matrix models > #35,0.89865,0.13735,-0.4166,288.68,-0.033702,0.96853,0.24661,-216.06,0.43736,-0.20758,0.875,-6.2186 > ui mousemode right ""translate selected models"" > view matrix models > #35,0.89865,0.13735,-0.4166,283.51,-0.033702,0.96853,0.24661,-215.3,0.43736,-0.20758,0.875,-10.201 > view matrix models > #35,0.89865,0.13735,-0.4166,282.4,-0.033702,0.96853,0.24661,-214.2,0.43736,-0.20758,0.875,-11.85 > view matrix models > #35,0.89865,0.13735,-0.4166,285.72,-0.033702,0.96853,0.24661,-213.62,0.43736,-0.20758,0.875,-12.142 > view matrix models > #35,0.89865,0.13735,-0.4166,291.26,-0.033702,0.96853,0.24661,-211.83,0.43736,-0.20758,0.875,-9.281 > view matrix models > #35,0.89865,0.13735,-0.4166,291.57,-0.033702,0.96853,0.24661,-215.33,0.43736,-0.20758,0.875,-9.2218 > view matrix models > #35,0.89865,0.13735,-0.4166,293.61,-0.033702,0.96853,0.24661,-212.87,0.43736,-0.20758,0.875,-13.262 > view matrix models > #35,0.89865,0.13735,-0.4166,293.72,-0.033702,0.96853,0.24661,-213.35,0.43736,-0.20758,0.875,-11.854 > view matrix models > #35,0.89865,0.13735,-0.4166,289.17,-0.033702,0.96853,0.24661,-214.4,0.43736,-0.20758,0.875,-11.776 > view matrix models > #35,0.89865,0.13735,-0.4166,285.07,-0.033702,0.96853,0.24661,-211.48,0.43736,-0.20758,0.875,-6.7416 > view matrix models > #35,0.89865,0.13735,-0.4166,283.04,-0.033702,0.96853,0.24661,-213.5,0.43736,-0.20758,0.875,4.1314 > view matrix models > #35,0.89865,0.13735,-0.4166,282.86,-0.033702,0.96853,0.24661,-215.02,0.43736,-0.20758,0.875,1.722 > view matrix models > #35,0.89865,0.13735,-0.4166,282.92,-0.033702,0.96853,0.24661,-216.05,0.43736,-0.20758,0.875,3.7176 > view matrix models > #35,0.89865,0.13735,-0.4166,287.23,-0.033702,0.96853,0.24661,-214.93,0.43736,-0.20758,0.875,2.6605 > view matrix models > #35,0.89865,0.13735,-0.4166,287.33,-0.033702,0.96853,0.24661,-217.43,0.43736,-0.20758,0.875,7.6712 > view matrix models > #35,0.89865,0.13735,-0.4166,287.09,-0.033702,0.96853,0.24661,-218.54,0.43736,-0.20758,0.875,7.8258 > view matrix models > #35,0.89865,0.13735,-0.4166,289.33,-0.033702,0.96853,0.24661,-218.82,0.43736,-0.20758,0.875,10.624 > view matrix models > #35,0.89865,0.13735,-0.4166,290.2,-0.033702,0.96853,0.24661,-218.02,0.43736,-0.20758,0.875,13.282 > color sel bychain > view matrix models > #35,0.89865,0.13735,-0.4166,289.38,-0.033702,0.96853,0.24661,-218.27,0.43736,-0.20758,0.875,13.384 > ui mousemode right ""rotate selected models"" > view matrix models > #35,0.34982,0.88777,0.29915,-38.165,-0.85104,0.43464,-0.29466,7.1052,-0.39161,-0.15151,0.90757,-16.091 > view matrix models > #35,-0.51756,0.85563,0.0057505,21.631,-0.38093,-0.22439,-0.89696,288.97,-0.76617,-0.46643,0.44207,149.59 > view matrix models > #35,-0.42598,-0.055543,0.90303,32.559,-0.51028,-0.80946,-0.2905,287.2,0.7471,-0.58454,0.31647,221.12 > ui mousemode right ""translate selected models"" > view matrix models > #35,-0.42598,-0.055543,0.90303,57.091,-0.51028,-0.80946,-0.2905,311.91,0.7471,-0.58454,0.31647,220.58 > view matrix models > #35,-0.42598,-0.055543,0.90303,61.813,-0.51028,-0.80946,-0.2905,308.58,0.7471,-0.58454,0.31647,214.4 > view matrix models > #35,-0.42598,-0.055543,0.90303,68.257,-0.51028,-0.80946,-0.2905,313.51,0.7471,-0.58454,0.31647,220.83 > view matrix models > #35,-0.42598,-0.055543,0.90303,66.015,-0.51028,-0.80946,-0.2905,312.66,0.7471,-0.58454,0.31647,228.57 > view matrix models > #35,-0.42598,-0.055543,0.90303,75.284,-0.51028,-0.80946,-0.2905,306.74,0.7471,-0.58454,0.31647,223.56 > ui mousemode right ""rotate selected models"" > view matrix models > #35,-0.42067,-0.22504,0.87886,118.27,0.11946,-0.97405,-0.19223,329.83,0.89931,0.024121,0.43664,64.097 > view matrix models > #35,-0.085489,0.038536,0.99559,38.543,0.17164,-0.98374,0.052816,279.91,0.98144,0.1754,0.077484,108.65 > view matrix models > #35,0.0017686,0.088627,0.99606,28.346,0.01134,-0.996,0.088601,273.01,0.99993,0.011139,-0.0027665,162.69 > view matrix models > #35,0.01909,-0.12031,0.99255,75.811,0.048455,-0.99146,-0.12111,317.55,0.99864,0.050406,-0.013097,156.16 > view matrix models > #35,-0.068663,-0.062774,0.99566,61.278,0.20604,-0.97739,-0.047413,300.47,0.97613,0.20189,0.080045,102.14 > view matrix models > #35,-0.059322,-0.13618,0.98891,79.18,0.22051,-0.96797,-0.12007,314.17,0.97358,0.21094,0.08745,98.508 > view matrix models > #35,-0.044082,-0.19998,0.97881,95.735,0.2296,-0.95556,-0.18489,325.46,0.97229,0.21658,0.088037,97.11 > view matrix models > #35,-0.042575,-0.19323,0.98023,93.946,0.22409,-0.95797,-0.17911,324.69,0.97364,0.21203,0.084086,98.989 > view matrix models > #35,-0.036963,-0.073152,0.99664,63.761,0.21393,-0.97477,-0.063613,303.47,0.97615,0.21086,0.05168,106.25 > view matrix models > #35,0.22998,-0.22087,0.9478,110.36,-0.29907,-0.94282,-0.14714,308.13,0.9261,-0.24962,-0.28288,280.08 > view matrix models > #35,0.34064,-0.24824,0.90683,126.59,-0.26526,-0.95071,-0.16061,313.19,0.902,-0.18584,-0.3897,288.56 > view matrix models > #35,0.30907,-0.24288,0.9195,122.29,-0.1568,-0.96662,-0.20263,327.08,0.93802,-0.081552,-0.33684,254.42 > view matrix models > #35,0.082558,0.24997,0.96473,0.15116,-0.08965,-0.96225,0.257,228.07,0.99255,-0.10771,-0.057031,200.72 > volume flip #34 Opened cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip as #36, grid size 352,352,352, pixel 0.96, shown at step 1, values float32 > view matrix models > #35,-0.00067091,0.023816,0.99972,41.955,-0.028759,-0.9993,0.023787,287.2,0.99959,-0.028735,0.0013554,170.68 > view matrix models > #35,-0.0088848,0.091017,0.99581,27.74,-0.17167,-0.9812,0.08815,267.61,0.98511,-0.17017,0.024343,197.04 > view matrix models > #35,-0.21102,0.036949,0.97678,41.429,0.25394,-0.9629,0.091283,268,0.94392,0.2673,0.19381,62.733 > view matrix models > #35,-0.16544,0.03807,0.98548,39.857,0.2756,-0.95766,0.083263,268.81,0.94693,0.28538,0.14794,68.611 > view matrix models > #35,-0.14526,-0.010914,0.98933,50.175,0.24042,-0.97036,0.024594,283.83,0.95974,0.24142,0.14357,79.487 > ui tool show ""Fit in Map"" > fitmap #35 inMap #36 Fit molecule 2ws9 (1).pdb (#35) to map cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip (#36) using 5364 atoms average map value = 0.7781, steps = 116 shifted from previous position = 5.52 rotated from previous position = 15.5 degrees atoms outside contour = 1385, contour level = 0.48369 Position of 2ws9 (1).pdb (#35) relative to cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip (#36) coordinates: Matrix rotation and translation -0.03078576 0.02356208 0.99924825 41.92263837 -0.00007065 -0.99972216 0.02357107 291.20808902 0.99952601 0.00065505 0.03077887 163.05175872 Axis -0.69611220 -0.00843723 -0.71788343 Axis point -56.42996371 144.99890600 0.00000000 Rotation angle (degrees) 179.05686867 Shift along axis -148.69200656 > select subtract #35 Nothing selected > transparency #36.1 50 > measure symmetry Missing or invalid ""volumes"" argument: empty atom specifier > measure symmetry #35 No volume specified > measure symmetry #36 Symmetry cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip: Icosahedral 222r, center 176 176 175 > sym #35 symmetry #36 Made 60 graphical clones for 2ws9 (1).pdb symmetry #36 > color #35#!32 bychain > ui tool show ""Side View"" > style #35#!32 stick Changed 7109 atom styles > show #35#!32 atoms > color #35#!32 byhetero > open ""/Users/hmed/Downloads/2wff (1).pdb"" 2wff (1).pdb title: Equine rhinitis A virus [more info...] Chain information for 2wff (1).pdb #37 --- Chain | Description | UniProt 1 | P1 | B9VV85_9PICO 1-246 2 | P1 | B9VV85_9PICO 1-230 3 | P1 | B9VV85_9PICO 1-226 4 | P1 | B9VV85_9PICO 1-80 > mmaker #37 to #35 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 2ws9 (1).pdb, chain 1 (#35) with 2wff (1).pdb, chain 1 (#37), sequence alignment score = 1196.8 RMSD between 221 pruned atom pairs is 0.599 angstroms; (across all 246 pairs: 4.654) > fitmap #37 inMap #36 Fit molecule 2wff (1).pdb (#37) to map cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip (#36) using 5506 atoms average map value = 0.7362, steps = 60 shifted from previous position = 0.215 rotated from previous position = 0.372 degrees atoms outside contour = 1662, contour level = 0.48369 Position of 2wff (1).pdb (#37) relative to cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip (#36) coordinates: Matrix rotation and translation -0.53336579 -0.01351308 0.84577676 9.47543369 0.01340566 -0.99988185 -0.00752133 169.56462999 0.84577847 0.00732658 0.53348392 33.92218426 Axis 0.48298221 -0.00005561 0.87563016 Axis point -5.36192282 84.75233440 0.00000000 Rotation angle (degrees) 179.11926776 Shift along axis 34.27032484 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select add #37 5506 atoms, 5676 bonds, 713 residues, 1 model selected > show sel atoms > select subtract #37 Nothing selected > ui tool show ""Map Coordinates"" > hide #!36 models > show #!36 models > hide #35 models Opened 2wff (1).pdb map 3 as #38, grid size 105,105,99, pixel 1, shown at level 0.111, step 1, values float32 Opened 2wff (1).pdb map 3 as #39, grid size 105,105,99, pixel 1, shown at level 0.111, step 1, values float32 > fitmap #37 inMap #36 resolution 3 Fit map 2wff (1).pdb map 3 in map cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip using 58352 points correlation = 0.7942, correlation about mean = 0.5162, overlap = 1.983e+04 steps = 44, shift = 0.0079, angle = 0.0129 degrees Position of 2wff (1).pdb map 3 (#39) relative to cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip (#36) coordinates: Matrix rotation and translation -0.53335577 -0.01331552 0.84578621 9.45041894 0.01338988 -0.99988372 -0.00729783 169.49789764 0.84578504 0.00743264 0.53347205 33.91981803 Axis 0.48298813 0.00003849 0.87562690 Axis point -5.36772928 84.71727810 0.00000000 Rotation angle (degrees) 179.12624528 Shift along axis 34.27206922 Average map value = 0.7362 for 5506 atoms, 1656 outside contour > select add #37 5506 atoms, 5676 bonds, 713 residues, 1 model selected > view matrix models > #37,-0.53106,-0.01556,0.84719,9.3362,0.016148,-0.99984,-0.0082411,169.82,0.84718,0.0093036,0.53123,34.396 > ui mousemode right ""translate selected models"" > view matrix models > #37,-0.53106,-0.01556,0.84719,13.882,0.016148,-0.99984,-0.0082411,167.74,0.84718,0.0093036,0.53123,38.097 > view matrix models > #37,-0.53106,-0.01556,0.84719,13.67,0.016148,-0.99984,-0.0082411,168.58,0.84718,0.0093036,0.53123,36.117 > view matrix models > #37,-0.53106,-0.01556,0.84719,15.525,0.016148,-0.99984,-0.0082411,169.55,0.84718,0.0093036,0.53123,40.012 > select subtract #37 Nothing selected > hide #37 models > show #35 models > show #37 models > fitmap #37 inMap #36 resolution 3 Fit map 2wff (1).pdb map 3 in map cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip using 58352 points correlation = 0.7942, correlation about mean = 0.5161, overlap = 1.983e+04 steps = 140, shift = 8.38, angle = 0.237 degrees Position of 2wff (1).pdb map 3 (#38) relative to cryosparc_P1301_J47_007_volume_map_sharp.mrc z flip (#36) coordinates: Matrix rotation and translation -0.53343864 -0.01326730 0.84573471 9.45729930 0.01318503 -0.99988592 -0.00736920 169.51126257 0.84573600 0.00722002 0.53355271 33.89940269 Axis 0.48294611 -0.00004259 0.87565007 Axis point -5.35063405 84.72591927 0.00000000 Rotation angle (degrees) 179.13454913 Shift along axis 34.24416042 Average map value = 0.7362 for 5506 atoms, 1659 outside contour > hide #35 models > show #35 models > hide #35 models > show #35 models > hide #35 models > show #35 models > volume #36 level 0.3611 > ui tool show ""Side View"" > volume #36 level 0.5888 > volume #36 level 0.3261 ===== Log before crash end ===== Log: 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 ""/Users/hmed/Downloads/cryosparc_P4_J52_004_volume_map_sharp (1).mrc"" Opened cryosparc_P4_J52_004_volume_map_sharp (1).mrc as #1, grid size 280,280,280, pixel 1.46, shown at level 0.121, step 2, values float32 OpenGL version: 4.1 Metal - 83.1 OpenGL renderer: Apple M2 Pro OpenGL vendor: Apple Python: 3.11.4 Locale: UTF-8 Qt version: PyQt6 6.6.1, Qt 6.6.1 Qt runtime version: 6.6.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: Mac14,9 Model Number: MPHF3B/A Chip: Apple M2 Pro Total Number of Cores: 12 (8 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 10151.121.1 OS Loader Version: 8422.141.2.700.1 Software: System Software Overview: System Version: macOS 13.6.7 (22G720) Kernel Version: Darwin 22.6.0 Time since boot: 6 days, 8 hours, 2 minutes Graphics/Displays: Apple M2 Pro: Chipset Model: Apple M2 Pro Type: GPU Bus: Built-In Total Number of Cores: 19 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 0.7.16 annotated-types: 0.7.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 Babel: 2.15.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.0.0 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.4 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.17 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.7 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-ArtiaX: 0.4.7 ChimeraX-Atomic: 1.57.1 ChimeraX-AtomicLibrary: 14.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.4.6 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.12.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.7 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: 2.2.4 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: 1.8 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.3 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2.4 ChimeraX-DiffPlot: 1.0 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: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.10 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.2 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: 2.1.3 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.1 ChimeraX-MedicalToolbar: 1.0.3 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.17 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-Neuron: 1.0 ChimeraX-Nifti: 1.2 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.2 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.5 ChimeraX-PDB: 2.7.5 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: 1.1.1 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.4.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 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: 3.0.15 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.11.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.16.5 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: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.39.1 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.3 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: 1.2.1 cxservices: 1.2.2 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.1 decorator: 5.1.1 docutils: 0.20.1 executing: 2.0.1 filelock: 3.13.4 fonttools: 4.53.0 funcparserlib: 2.0.0a0 geomdl: 5.3.1 glfw: 2.7.0 grako: 3.16.5 h5py: 3.11.0 html2text: 2024.2.26 idna: 3.7 ihm: 1.0 imagecodecs: 2024.1.1 imagesize: 1.4.1 ipykernel: 6.29.2 ipython: 8.21.0 ipywidgets: 8.1.3 jedi: 0.19.1 jinja2: 3.1.4 jupyter-client: 8.6.0 jupyter-core: 5.7.2 jupyterlab-widgets: 3.0.11 kiwisolver: 1.4.5 line-profiler: 4.1.2 lxml: 5.2.1 lz4: 4.3.3 MarkupSafe: 2.1.5 matplotlib: 3.8.4 matplotlib-inline: 0.1.7 msgpack: 1.0.8 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.0 numpy: 1.26.4 openvr: 1.26.701 packaging: 23.2 pandas: 2.2.3 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pexpect: 4.9.0 pillow: 10.3.0 pip: 24.0 pkginfo: 1.10.0 platformdirs: 4.2.2 prompt-toolkit: 3.0.47 psutil: 5.9.8 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pyarrow: 17.0.0 pycollada: 0.8 pydantic: 2.9.2 pydantic-core: 2.23.4 pydicom: 2.4.4 pygments: 2.17.2 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.1.2 pyproject-hooks: 1.1.0 PyQt6-commercial: 6.6.1 PyQt6-Qt6: 6.6.3 PyQt6-sip: 13.6.0 PyQt6-WebEngine-commercial: 6.6.0 PyQt6-WebEngine-Qt6: 6.6.3 python-dateutil: 2.9.0.post0 pytz: 2024.1 pyzmq: 26.0.3 qtconsole: 5.5.1 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.13.0 setuptools: 69.5.1 setuptools-scm: 8.0.4 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 7.2.6 sphinx-autodoc-typehints: 2.0.1 sphinxcontrib-applehelp: 1.0.8 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.6 sphinxcontrib-htmlhelp: 2.0.5 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.7 sphinxcontrib-serializinghtml: 1.1.10 stack-data: 0.6.3 starfile: 0.5.8 superqt: 0.6.3 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2024.1.30 tinyarray: 1.2.4 tornado: 6.4.1 traitlets: 5.14.2 typing-extensions: 4.12.2 tzdata: 2024.1 urllib3: 2.2.1 wcwidth: 0.2.13 webcolors: 1.13 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.11 }}} " defect closed normal Window Toolkit duplicate all ChimeraX