id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17117 Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device returned engine == 0 chimerax-bug-report@… "{{{ The following bug report has been submitted: Platform: macOS-15.3.1-arm64-arm-64bit ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Segmentation fault Current thread 0x00000001f01f0840 (most recent call first): File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py"", line 275 in event_loop File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 892 in init File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 1043 in File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 87 in _run_code File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 197 in _run_module_as_main {""app_name"":""ChimeraX"",""timestamp"":""2025-03-18 12:50:09.00 +0000"",""app_version"":""1.6.1"",""slice_uuid"":""a5992708-d5b4-36ec-ac0a-e525f6105b56"",""build_version"":""1.6.1.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":0,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 15.3.1 (24D70)"",""roots_installed"":0,""name"":""ChimeraX"",""incident_id"":""0C180477-2E2C-49D6-9E56-31735D108B85""} { ""uptime"" : 640000, ""procRole"" : ""Background"", ""version"" : 2, ""userID"" : 504, ""deployVersion"" : 210, ""modelCode"" : ""Mac15,6"", ""coalitionID"" : 4311, ""osVersion"" : { ""train"" : ""macOS 15.3.1"", ""build"" : ""24D70"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2025-03-18 12:50:04.9464 +0000"", ""codeSigningMonitor"" : 1, ""incident"" : ""0C180477-2E2C-49D6-9E56-31735D108B85"", ""pid"" : 5986, ""translated"" : false, ""cpuType"" : ""ARM-64"", ""roots_installed"" : 0, ""bug_type"" : ""309"", ""procLaunch"" : ""2025-03-17 15:17:37.4035 +0000"", ""procStartAbsTime"" : 14887294212809, ""procExitAbsTime"" : 15388352198080, ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.6.1"",""CFBundleVersion"":""1.6.1.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""EEB06612-DA1C-576B-9EBE-0E8AF5F97D19"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""B9F21D8A-9717-0200-DDC0-1DF3192EE17C"", ""codeSigningID"" : ""edu.ucsf.cgl.ChimeraX"", ""codeSigningTeamID"" : ""LWV8X224YF"", ""codeSigningFlags"" : 570491649, ""codeSigningValidationCategory"" : 6, ""codeSigningTrustLevel"" : 4294967295, ""instructionByteStream"" : {""beforePC"":""fyMD1f17v6n9AwCRcuD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A=="",""atPC"":""AwEAVH8jA9X9e7+p\/QMAkWfg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g==""}, ""bootSessionUUID"" : ""560C9CEB-AC8D-4ED1-A5C6-B99B9BC36898"", ""wakeTime"" : 2, ""sleepWakeUUID"" : ""CBDB2DEC-8EB1-4447-92CC-7962D4A3C6C0"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x18 is not in any region. Bytes before following region: 4301881320\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 100698000-10069c000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX"", ""exception"" : {""codes"":""0x0000000000000001, 0x0000000000000018"",""rawCodes"":[1,24],""type"":""EXC_BAD_ACCESS"",""signal"":""SIGSEGV"",""subtype"":""KERN_INVALID_ADDRESS at 0x0000000000000018""}, ""termination"" : {""flags"":0,""code"":11,""namespace"":""SIGNAL"",""indicator"":""Segmentation fault: 11"",""byProc"":""ChimeraX"",""byPid"":5986}, ""ktriageinfo"" : ""VM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\n"", ""vmregioninfo"" : ""0x18 is not in any region. Bytes before following region: 4301881320\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 100698000-10069c000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX"", ""extMods"" : {""caller"":{""thread_create"":0,""thread_set_state"":0,""task_for_pid"":0},""system"":{""thread_create"":0,""thread_set_state"":0,""task_for_pid"":0},""targeted"":{""thread_create"":0,""thread_set_state"":0,""task_for_pid"":0},""warnings"":0}, ""faultingThread"" : 0, ""threads"" : [{""threadState"":{""x"":[{""value"":0},{""value"":0},{""value"":1},{""value"":6552240301},{""value"":5369003032},{""value"":4860374300364218050},{""value"":0},{""value"":6164973464},{""value"":16073227041229799824},{""value"":16073227036128938448},{""value"":78},{""value"":0},{""value"":49},{""value"":16},{""value"":14401142784},{""value"":2408775679},{""value"":328},{""value"":8464310976},{""value"":0},{""value"":11},{""value"":259},{""value"":8323533088,""symbolLocation"":224,""symbol"":""_main_thread""},{""value"":4737549376},{""value"":4737549376},{""value"":1},{""value"":32769},{""value"":32768},{""value"":8323539336,""symbolLocation"":0,""symbol"":""_NSConcreteStackBlock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552026992},""cpsr"":{""value"":1073745920},""fp"":{""value"":5369002832},""sp"":{""value"":5369002800},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551795488,""matchesCrashFrame"":1},""far"":{""value"":0}},""id"":55519149,""triggered"":true,""name"":""CrBrowserMain"",""queue"":""com.apple.main-thread"",""frames"":[{""imageOffset"":38688,""symbol"":""__pthread_kill"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":28528,""symbol"":""pthread_kill"",""symbolLocation"":288,""imageIndex"":154},{""imageOffset"":269336,""symbol"":""raise"",""symbolLocation"":32,""imageIndex"":155},{""imageOffset"":15844,""symbol"":""_sigtramp"",""symbolLocation"":56,""imageIndex"":156},{""imageOffset"":3459388,""symbol"":""QMacCGContext::QMacCGContext(QPainter*)"",""symbolLocation"":40,""imageIndex"":49},{""imageOffset"":43052,""imageIndex"":71},{""imageOffset"":73708,""imageIndex"":71},{""imageOffset"":464432,""symbol"":""QCommonStyle::drawControl(QStyle::ControlElement, QStyleOption const*, QPainter*, QWidget const*) const"",""symbolLocation"":2132,""imageIndex"":48},{""imageOffset"":63388,""imageIndex"":71},{""imageOffset"":710016,""imageIndex"":48},{""imageOffset"":1933144,""symbol"":""QTabBar::paintEvent(QPaintEvent*)"",""symbolLocation"":1584,""imageIndex"":48},{""imageOffset"":344492,""symbol"":""QWidget::event(QEvent*)"",""symbolLocation"":132,""imageIndex"":48},{""imageOffset"":1931192,""symbol"":""QTabBar::event(QEvent*)"",""symbolLocation"":736,""imageIndex"":48},{""imageOffset"":42768,""symbol"":""QApplicationPrivate::notify_helper(QObject*, QEvent*)"",""symbolLocation"":272,""imageIndex"":48},{""imageOffset"":49644,""symbol"":""QApplication::notify(QObject*, QEvent*)"",""symbolLocation"":3396,""imageIndex"":48},{""imageOffset"":1427128,""symbol"":""sipQApplication::notify(QObject*, QEvent*)"",""symbolLocation"":248,""imageIndex"":47},{""imageOffset"":429724,""symbol"":""QCoreApplication::notifyInternal2(QObject*, QEvent*)"",""symbolLocation"":292,""imageIndex"":45},{""imageOffset"":291900,""symbol"":""QWidgetPrivate::drawWidget(QPaintDevice*, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":3312,""imageIndex"":48},{""imageOffset"":322252,""symbol"":""QWidgetPrivate::paintSiblingsRecursive(QPaintDevice*, QList const&, int, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":864,""imageIndex"":48},{""imageOffset"":292156,""symbol"":""QWidgetPrivate::drawWidget(QPaintDevice*, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":3568,""imageIndex"":48},{""imageOffset"":322252,""symbol"":""QWidgetPrivate::paintSiblingsRecursive(QPaintDevice*, QList const&, int, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":864,""imageIndex"":48},{""imageOffset"":292156,""symbol"":""QWidgetPrivate::drawWidget(QPaintDevice*, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":3568,""imageIndex"":48},{""imageOffset"":322252,""symbol"":""QWidgetPrivate::paintSiblingsRecursive(QPaintDevice*, QList const&, int, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":864,""imageIndex"":48},{""imageOffset"":292156,""symbol"":""QWidgetPrivate::drawWidget(QPaintDevice*, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":3568,""imageIndex"":48},{""imageOffset"":322252,""symbol"":""QWidgetPrivate::paintSiblingsRecursive(QPaintDevice*, QList const&, int, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":864,""imageIndex"":48},{""imageOffset"":292156,""symbol"":""QWidgetPrivate::drawWidget(QPaintDevice*, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":3568,""imageIndex"":48},{""imageOffset"":322252,""symbol"":""QWidgetPrivate::paintSiblingsRecursive(QPaintDevice*, QList const&, int, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":864,""imageIndex"":48},{""imageOffset"":321980,""symbol"":""QWidgetPrivate::paintSiblingsRecursive(QPaintDevice*, QList const&, int, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":592,""imageIndex"":48},{""imageOffset"":321980,""symbol"":""QWidgetPrivate::paintSiblingsRecursive(QPaintDevice*, QList const&, int, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":592,""imageIndex"":48},{""imageOffset"":292156,""symbol"":""QWidgetPrivate::drawWidget(QPaintDevice*, QRegion const&, QPoint const&, QFlags, QPainter*, QWidgetRepaintManager*)"",""symbolLocation"":3568,""imageIndex"":48},{""imageOffset"":413000,""symbol"":""QWidgetRepaintManager::paintAndFlush()"",""symbolLocation"":3904,""imageIndex"":48},{""imageOffset"":413644,""symbol"":""QWidgetRepaintManager::sync()"",""symbolLocation"":252,""imageIndex"":48},{""imageOffset"":345676,""symbol"":""QWidget::event(QEvent*)"",""symbolLocation"":1316,""imageIndex"":48},{""imageOffset"":1508896,""symbol"":""QMainWindow::event(QEvent*)"",""symbolLocation"":248,""imageIndex"":48},{""imageOffset"":684736,""symbol"":""sipQMainWindow::event(QEvent*)"",""symbolLocation"":224,""imageIndex"":47},{""imageOffset"":42768,""symbol"":""QApplicationPrivate::notify_helper(QObject*, QEvent*)"",""symbolLocation"":272,""imageIndex"":48},{""imageOffset"":49644,""symbol"":""QApplication::notify(QObject*, QEvent*)"",""symbolLocation"":3396,""imageIndex"":48},{""imageOffset"":1427128,""symbol"":""sipQApplication::notify(QObject*, QEvent*)"",""symbolLocation"":248,""imageIndex"":47},{""imageOffset"":429724,""symbol"":""QCoreApplication::notifyInternal2(QObject*, QEvent*)"",""symbolLocation"":292,""imageIndex"":45},{""imageOffset"":399932,""symbol"":""QWidgetRepaintManager::sendUpdateRequest(QWidget*, QWidgetRepaintManager::UpdateTime)"",""symbolLocation"":604,""imageIndex"":48},{""imageOffset"":399228,""symbol"":""void QWidgetRepaintManager::markDirty(QRect const&, QWidget*, QWidgetRepaintManager::UpdateTime, QWidgetRepaintManager::BufferState)"",""symbolLocation"":1748,""imageIndex"":48},{""imageOffset"":438296,""imageIndex"":48},{""imageOffset"":730904,""imageIndex"":45},{""imageOffset"":812196,""symbol"":""QWindowPrivate::emitScreenChangedRecursion(QScreen*)"",""symbolLocation"":80,""imageIndex"":49},{""imageOffset"":770088,""symbol"":""QScreen::~QScreen()"",""symbolLocation"":700,""imageIndex"":49},{""imageOffset"":770192,""symbol"":""QScreen::~QScreen()"",""symbolLocation"":12,""imageIndex"":49},{""imageOffset"":854364,""symbol"":""QWindowSystemInterface::handleScreenRemoved(QPlatformScreen*)"",""symbolLocation"":36,""imageIndex"":49},{""imageOffset"":195752,""imageIndex"":68},{""imageOffset"":189688,""imageIndex"":68},{""imageOffset"":209240,""imageIndex"":68},{""imageOffset"":77484,""symbol"":""displayConfigFinalizedProc"",""symbolLocation"":264,""imageIndex"":157},{""imageOffset"":46948,""symbol"":""CGSPostLocalNotification"",""symbolLocation"":164,""imageIndex"":157},{""imageOffset"":45904,""symbol"":""(anonymous namespace)::notify_datagram_handler(unsigned int, CGSDatagramType, void*, unsigned long, void*)"",""symbolLocation"":116,""imageIndex"":157},{""imageOffset"":4325560,""symbol"":""CGSDatagramReadStream::dispatchMainQueueDatagrams()"",""symbolLocation"":228,""imageIndex"":157},{""imageOffset"":4325300,""symbol"":""invocation function for block in CGSDatagramReadStream::mainQueueWakeup()"",""symbolLocation"":28,""imageIndex"":157},{""imageOffset"":10324,""symbol"":""_dispatch_call_block_and_release"",""symbolLocation"":32,""imageIndex"":158},{""imageOffset"":17844,""symbol"":""_dispatch_client_callout"",""symbolLocation"":20,""imageIndex"":158},{""imageOffset"":77888,""symbol"":""_dispatch_main_queue_drain"",""symbolLocation"":984,""imageIndex"":158},{""imageOffset"":76888,""symbol"":""_dispatch_main_queue_callback_4CF"",""symbolLocation"":44,""imageIndex"":158},{""imageOffset"":772560,""symbol"":""__CFRUNLOOP_IS_SERVICING_THE_MAIN_DISPATCH_QUEUE__"",""symbolLocation"":16,""imageIndex"":159},{""imageOffset"":509372,""symbol"":""__CFRunLoopRun"",""symbolLocation"":1996,""imageIndex"":159},{""imageOffset"":505652,""symbol"":""CFRunLoopRunSpecific"",""symbolLocation"":588,""imageIndex"":159},{""imageOffset"":1094960,""symbol"":""RunCurrentEventLoopInMode"",""symbolLocation"":292,""imageIndex"":160},{""imageOffset"":1119048,""symbol"":""ReceiveNextEventCommon"",""symbolLocation"":676,""imageIndex"":160},{""imageOffset"":1119496,""symbol"":""_BlockUntilNextEventMatchingListInModeWithFilter"",""symbolLocation"":76,""imageIndex"":160},{""imageOffset"":243784,""symbol"":""_DPSNextEvent"",""symbolLocation"":660,""imageIndex"":161},{""imageOffset"":10099748,""symbol"":""-[NSApplication(NSEventRouting) _nextEventMatchingEventMask:untilDate:inMode:dequeue:]"",""symbolLocation"":688,""imageIndex"":161},{""imageOffset"":190580,""symbol"":""-[NSApplication run]"",""symbolLocation"":480,""imageIndex"":161},{""imageOffset"":86032,""imageIndex"":68},{""imageOffset"":467648,""symbol"":""QEventLoop::exec(QFlags)"",""symbolLocation"":532,""imageIndex"":45},{""imageOffset"":431416,""symbol"":""QCoreApplication::exec()"",""symbolLocation"":128,""imageIndex"":45},{""imageOffset"":2498220,""symbol"":""meth_QApplication_exec(_object*, _object*)"",""symbolLocation"":96,""imageIndex"":47},{""imageOffset"":553436,""symbol"":""cfunction_call"",""symbolLocation"":172,""imageIndex"":1},{""imageOffset"":280688,""symbol"":""_PyObject_MakeTpCall"",""symbolLocation"":360,""imageIndex"":1},{""imageOffset"":1158088,""symbol"":""call_function"",""symbolLocation"":512,""imageIndex"":1},{""imageOffset"":1147400,""symbol"":""_PyEval_EvalFrameDefault"",""symbolLocation"":23108,""imageIndex"":1},{""imageOffset"":282620,""symbol"":""function_code_fastcall"",""symbolLocation"":112,""imageIndex"":1},{""imageOffset"":290656,""symbol"":""method_vectorcall"",""symbolLocation"":168,""imageIndex"":1},{""imageOffset"":1157992,""symbol"":""call_function"",""symbolLocation"":416,""imageIndex"":1},{""imageOffset"":1147400,""symbol"":""_PyEval_EvalFrameDefault"",""symbolLocation"":23108,""imageIndex"":1},{""imageOffset"":1161872,""symbol"":""_PyEval_EvalCode"",""symbolLocation"":2988,""imageIndex"":1},{""imageOffset"":282496,""symbol"":""_PyFunction_Vectorcall"",""symbolLocation"":256,""imageIndex"":1},{""imageOffset"":1157992,""symbol"":""call_function"",""symbolLocation"":416,""imageIndex"":1},{""imageOffset"":1147524,""symbol"":""_PyEval_EvalFrameDefault"",""symbolLocation"":23232,""imageIndex"":1},{""imageOffset"":1161872,""symbol"":""_PyEval_EvalCode"",""symbolLocation"":2988,""imageIndex"":1},{""imageOffset"":1124092,""symbol"":""PyEval_EvalCode"",""symbolLocation"":80,""imageIndex"":1},{""imageOffset"":1111204,""symbol"":""builtin_exec"",""symbolLocation"":672,""imageIndex"":1},{""imageOffset"":551308,""symbol"":""cfunction_vectorcall_FASTCALL"",""symbolLocation"":232,""imageIndex"":1},{""imageOffset"":1157992,""symbol"":""call_function"",""symbolLocation"":416,""imageIndex"":1},{""imageOffset"":1147524,""symbol"":""_PyEval_EvalFrameDefault"",""symbolLocation"":23232,""imageIndex"":1},{""imageOffset"":1161872,""symbol"":""_PyEval_EvalCode"",""symbolLocation"":2988,""imageIndex"":1},{""imageOffset"":282496,""symbol"":""_PyFunction_Vectorcall"",""symbolLocation"":256,""imageIndex"":1},{""imageOffset"":1157992,""symbol"":""call_function"",""symbolLocation"":416,""imageIndex"":1},{""imageOffset"":1147524,""symbol"":""_PyEval_EvalFrameDefault"",""symbolLocation"":23232,""imageIndex"":1},{""imageOffset"":1161872,""symbol"":""_PyEval_EvalCode"",""symbolLocation"":2988,""imageIndex"":1},{""imageOffset"":282496,""symbol"":""_PyFunction_Vectorcall"",""symbolLocation"":256,""imageIndex"":1},{""imageOffset"":1531556,""symbol"":""pymain_run_module"",""symbolLocation"":200,""imageIndex"":1},{""imageOffset"":1529064,""symbol"":""Py_RunMain"",""symbolLocation"":764,""imageIndex"":1},{""imageOffset"":1531220,""symbol"":""pymain_main"",""symbolLocation"":340,""imageIndex"":1},{""imageOffset"":1530868,""symbol"":""Py_Main"",""symbolLocation"":36,""imageIndex"":1},{""imageOffset"":15700,""symbol"":""main"",""symbolLocation"":128,""imageIndex"":0},{""imageOffset"":25204,""symbol"":""start"",""symbolLocation"":2840,""imageIndex"":162}]},{""id"":55519171,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":152832},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6165556936},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441509904,""symbolLocation"":16,""symbol"":""thread_status""},{""value"":4441509968,""symbolLocation"":80,""symbol"":""thread_status""},{""value"":6165557472},{""value"":0},{""value"":0},{""value"":152832},{""value"":152833},{""value"":153088},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6165557056},""sp"":{""value"":6165556912},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519172,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":152832},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6166130376},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510032,""symbolLocation"":144,""symbol"":""thread_status""},{""value"":4441510096,""symbolLocation"":208,""symbol"":""thread_status""},{""value"":6166130912},{""value"":0},{""value"":0},{""value"":152832},{""value"":152833},{""value"":153088},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6166130496},""sp"":{""value"":6166130352},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519173,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6166703816},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510160,""symbolLocation"":272,""symbol"":""thread_status""},{""value"":4441510224,""symbolLocation"":336,""symbol"":""thread_status""},{""value"":6166704352},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6166703936},""sp"":{""value"":6166703792},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519174,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6167277256},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510288,""symbolLocation"":400,""symbol"":""thread_status""},{""value"":4441510352,""symbolLocation"":464,""symbol"":""thread_status""},{""value"":6167277792},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6167277376},""sp"":{""value"":6167277232},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519175,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6167850696},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510416,""symbolLocation"":528,""symbol"":""thread_status""},{""value"":4441510480,""symbolLocation"":592,""symbol"":""thread_status""},{""value"":6167851232},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6167850816},""sp"":{""value"":6167850672},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519176,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6168424136},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510544,""symbolLocation"":656,""symbol"":""thread_status""},{""value"":4441510608,""symbolLocation"":720,""symbol"":""thread_status""},{""value"":6168424672},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6168424256},""sp"":{""value"":6168424112},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519177,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6168997576},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510672,""symbolLocation"":784,""symbol"":""thread_status""},{""value"":4441510736,""symbolLocation"":848,""symbol"":""thread_status""},{""value"":6168998112},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6168997696},""sp"":{""value"":6168997552},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519178,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6169571016},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510800,""symbolLocation"":912,""symbol"":""thread_status""},{""value"":4441510864,""symbolLocation"":976,""symbol"":""thread_status""},{""value"":6169571552},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6169571136},""sp"":{""value"":6169570992},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519179,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6170144456},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441510928,""symbolLocation"":1040,""symbol"":""thread_status""},{""value"":4441510992,""symbolLocation"":1104,""symbol"":""thread_status""},{""value"":6170144992},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6170144576},""sp"":{""value"":6170144432},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519180,""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":1481568,""symbol"":""blas_thread_server"",""symbolLocation"":360,""imageIndex"":18},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}],""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":160},{""value"":0},{""value"":0},{""value"":6170717896},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4441511056,""symbolLocation"":1168,""symbol"":""thread_status""},{""value"":4441511120,""symbolLocation"":1232,""symbol"":""thread_status""},{""value"":6170718432},{""value"":0},{""value"":0},{""value"":0},{""value"":1},{""value"":256},{""value"":4441427968,""symbolLocation"":48,""symbol"":""gemm_driver.level3_lock""},{""value"":1}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6170718016},""sp"":{""value"":6170717872},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}}},{""id"":55519855,""name"":""ThreadPoolServiceThread"",""threadState"":{""x"":[{""value"":4},{""value"":0},{""value"":0},{""value"":105553147363328},{""value"":4},{""value"":0},{""value"":0},{""value"":0},{""value"":12},{""value"":0},{""value"":9223372036854775807},{""value"":4398046512130},{""value"":13397200576},{""value"":44291},{""value"":1},{""value"":1},{""value"":369},{""value"":6317207552},{""value"":0},{""value"":4561612152},{""value"":4318310000},{""value"":6317206912},{""value"":0},{""value"":2863311531},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":13297097552},""cpsr"":{""value"":1610616832},""fp"":{""value"":6317206896},""sp"":{""value"":6317206832},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551809276},""far"":{""value"":0}},""frames"":[{""imageOffset"":52476,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":62151504,""imageIndex"":55},{""imageOffset"":62151152,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61835128,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519857,""name"":""ThreadPoolBackgroundWorker"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869442},{""value"":0},{""value"":270492745334784},{""value"":0},{""value"":270492745334784},{""value"":32},{""value"":33000},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":62979},{""value"":72057602361587809,""symbolLocation"":72057594037927937,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":8323659872,""symbolLocation"":0,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":18446744073709551569},{""value"":8464310920},{""value"":0},{""value"":33000},{""value"":32},{""value"":270492745334784},{""value"":0},{""value"":270492745334784},{""value"":6334049632},{""value"":0},{""value"":17179870466},{""value"":17179869442},{""value"":1282}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":6334048976},""sp"":{""value"":6334048896},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":61883116,""imageIndex"":55},{""imageOffset"":61885944,""imageIndex"":55},{""imageOffset"":61884684,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519858,""name"":""Chrome_IOThread"",""threadState"":{""x"":[{""value"":4},{""value"":0},{""value"":0},{""value"":105553135844544},{""value"":3},{""value"":0},{""value"":0},{""value"":0},{""value"":9},{""value"":0},{""value"":9223372036854775807},{""value"":4398046512130},{""value"":13397200624},{""value"":61699},{""value"":1},{""value"":1},{""value"":369},{""value"":6342471680},{""value"":0},{""value"":4561850088},{""value"":4469807728},{""value"":6342471024},{""value"":0},{""value"":2863311531},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":13297097552},""cpsr"":{""value"":1610616832},""fp"":{""value"":6342471008},""sp"":{""value"":6342470944},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551809276},""far"":{""value"":0}},""frames"":[{""imageOffset"":52476,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":62151504,""imageIndex"":55},{""imageOffset"":62151152,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":25214976,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519859,""name"":""NetworkConfigWatcher"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":201223512784896},{""value"":0},{""value"":201223512784896},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":46851},{""value"":1},{""value"":1},{""value"":18446744073709551569},{""value"":6350893056},{""value"":0},{""value"":0},{""value"":32},{""value"":201223512784896},{""value"":0},{""value"":201223512784896},{""value"":6350892144},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":6350891488},""sp"":{""value"":6350891408},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":62125656,""imageIndex"":55},{""imageOffset"":61342164,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519863,""name"":""Chrome_InProcGpuThread"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":216616675573760},{""value"":0},{""value"":216616675573760},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":50435},{""value"":1},{""value"":1},{""value"":18446744073709551569},{""value"":6384578560},{""value"":0},{""value"":0},{""value"":32},{""value"":216616675573760},{""value"":0},{""value"":216616675573760},{""value"":6384577648},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":6384576992},""sp"":{""value"":6384576912},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":62125656,""imageIndex"":55},{""imageOffset"":61342164,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519864,""name"":""Chrome_ChildIOThread"",""threadState"":{""x"":[{""value"":4},{""value"":0},{""value"":0},{""value"":105553157102672},{""value"":1},{""value"":0},{""value"":0},{""value"":0},{""value"":3},{""value"":0},{""value"":9223372036854775807},{""value"":4398046512130},{""value"":13397200720},{""value"":56579},{""value"":1},{""value"":1},{""value"":369},{""value"":6392999936},{""value"":0},{""value"":5523028184},{""value"":4470018432},{""value"":6392999280},{""value"":0},{""value"":2863311531},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":13297097552},""cpsr"":{""value"":1610616832},""fp"":{""value"":6392999264},""sp"":{""value"":6392999200},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551809276},""far"":{""value"":0}},""frames"":[{""imageOffset"":52476,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":62151504,""imageIndex"":55},{""imageOffset"":62151152,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":102133716,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519865,""name"":""CompositorTileWorker1"",""threadState"":{""x"":[{""value"":260},{""value"":0},{""value"":512},{""value"":0},{""value"":0},{""value"":161},{""value"":0},{""value"":0},{""value"":6401420856},{""value"":0},{""value"":0},{""value"":2},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":305},{""value"":8464310904},{""value"":0},{""value"":4325032216},{""value"":4325032344},{""value"":6401421536},{""value"":0},{""value"":0},{""value"":512},{""value"":513},{""value"":768},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6552029332},""cpsr"":{""value"":1610616832},""fp"":{""value"":6401420976},""sp"":{""value"":6401420832},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551774956},""far"":{""value"":0}},""frames"":[{""imageOffset"":18156,""symbol"":""__psynch_cvwait"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":30868,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1204,""imageIndex"":154},{""imageOffset"":62096196,""imageIndex"":55},{""imageOffset"":92829352,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519866,""name"":""ThreadPoolSingleThreadSharedForeground0"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":215551523684352},{""value"":0},{""value"":215551523684352},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":50187},{""value"":72057602361587809,""symbolLocation"":72057594037927937,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":8323659872,""symbolLocation"":0,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":18446744073709551569},{""value"":8464986136},{""value"":0},{""value"":0},{""value"":32},{""value"":215551523684352},{""value"":0},{""value"":215551523684352},{""value"":6409842016},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":6409841360},""sp"":{""value"":6409841280},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":61883116,""imageIndex"":55},{""imageOffset"":61885944,""imageIndex"":55},{""imageOffset"":61884860,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519867,""name"":""NetworkConfigWatcher"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":228711303479296},{""value"":0},{""value"":228711303479296},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":53251},{""value"":1},{""value"":1},{""value"":18446744073709551569},{""value"":6418264064},{""value"":0},{""value"":0},{""value"":32},{""value"":228711303479296},{""value"":0},{""value"":228711303479296},{""value"":6418263152},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":6418262496},""sp"":{""value"":6418262416},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":62125656,""imageIndex"":55},{""imageOffset"":61342164,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519868,""name"":""VizCompositorThread"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869442},{""value"":0},{""value"":372747326717952},{""value"":0},{""value"":372747326717952},{""value"":32},{""value"":7},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":86787},{""value"":1},{""value"":1},{""value"":18446744073709551569},{""value"":6426685440},{""value"":0},{""value"":7},{""value"":32},{""value"":372747326717952},{""value"":0},{""value"":372747326717952},{""value"":6426684560},{""value"":0},{""value"":17179870466},{""value"":17179869442},{""value"":1282}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":6426683904},""sp"":{""value"":6426683824},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":61342064,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519869,""name"":""NetworkService"",""threadState"":{""x"":[{""value"":4},{""value"":0},{""value"":0},{""value"":105553129397856},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":6},{""value"":0},{""value"":9223372036854775807},{""value"":4398046512130},{""value"":13397200912},{""value"":86275},{""value"":1},{""value"":1},{""value"":369},{""value"":6435106816},{""value"":0},{""value"":5578115384},{""value"":5587439952},{""value"":6435106208},{""value"":0},{""value"":2863311531},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":13297097552},""cpsr"":{""value"":1610616832},""fp"":{""value"":6435106192},""sp"":{""value"":6435106128},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551809276},""far"":{""value"":0}},""frames"":[{""imageOffset"":52476,""symbol"":""kevent64"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":62151504,""imageIndex"":55},{""imageOffset"":62151152,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519870,""name"":""NetworkConfigWatcher"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":367249768579072},{""value"":0},{""value"":367249768579072},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":85507},{""value"":1},{""value"":1},{""value"":18446744073709551569},{""value"":13030682624},{""value"":0},{""value"":0},{""value"":32},{""value"":367249768579072},{""value"":0},{""value"":367249768579072},{""value"":13030681712},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":13030681056},""sp"":{""value"":13030680976},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":62125656,""imageIndex"":55},{""imageOffset"":61342164,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519871,""name"":""ThreadPoolSingleThreadForegroundBlocking1"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":362851722067968},{""value"":0},{""value"":362851722067968},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":84483},{""value"":72057602361587809,""symbolLocation"":72057594037927937,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":8323659872,""symbolLocation"":0,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":18446744073709551569},{""value"":8464986136},{""value"":0},{""value"":0},{""value"":32},{""value"":362851722067968},{""value"":0},{""value"":362851722067968},{""value"":13039103328},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":13039102672},""sp"":{""value"":13039102592},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":61883116,""imageIndex"":55},{""imageOffset"":61885944,""imageIndex"":55},{""imageOffset"":61884904,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55519895,""name"":""NetworkConfigWatcher"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":558564791812096},{""value"":0},{""value"":558564791812096},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":130051},{""value"":1},{""value"":1},{""value"":18446744073709551569},{""value"":13461925888},{""value"":0},{""value"":0},{""value"":32},{""value"":558564791812096},{""value"":0},{""value"":558564791812096},{""value"":13461924976},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":13461924320},""sp"":{""value"":13461924240},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":62125656,""imageIndex"":55},{""imageOffset"":61342164,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55520423,""name"":""com.apple.NSEventThread"",""threadState"":{""x"":[{""value"":268451845},{""value"":21592279046},{""value"":8589934592},{""value"":496992140656640},{""value"":0},{""value"":496992140656640},{""value"":2},{""value"":4294967295},{""value"":18446744073709550527},{""value"":2},{""value"":0},{""value"":0},{""value"":0},{""value"":115715},{""value"":0},{""value"":0},{""value"":18446744073709551569},{""value"":8464293368},{""value"":0},{""value"":4294967295},{""value"":2},{""value"":496992140656640},{""value"":0},{""value"":496992140656640},{""value"":13443866728},{""value"":8589934592},{""value"":21592279046},{""value"":21592279046},{""value"":4412409862}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":13443866576},""sp"":{""value"":13443866496},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":514636,""symbol"":""__CFRunLoopServiceMachPort"",""symbolLocation"":160,""imageIndex"":159},{""imageOffset"":508588,""symbol"":""__CFRunLoopRun"",""symbolLocation"":1212,""imageIndex"":159},{""imageOffset"":505652,""symbol"":""CFRunLoopRunSpecific"",""symbolLocation"":588,""imageIndex"":159},{""imageOffset"":1442424,""symbol"":""_NSEventThread"",""symbolLocation"":148,""imageIndex"":161},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55520448,""name"":""MemoryInfra"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":573957954600960},{""value"":0},{""value"":573957954600960},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":133635},{""value"":1},{""value"":1},{""value"":18446744073709551569},{""value"":14388539392},{""value"":0},{""value"":0},{""value"":32},{""value"":573957954600960},{""value"":0},{""value"":573957954600960},{""value"":14388538480},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":14388537824},""sp"":{""value"":14388537744},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":62125656,""imageIndex"":55},{""imageOffset"":61342164,""imageIndex"":55},{""imageOffset"":61790700,""imageIndex"":55},{""imageOffset"":61535376,""imageIndex"":55},{""imageOffset"":61932820,""imageIndex"":55},{""imageOffset"":61933196,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":55520449,""name"":""ThreadPoolSingleThreadSharedBackgroundBlocking2"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869186},{""value"":0},{""value"":572858442973184},{""value"":0},{""value"":572858442973184},{""value"":32},{""value"":0},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":133379},{""value"":2441711651},{""value"":2439614459},{""value"":18446744073709551569},{""value"":35},{""value"":0},{""value"":0},{""value"":32},{""value"":572858442973184},{""value"":0},{""value"":572858442973184},{""value"":14396960096},{""value"":0},{""value"":17179869186},{""value"":17179869186},{""value"":2}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":14396959440},""sp"":{""value"":14396959360},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":61883116,""imageIndex"":55},{""imageOffset"":61885188,""imageIndex"":55},{""imageOffset"":61884728,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":56708951,""name"":""ThreadPoolForegroundWorker"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869442},{""value"":0},{""value"":256250633781248},{""value"":0},{""value"":256250633781248},{""value"":32},{""value"":33000},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":59663},{""value"":72057602361587809,""symbolLocation"":72057594037927937,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":8323659872,""symbolLocation"":0,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":18446744073709551569},{""value"":8464986136},{""value"":0},{""value"":33000},{""value"":32},{""value"":256250633781248},{""value"":0},{""value"":256250633781248},{""value"":6359313760},{""value"":0},{""value"":17179870466},{""value"":17179869442},{""value"":1282}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":6359313104},""sp"":{""value"":6359313024},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":61883116,""imageIndex"":55},{""imageOffset"":61885944,""imageIndex"":55},{""imageOffset"":61884816,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]},{""id"":58320315,""frames"":[{""imageOffset"":8424,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":154}],""threadState"":{""x"":[{""value"":6441332736},{""value"":47891},{""value"":6440796160},{""value"":0},{""value"":409604},{""value"":18446744073709551615},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":0},""cpsr"":{""value"":4096},""fp"":{""value"":0},""sp"":{""value"":6441332736},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6552006888},""far"":{""value"":0}}},{""id"":58320316,""frames"":[{""imageOffset"":8424,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":154}],""threadState"":{""x"":[{""value"":6373404672},{""value"":94819},{""value"":6372868096},{""value"":0},{""value"":409604},{""value"":18446744073709551615},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":0},""cpsr"":{""value"":4096},""fp"":{""value"":0},""sp"":{""value"":6373404672},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6552006888},""far"":{""value"":0}}},{""id"":58432359,""frames"":[{""imageOffset"":8424,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":154}],""threadState"":{""x"":[{""value"":6440759296},{""value"":0},{""value"":6440222720},{""value"":0},{""value"":278532},{""value"":18446744073709551615},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":0},""cpsr"":{""value"":4096},""fp"":{""value"":0},""sp"":{""value"":6440759296},""esr"":{""value"":0,""description"":"" Address size fault""},""pc"":{""value"":6552006888},""far"":{""value"":0}}},{""id"":58432361,""frames"":[{""imageOffset"":8424,""symbol"":""start_wqthread"",""symbolLocation"":0,""imageIndex"":154}],""threadState"":{""x"":[{""value"":13050687488},{""value"":259115},{""value"":13050150912},{""value"":0},{""value"":409604},{""value"":18446744073709551615},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0},{""value"":0}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":0},""cpsr"":{""value"":4096},""fp"":{""value"":0},""sp"":{""value"":13050687488},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6552006888},""far"":{""value"":0}}},{""id"":58832699,""name"":""ThreadPoolForegroundWorker"",""threadState"":{""x"":[{""value"":268451845},{""value"":17179869442},{""value"":0},{""value"":584248696242176},{""value"":0},{""value"":584248696242176},{""value"":32},{""value"":33000},{""value"":18446744073709550527},{""value"":32},{""value"":0},{""value"":0},{""value"":0},{""value"":136031},{""value"":72057602361587809,""symbolLocation"":72057594037927937,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":8323659872,""symbolLocation"":0,""symbol"":""OBJC_CLASS_$_NSAutoreleasePool""},{""value"":18446744073709551569},{""value"":8464986136},{""value"":0},{""value"":33000},{""value"":32},{""value"":584248696242176},{""value"":0},{""value"":584248696242176},{""value"":14379642208},{""value"":0},{""value"":17179870466},{""value"":17179869442},{""value"":1282}],""flavor"":""ARM_THREAD_STATE64"",""lr"":{""value"":6551836164},""cpsr"":{""value"":4096},""fp"":{""value"":14379641552},""sp"":{""value"":14379641472},""esr"":{""value"":1442840704,""description"":"" Address size fault""},""pc"":{""value"":6551760724},""far"":{""value"":0}},""frames"":[{""imageOffset"":3924,""symbol"":""mach_msg2_trap"",""symbolLocation"":8,""imageIndex"":153},{""imageOffset"":79364,""symbol"":""mach_msg2_internal"",""symbolLocation"":80,""imageIndex"":153},{""imageOffset"":39672,""symbol"":""mach_msg_overwrite"",""symbolLocation"":480,""imageIndex"":153},{""imageOffset"":4764,""symbol"":""mach_msg"",""symbolLocation"":24,""imageIndex"":153},{""imageOffset"":62126188,""imageIndex"":55},{""imageOffset"":61883116,""imageIndex"":55},{""imageOffset"":61885944,""imageIndex"":55},{""imageOffset"":61884816,""imageIndex"":55},{""imageOffset"":62101416,""imageIndex"":55},{""imageOffset"":29412,""symbol"":""_pthread_start"",""symbolLocation"":136,""imageIndex"":154},{""imageOffset"":8444,""symbol"":""thread_start"",""symbolLocation"":8,""imageIndex"":154}]}], ""usedImages"" : [ [deleted to fit within ticket limits] ], ""sharedCache"" : { ""base"" : 6547521536, ""size"" : 4865835008, ""uuid"" : ""d272b91e-f9f0-3854-b5b9-508b21c25dcc"" }, ""vmSummary"" : ""ReadOnly portion of Libraries: Total=1.9G resident=0K(0%) swapped_out_or_unallocated=1.9G(100%)\nWritable regions: Total=7.0G written=3759K(0%) resident=3759K(0%) swapped_out=0K(0%) unallocated=7.0G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 512K 4 \nActivity Tracing 256K 1 \nCG backing stores 3488K 1 \nCG image 1584K 66 \nColorSync 720K 37 \nCoreAnimation 3360K 187 \nCoreGraphics 80K 5 \nCoreServices 688K 3 \nCoreUI image data 5696K 57 \nFoundation 32K 2 \nKernel Alloc Once 32K 1 \nMALLOC 6.0G 147 \nMALLOC guard page 288K 18 \nMach message 64K 2 \nOpenGL GLSL 384K 4 \nSTACK GUARD 528K 33 \nStack 160.2M 34 \nStack Guard 56.0M 1 \nVM_ALLOCATE 378.3M 522 \nVM_ALLOCATE (reserved) 256.0M 5 reserved VM address space (unallocated)\n__AUTH 5288K 672 \n__AUTH_CONST 70.9M 921 \n__CTF 824 1 \n__DATA 33.0M 1062 \n__DATA_CONST 33.8M 1081 \n__DATA_DIRTY 2763K 342 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 637.1M 154 \n__OBJC_RW 2374K 1 \n__TEXT 1.2G 1101 \n__TPRO_CONST 272K 2 \nmapped file 359.8M 69 \nowned unmapped memory 198.7M 1 \npage table in kernel 3759K 1 \nshared memory 3264K 31 \n=========== ======= ======= \nTOTAL 9.4G 6572 \nTOTAL, minus reserved VM space 9.2G 6572 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""56d061c820e42882fdffe62a27eed59c97f4726f"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""60f8ddccefea4203d95cbeef"", ""factorPackIds"" : { ""NETWORK_SERVICE_PROXY_CONFIG_UPDATE"" : ""6401414cc679dd6bc5828183"" }, ""deploymentId"" : 240000025 }, { ""rolloutId"" : ""64b21a7351cbb02ce3442e4e"", ""factorPackIds"" : { ""REMINDERS_GROCERY"" : ""6647f0f7b6a75d3dc32993e7"" }, ""deploymentId"" : 240000042 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open /Users/sxfp8838/Library/CloudStorage/OneDrive- > UniversityofLeeds/BRISC/BRISC.cxs Opened Composite_map_v1.mrc as #1, grid size 881,854,755, pixel 0.74,0.74,0.74, shown at level 0.0446, step 1, values float32 Log from Tue Feb 18 11:20:33 2025UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open ""/Users/sxfp8838/Downloads/Map_model_Ub5_27Nov2024 copy.cxs"" format > session Opened Composite_map_v1.mrc as #1, grid size 881,854,755, pixel 0.74,0.74,0.74, shown at level 0.0446, step 1, values float32 Log from Wed Nov 27 09:59:35 2024UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Ub_states_movie.cxs"" Opened P64_J12_deepemhancer.mrc as #2, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Opened P64_W2_J50_tightTarget.mrc as #1, grid size 512,512,512, pixel 0.74, shown at level 0.0301, step 1, values float32 Opened P64_W2_J50_tightTarget.mrc copy as #4, grid size 512,512,512, pixel 0.74, shown at level 0.0641, step 1, values float32 Opened cryosparc_P1_DeepEmhancer_J202_highres.mrc as #5, grid size 512,512,512, pixel 0.74, shown at level 0.113, step 1, values float32 Log from Fri Nov 22 14:40:20 2024UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Map_localref.cxs"" Opened P64_J12_deepemhancer.mrc as #2, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Opened P64_W2_J50_tightTarget.mrc as #1, grid size 512,512,512, pixel 0.74, shown at level 0.0301, step 1, values float32 Opened P64_W2_J50_tightTarget.mrc copy as #4, grid size 512,512,512, pixel 0.74, shown at level 0.0641, step 1, values float32 Log from Thu Oct 31 16:48:37 2024UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open /Users/zbxg977/Desktop/BRISC_Ub5_colouredbychain.cxs Opened P64_J12_deepemhancer.mrc as #2, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Log from Tue Oct 8 13:02:45 2024UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Map_model_coloured_v4.cxs"" Opened P64_J12_deepemhancer.mrc as #2, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Opened P64_J12_deepemhancer.mrc copy as #4, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Opened cryosparc_P64_J40_020_volume_map (1).mrc as #6, grid size 512,512,512, pixel 0.74, shown at level 0.154, step 1, values float32 Log from Wed Oct 2 15:29:10 2024UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Map_model_coloured_v2.cxs"" Opened P64_J12_deepemhancer.mrc as #2, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Opened P64_J12_deepemhancer.mrc copy as #4, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Log from Tue Oct 1 13:16:34 2024UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Map_model_coloured.cxs"" Opened P64_J12_deepemhancer.mrc as #2, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Opened P64_J12_deepemhancer.mrc copy as #4, grid size 512,512,512, pixel 0.74, shown at level 0.04, step 1, values float32 Log from Wed Sep 4 11:11:03 2024 Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_46/P64_J12_model- > coot-48.pdb Chain information for P64_J12_model-coot-48.pdb #1 --- Chain | Description A | No description available B | No description available D | No description available E K N P | No description available F | No description available G | No description available H | No description available I | No description available J | No description available L Q | No description available M | No description available O | No description available W | No description available X | No description available Y | No description available > open ""/Users/zbxg977/Desktop/BRISC_project/CryoSPARC > processing/P64_W1_J12/Deepemhancer/P64_J12_deepemhancer.mrc"" Opened P64_J12_deepemhancer.mrc as #2, grid size 512,512,512, pixel 0.74, shown at level 0.00279, step 2, values float32 > set bgColor white > lighting soft > volume #2 step 1 > hide atoms > show cartoons > dssp > volume #2 level 0.02757 > surface dust #2 size 7.4 > hide #!2 models > colour #1/B,G,X,M #0096FF > colour #1/A,F,J,W #00F900 > colour #1/H,Y,D,I #9437FF > colour #1/L,O,Q #FF9300 > colour #1/E,K,N,P #EF4E5D > show #!2 models > ui tool show ""Surface Color"" > ui tool show ""Color Zone"" > color zone #2 near #1 distance 4.44 > color zone #2 near #1 distance 4.54 > color zone #2 near #1 distance 4.64 > color zone #2 near #1 distance 4.74 > color zone #2 near #1 distance 4.84 > hide #!1 models > color zone #2 near #1 distance 4.94 > color zone #2 near #1 distance 5.04 > color zone #2 near #1 distance 5.14 > color zone #2 near #1 distance 5.24 > color zone #2 near #1 distance 5.34 > color zone #2 near #1 distance 5.44 > color zone #2 near #1 distance 5.54 > color zone #2 near #1 distance 5.64 > color zone #2 near #1 distance 5.74 > volume #2 level 0.03 > volume #2 level 0.035 > save ""/Users/zbxg977/Desktop/BRISC_project/Main > figures/Map_model_coloured.cxs"" includeMaps true > volume #2 level 0.04 > save /Users/zbxg977/Desktop/image2.png supersample 3 > save /Users/zbxg977/Desktop/image3.png supersample 3 > save /Users/zbxg977/Desktop/image4.png supersample 3 > open 1ubq 1ubq title: Structure of ubiquitin refined At 1.8 angstroms resolution [more info...] Chain information for 1ubq #3 --- Chain | Description | UniProt A | UBIQUITIN | UBIQ_HUMAN 1-76 > select add #3 660 atoms, 608 bonds, 134 residues, 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #3,1,0,0,22.142,0,1,0,146.55,0,0,1,177.99 > view matrix models #3,1,0,0,85.901,0,1,0,77.699,0,0,1,152.28 > view matrix models #3,1,0,0,106,0,1,0,120.98,0,0,1,189.39 > view matrix models #3,1,0,0,108.09,0,1,0,99.383,0,0,1,182.46 > close #3 > show #!1 models > hide #!2 models > select #1/O 1034 atoms, 1040 bonds, 76 residues, 1 model selected > show sel atoms > save /Users/zbxg977/4Ub.pdb selectedOnly true relModel #2 > open /Users/zbxg977/Desktop/4Ub.pdb Summary of feedback from opening /Users/zbxg977/Desktop/4Ub.pdb --- warnings | Start residue of secondary structure not found: HELIX 1 1 GLU E 104 SER E 106 1 3 Start residue of secondary structure not found: HELIX 2 2 ALA E 120 VAL E 132 1 13 Start residue of secondary structure not found: HELIX 3 3 ARG E 133 HIS E 136 1 4 Start residue of secondary structure not found: HELIX 4 4 PRO E 163 SER E 168 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU E 184 LYS E 193 1 10 230 messages similar to the above omitted Chain information for 4Ub.pdb #3 --- Chain | Description O | No description available > hide #!1 models > select add #1 45135 atoms, 45847 bonds, 43 pseudobonds, 4183 residues, 2 models selected > select subtract #1 Nothing selected > show #!2 models > select add #3 1034 atoms, 1040 bonds, 76 residues, 1 model selected > view matrix models #3,1,0,0,-45.77,0,1,0,-55.623,0,0,1,60.278 > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.64657,0.76019,0.063756,122.26,-0.11869,-0.1828,0.97596,39.647,0.75356,0.62346,0.20842,-81.893 > ui mousemode right ""translate selected models"" > view matrix models > #3,-0.64657,0.76019,0.063756,133.01,-0.11869,-0.1828,0.97596,51.544,0.75356,0.62346,0.20842,-92.026 > volume #2 level 0.02 > view matrix models > #3,-0.64657,0.76019,0.063756,131.7,-0.11869,-0.1828,0.97596,48.688,0.75356,0.62346,0.20842,-91.418 > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.92486,0.37158,0.081038,254.86,-0.0046565,-0.22413,0.97455,34.504,0.38029,0.90094,0.20902,-70.711 > view matrix models > #3,-0.99669,0.0074678,0.080982,336.17,0.077958,-0.19583,0.97753,12.84,0.023158,0.98061,0.1946,-14.243 > ui tool show ""Fit in Map"" > fitmap #3 inMap #2 Fit molecule 4Ub.pdb (#3) to map P64_J12_deepemhancer.mrc (#2) using 1034 atoms average map value = 0.02144, steps = 152 shifted from previous position = 3.73 rotated from previous position = 9.35 degrees atoms outside contour = 820, contour level = 0.02 Position of 4Ub.pdb (#3) relative to P64_J12_deepemhancer.mrc (#2) coordinates: Matrix rotation and translation -0.98830394 -0.01606640 0.15164823 329.56486754 0.14821753 -0.33513041 0.93044031 28.20456991 0.03587311 0.94203475 0.33359202 -29.19789796 Axis 0.05759369 0.57509586 0.81605620 Axis point 165.14304010 34.55878631 0.00000000 Rotation angle (degrees) 174.22298154 Shift along axis 11.37406101 > hide #!2 models > show #!1 models > show #!2 models > ui mousemode right ""translate selected models"" > view matrix models > #3,-0.9883,-0.016066,0.15165,335.85,0.14822,-0.33513,0.93044,32.137,0.035873,0.94203,0.33359,-27.52 > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.78284,-0.58586,-0.20959,455.92,-0.24052,-0.025733,0.9703,44.024,-0.57386,0.81,-0.12077,183.11 > view matrix models > #3,-0.80058,-0.5206,0.29672,371.17,0.27623,0.11879,0.95372,-80.16,-0.53176,0.84549,0.048707,142.93 > ui mousemode right ""translate selected models"" > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.87819,-0.058049,0.47478,273.77,0.44528,0.26324,0.85582,-124.88,-0.17466,0.96298,-0.20532,90.305 > fitmap #3 inMap #2 Fit molecule 4Ub.pdb (#3) to map P64_J12_deepemhancer.mrc (#2) using 1034 atoms average map value = 0.02942, steps = 84 shifted from previous position = 2.76 rotated from previous position = 7.03 degrees atoms outside contour = 753, contour level = 0.02 Position of 4Ub.pdb (#3) relative to P64_J12_deepemhancer.mrc (#2) coordinates: Matrix rotation and translation -0.86861384 0.06310794 0.49145435 247.47541190 0.48957680 0.26208308 0.83164116 -131.75136294 -0.07631871 0.96297967 -0.25854517 77.15930390 Axis 0.18187306 0.78623263 0.59055943 Axis point 149.05714988 0.00000000 58.37470019 Rotation angle (degrees) 158.83395882 Shift along axis -13.01095516 > volume #2 level 0.015 > hide #!2 models > show #!2 models > ui mousemode right ""translate selected models"" > view matrix models > #3,-0.86861,0.063108,0.49145,245.67,0.48958,0.26208,0.83164,-132.49,-0.076319,0.96298,-0.25855,78.734 > fitmap #3 inMap #2 Fit molecule 4Ub.pdb (#3) to map P64_J12_deepemhancer.mrc (#2) using 1034 atoms average map value = 0.04094, steps = 272 shifted from previous position = 3.53 rotated from previous position = 24.2 degrees atoms outside contour = 675, contour level = 0.015 Position of 4Ub.pdb (#3) relative to P64_J12_deepemhancer.mrc (#2) coordinates: Matrix rotation and translation -0.66115790 0.32526680 0.67607081 131.95953052 0.72210154 0.03138215 0.69107490 -114.53308250 0.20356717 0.94510141 -0.25562421 24.27981973 Axis 0.38068765 0.70810053 0.59470207 Axis point 100.89632926 0.00000000 43.47460178 Rotation angle (degrees) 160.51004202 Shift along axis -16.42631342 > hide #!2 models > show #!2 models > view matrix models > #3,-0.66116,0.32527,0.67607,129.56,0.7221,0.031382,0.69107,-115.04,0.20357,0.9451,-0.25562,25.841 > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.81701,0.17495,0.54944,206.56,0.56462,0.43612,0.70072,-160.98,-0.11703,0.88272,-0.4551,129.36 > hide #!2 models > hide sel atoms > show sel cartoons > select subtract #3 Nothing selected > hide atoms > show #!2 models > select add #3 1034 atoms, 1040 bonds, 76 residues, 1 model selected > ui mousemode right ""translate selected models"" > view matrix models > #3,-0.81701,0.17495,0.54944,208.56,0.56462,0.43612,0.70072,-159.01,-0.11703,0.88272,-0.4551,130.17 > view matrix models > #3,-0.81701,0.17495,0.54944,207.37,0.56462,0.43612,0.70072,-159.4,-0.11703,0.88272,-0.4551,131.11 > view matrix models > #3,-0.81701,0.17495,0.54944,206.51,0.56462,0.43612,0.70072,-159.88,-0.11703,0.88272,-0.4551,131.78 > hide #!2 models > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.93722,0.21306,0.27609,263.78,0.3343,0.3234,0.88524,-122.21,0.099324,0.92196,-0.37432,70.546 > show #!2 models > view matrix models > #3,-0.9119,0.33361,0.23904,242.14,0.32086,0.21634,0.92209,-105.33,0.2559,0.91755,-0.30432,30.568 > hide #!2 models > show #!2 models > ui mousemode right ""translate selected models"" > view matrix models > #3,-0.9119,0.33361,0.23904,241.56,0.32086,0.21634,0.92209,-103.63,0.2559,0.91755,-0.30432,28.63 > view matrix models > #3,-0.9119,0.33361,0.23904,242.51,0.32086,0.21634,0.92209,-102.98,0.2559,0.91755,-0.30432,29.306 > view matrix models > #3,-0.9119,0.33361,0.23904,242.12,0.32086,0.21634,0.92209,-103.19,0.2559,0.91755,-0.30432,29.625 > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.87355,0.41506,0.25422,217.34,0.3549,0.18575,0.91626,-103.23,0.33309,0.89063,-0.30957,20.475 > fitmap #3 inMap #2 Fit molecule 4Ub.pdb (#3) to map P64_J12_deepemhancer.mrc (#2) using 1034 atoms average map value = 0.04273, steps = 188 shifted from previous position = 6.11 rotated from previous position = 27.6 degrees atoms outside contour = 691, contour level = 0.015 Position of 4Ub.pdb (#3) relative to P64_J12_deepemhancer.mrc (#2) coordinates: Matrix rotation and translation -0.68181384 0.30235068 0.66611857 146.23416859 0.68338301 -0.06162106 0.72745481 -90.64295049 0.26099339 0.95120287 -0.16460723 3.10516441 Axis 0.37323744 0.67579529 0.63560565 Axis point 98.83947470 0.00000000 27.38301406 Rotation angle (degrees) 162.55803812 Shift along axis -4.70235247 > undo > hide #!2 models > view matrix models > #3,-0.71118,0.70096,-0.053665,179.29,0.064186,0.14076,0.98796,-49.463,0.70007,0.69917,-0.1451,-39.754 > view matrix models > #3,-0.70029,0.71301,-0.034876,172.12,0.066121,0.11343,0.99134,-45.286,0.71079,0.69192,-0.12658,-43.266 > view matrix models > #3,-0.52247,0.83371,0.17875,83.286,-0.01801,-0.22038,0.97525,35.207,0.85247,0.50632,0.13015,-74.88 > view matrix models > #3,-0.93075,-0.10152,-0.35128,415.05,-0.13281,0.98894,0.066087,-29.866,0.34068,0.10816,-0.93394,257.72 > view matrix models > #3,-0.64634,0.57103,0.50613,106.67,0.56883,-0.081552,0.8184,-80.391,0.50861,0.81687,-0.27211,-5.4368 > show #!2 models > ui mousemode right ""translate selected models"" > view matrix models > #3,-0.64634,0.57103,0.50613,107.8,0.56883,-0.081552,0.8184,-80.999,0.50861,0.81687,-0.27211,-7.3342 > view matrix models > #3,-0.64634,0.57103,0.50613,108.34,0.56883,-0.081552,0.8184,-80.397,0.50861,0.81687,-0.27211,-7.3389 > fitmap #3 inMap #2 Fit molecule 4Ub.pdb (#3) to map P64_J12_deepemhancer.mrc (#2) using 1034 atoms average map value = 0.04552, steps = 96 shifted from previous position = 1.7 rotated from previous position = 22.8 degrees atoms outside contour = 528, contour level = 0.015 Position of 4Ub.pdb (#3) relative to P64_J12_deepemhancer.mrc (#2) coordinates: Matrix rotation and translation -0.60159277 0.47587877 0.64158049 97.54037792 0.45805470 -0.45249689 0.76513558 15.82248234 0.65442496 0.75417900 0.05424035 -70.47054678 Axis -0.44628855 -0.52318661 -0.72601811 Axis point 70.49501793 32.89156096 0.00000000 Rotation angle (degrees) 179.29666393 Shift along axis -0.64637166 > hide #!2 models > show #!2 models > hide #!2 models > select subtract #3 Nothing selected > select add #3 1034 atoms, 1040 bonds, 76 residues, 1 model selected > show sel atoms > save /Users/zbxg977/Desktop/4Ub.pdb models #3 selectedOnly true relModel #2 > close #3 > open /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_46/P64_J12_model- > coot-49.pdb Chain information for P64_J12_model-coot-49.pdb #3 --- Chain | Description A | No description available B | No description available D | No description available E K N P | No description available F | No description available G | No description available H | No description available I | No description available J | No description available L Q | No description available M | No description available O R | No description available W | No description available X | No description available Y | No description available > hide #!1 models > hide #!3 atoms > show #!3 cartoons > dssp > colour #3/B,G,X,M #0096FF > colour #3/A,F,J,W #00F900 > colour #3/H,Y,D,I #9437FF > colour #3/L,O,Q,R #FF9300 > colour #3/E,K,N,P #EF4E5D > show #!2 models > ui tool show ""Color Zone"" > color zone #2 near #3 distance 5.74 > hide #!3 models > volume #2 level 0.035 > hide #!2 models > show #!3 models > select #3/O,L,Q 2220 atoms, 2238 bonds, 228 residues, 1 model selected > show sel atoms > save /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_46/Ub3.pdb models > #3 selectedOnly true relModel #2 > open /Users/zbxg977/Desktop/Ub3.pdb Summary of feedback from opening /Users/zbxg977/Desktop/Ub3.pdb --- warnings | Start residue of secondary structure not found: HELIX 1 1 GLU E 104 SER E 106 1 3 Start residue of secondary structure not found: HELIX 2 2 ALA E 120 VAL E 132 1 13 Start residue of secondary structure not found: HELIX 3 3 ARG E 133 HIS E 136 1 4 Start residue of secondary structure not found: HELIX 4 4 PRO E 163 SER E 168 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU E 184 LYS E 193 1 10 221 messages similar to the above omitted Chain information for Ub3.pdb #4 --- Chain | Description L Q | No description available O | No description available > ui tool show Matchmaker > matchmaker #4 to #3/R pairing bs Parameters --- Chain pairing | bs 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 P64_J12_model-coot-49.pdb, chain R (#3) with Ub3.pdb, chain O (#4), sequence alignment score = 374 RMSD between 76 pruned atom pairs is 0.000 angstroms; (across all 76 pairs: 0.000) > select add #3 46169 atoms, 46887 bonds, 43 pseudobonds, 4259 residues, 2 models selected > select subtract #3 Nothing selected > select add #3 46169 atoms, 46887 bonds, 43 pseudobonds, 4259 residues, 2 models selected > hide sel atoms > select subtract #3 Nothing selected > show #!2 models > color #2 #b2b2b2dd models > select add #4 2220 atoms, 2238 bonds, 228 residues, 1 model selected > lighting simple > view matrix models > #4,-0.60159,0.47588,0.64158,93.534,0.45806,-0.45249,0.76514,14.188,0.65442,0.75418,0.054236,-72.225 > view matrix models > #4,-0.60159,0.47588,0.64158,92.645,0.45806,-0.45249,0.76514,15.149,0.65442,0.75418,0.054236,-71.708 > view matrix models > #4,-0.60159,0.47588,0.64158,93.136,0.45806,-0.45249,0.76514,15.699,0.65442,0.75418,0.054236,-73.795 > view matrix models > #4,-0.60159,0.47588,0.64158,94.386,0.45806,-0.45249,0.76514,15.328,0.65442,0.75418,0.054236,-74.44 > hide #!2 models > select subtract #4 Nothing selected > select #4/L,Q 1186 atoms, 1198 bonds, 152 residues, 1 model selected > show sel atoms > save /Users/zbxg977/Desktop/Ub5_6.pdb models #4 selectedOnly true relModel > #2 > close #4 > close #1 > close #3 > open /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_46/P64_J12_model- > coot-50.pdb Chain information for P64_J12_model-coot-50.pdb #1 --- Chain | Description A | No description available B | No description available D | No description available E K N P | No description available F | No description available G | No description available H | No description available I | No description available J | No description available L Q S T | No description available M | No description available O R | No description available W | No description available X | No description available Y | No description available > hide atoms > show cartoons > colour #1/B,G,X,M #0096FF > colour #1/A,F,J,W #00F900 > colour #1/H,Y,D,I #9437FF > colour #1/L,O,Q,R,S,T #FF9300 > colour #1/E,K,N,P #EF4E5D > dssp > show #!2 models > color zone #2 near #1 distance 5.74 > lighting soft > hide #!1 models > volume #2 level 0.04 > ui tool show ""Map Eraser"" > select add #3 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #3,1,0,0,251.41,0,1,0,177.58,0,0,1,180.61 > view matrix models #3,1,0,0,255.51,0,1,0,182.96,0,0,1,177.37 > view matrix models #3,1,0,0,256.04,0,1,0,181.46,0,0,1,179.8 > volume erase #2 center 256.04,181.46,179.8 radius 13.074 Opened P64_J12_deepemhancer.mrc copy as #4, grid size 512,512,512, pixel 0.74, shown at step 1, values float32 > color #4 #b2b2b2ff models > view matrix models #3,1,0,0,246.66,0,1,0,183.58,0,0,1,182.44 > volume erase #4 center 246.66,183.58,182.44 radius 12.882 > surface dust #4 size 7.4 > view matrix models #3,1,0,0,287.73,0,1,0,151.7,0,0,1,186.47 > view matrix models #3,1,0,0,131.22,0,1,0,184.9,0,0,1,227.76 > view matrix models #3,1,0,0,128.37,0,1,0,188.93,0,0,1,233.07 > volume erase #4 center 128.37,188.93,233.07 radius 12.882 > view matrix models #3,1,0,0,130.5,0,1,0,187.1,0,0,1,229.29 > volume erase #4 center 130.5,187.1,229.29 radius 12.882 > color zone #4 near #1 distance 4.44 > view matrix models #3,1,0,0,157.62,0,1,0,181.5,0,0,1,79.409 > view matrix models #3,1,0,0,162,0,1,0,207.4,0,0,1,79.905 > view matrix models #3,1,0,0,195.48,0,1,0,203.89,0,0,1,88.793 > volume erase #4 center 195.48,203.89,88.793 radius 12.882 > color zone #4 near #1 distance 4.28 > color zone #4 near #1 distance 9.51 [Repeated 1 time(s)] > view matrix models #3,1,0,0,118.5,0,1,0,217.26,0,0,1,155.6 > view matrix models #3,1,0,0,119.32,0,1,0,224.9,0,0,1,156.18 > view matrix models #3,1,0,0,120.41,0,1,0,224.7,0,0,1,154.87 > volume erase #4 center 120.41,224.7,154.87 radius 12.882 > view matrix models #3,1,0,0,132.73,0,1,0,234.58,0,0,1,160.81 > view matrix models #3,1,0,0,132.69,0,1,0,234.45,0,0,1,160.79 > view matrix models #3,1,0,0,132.7,0,1,0,233.37,0,0,1,158.05 > volume erase #4 center 132.7,233.37,158.05 radius 12.882 > view matrix models #3,1,0,0,199.12,0,1,0,91.549,0,0,1,168.91 > view matrix models #3,1,0,0,225.06,0,1,0,103.46,0,0,1,184.2 > view matrix models #3,1,0,0,225.89,0,1,0,100,0,0,1,191.46 > view matrix models #3,1,0,0,225.33,0,1,0,99.137,0,0,1,194.08 > view matrix models #3,1,0,0,225.33,0,1,0,97.404,0,0,1,193.65 > volume erase #4 center 225.33,97.404,193.65 radius 12.882 > view matrix models #3,1,0,0,224.86,0,1,0,149.52,0,0,1,283.13 > view matrix models #3,1,0,0,211.04,0,1,0,137.18,0,0,1,287.39 > view matrix models #3,1,0,0,209.5,0,1,0,136.2,0,0,1,276.75 > view matrix models #3,1,0,0,211.99,0,1,0,133.21,0,0,1,273.61 > volume erase #4 center 211.99,133.21,273.61 radius 12.882 > view matrix models #3,1,0,0,204.87,0,1,0,143.03,0,0,1,282 > volume erase #4 center 204.87,143.03,282 radius 12.882 > view matrix models #3,1,0,0,225.79,0,1,0,222.83,0,0,1,236.03 > view matrix models #3,1,0,0,206.22,0,1,0,265.74,0,0,1,169.52 > view matrix models #3,1,0,0,206.01,0,1,0,267.32,0,0,1,166.4 > volume erase #4 center 206.01,267.32,166.4 radius 12.882 > view matrix models #3,1,0,0,211.1,0,1,0,201.51,0,0,1,232.99 > view matrix models #3,1,0,0,249.46,0,1,0,178.84,0,0,1,255.3 > view matrix models #3,1,0,0,252.28,0,1,0,177.38,0,0,1,211.75 > color zone #4 near #1 distance 9.66 > color zone #4 near #1 distance 21.47 > hide #3 models > select subtract #3 Nothing selected > save ""/Users/zbxg977/Desktop/BRISC_project/Main > figures/Map_model_coloured.cxs"" includeMaps true ——— End of log from Wed Sep 4 11:11:03 2024 ——— opened ChimeraX session > open /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_55/P64_J12_model- > coot-51_modified.pdb Chain information for P64_J12_model-coot-51_modified.pdb #3 --- Chain | Description A | No description available B | No description available D | No description available E K N P | No description available F | No description available G | No description available H | No description available I | No description available J | No description available L Q S T | No description available M | No description available O R | No description available W | No description available X | No description available Y | No description available > show #!1 models > hide #!4 models > select add #3 63902 atoms, 64635 bonds, 43 pseudobonds, 4411 residues, 2 models selected > hide sel atoms > show sel cartoons > select subtract #3 Nothing selected > dssp > color #3 by #1 Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', 'fromcartoons', 'fromribbons', or 'random' or a keyword > color #3 bychain #1 Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels', 'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword > hide #!1 models > colour #3/B,G,X,M #0096FF > colour #3/A,F,J,W #00F900 > colour #3/H,Y,D,I #9437FF > colour #3/L,O,Q,R,S,T #FF9300 > colour #3/E,K,N,P #EF4E5D > save ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Map_model_coloured_v2.cxs"" includeMaps true ——— End of log from Tue Oct 1 13:16:34 2024 ——— opened ChimeraX session > open /Users/zbxg977/Desktop/penta_Ub_merged.pdb Chain information for penta_Ub_merged.pdb #5 --- Chain | Description A B C L | No description available O | No description available > select add #5 3424 atoms, 3454 bonds, 380 residues, 1 model selected > hide sel atoms > show sel cartoons > color sel orange > ui mousemode right select > select clear > ui tool show Matchmaker > matchmaker #5 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 P64_J12_model-coot-51_modified.pdb, chain Q (#3) with penta_Ub_merged.pdb, chain A (#5), sequence alignment score = 381.3 RMSD between 76 pruned atom pairs is 0.252 angstroms; (across all 76 pairs: 0.252) > undo [Repeated 3 time(s)] > select subtract #5 Nothing selected > hide #5 models > show #5 models > close #5 > open /Users/zbxg977/Desktop/penta_Ub_merged.pdb Chain information for penta_Ub_merged.pdb #5 --- Chain | Description A B C L | No description available O | No description available > hide #5#!3 atoms > show #5#!3 cartoons > ui tool show Matchmaker > matchmaker #5 to #3/O pairing bs Parameters --- Chain pairing | bs 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 P64_J12_model-coot-51_modified.pdb, chain O (#3) with penta_Ub_merged.pdb, chain O (#5), sequence alignment score = 374 RMSD between 76 pruned atom pairs is 0.115 angstroms; (across all 76 pairs: 0.115) > show #!4 models > open ""/Users/zbxg977/Desktop/cryosparc_P64_J40_020_volume_map (1).mrc"" Opened cryosparc_P64_J40_020_volume_map (1).mrc as #6, grid size 512,512,512, pixel 0.74, shown at level 0.00718, step 2, values float32 > volume #6 step 1 > volume #6 level 0.1541 > ui tool show ""Fit in Map"" > fitmap #6 inMap #4 Fit map cryosparc_P64_J40_020_volume_map (1).mrc in map P64_J12_deepemhancer.mrc copy using 129829 points correlation = 0.5054, correlation about mean = 0.1598, overlap = 3273 steps = 68, shift = 1.22, angle = 0.929 degrees Position of cryosparc_P64_J40_020_volume_map (1).mrc (#6) relative to P64_J12_deepemhancer.mrc copy (#4) coordinates: Matrix rotation and translation 0.99997912 -0.00487300 -0.00424498 0.66325650 0.00493555 0.99987753 0.01485147 -2.81150978 0.00417209 -0.01487211 0.99988070 2.51382637 Axis -0.91705127 -0.25968865 0.30261984 Axis point 0.00000000 149.66536670 175.10960512 Rotation angle (degrees) 0.92857977 Shift along axis 0.88261072 > fitmap #5 inMap #6 Fit molecule penta_Ub_merged.pdb (#5) to map cryosparc_P64_J40_020_volume_map (1).mrc (#6) using 3424 atoms average map value = 0.1626, steps = 124 shifted from previous position = 5.16 rotated from previous position = 14.8 degrees atoms outside contour = 1623, contour level = 0.15407 Position of penta_Ub_merged.pdb (#5) relative to cryosparc_P64_J40_020_volume_map (1).mrc (#6) coordinates: Matrix rotation and translation 0.99999913 0.00110329 0.00072892 -0.22178002 -0.00110201 0.99999785 -0.00175506 0.47587376 -0.00073085 0.00175425 0.99999819 -0.26439380 Axis 0.79861150 0.33219833 -0.50186048 Axis point 0.00000000 118.45743317 249.48623484 Rotation angle (degrees) 0.12588650 Shift along axis 0.11365719 > hide #!6 models > hide #!4 models > select #5/O 1034 atoms, 1040 bonds, 76 residues, 1 model selected > hide sel cartoons > select clear > select #3/L,Q 2394 atoms, 2406 bonds, 152 residues, 1 model selected > hide sel cartoons > select clear > select #5/A:63 9 atoms, 8 bonds, 1 residue, 1 model selected > show sel atoms > color sel byhetero > style sel stick Changed 9 atom styles > select clear > select #5 3424 atoms, 3454 bonds, 380 residues, 1 model selected > color sel orange > select #5:63 47 atoms, 42 bonds, 5 residues, 1 model selected > show sel atoms > style sel stick Changed 47 atom styles > select up 464 atoms, 461 bonds, 45 residues, 1 model selected > select up 3424 atoms, 3454 bonds, 380 residues, 1 model selected > select up 114681 atoms, 116174 bonds, 9202 residues, 9 models selected > select up 114681 atoms, 116174 bonds, 9202 residues, 9 models selected > select down 3424 atoms, 3454 bonds, 380 residues, 1 model selected > select down 464 atoms, 461 bonds, 45 residues, 1 model selected > select down 47 atoms, 42 bonds, 5 residues, 1 model selected > select down 47 atoms, 42 bonds, 5 residues, 1 model selected > select clear > select #5/O 1034 atoms, 1040 bonds, 76 residues, 1 model selected > hide sel atoms > select clear > color #3,5 byhetero > select #3/O 1070 atoms, 1076 bonds, 76 residues, 1 model selected > select #3/O:63 22 atoms, 21 bonds, 1 residue, 1 model selected > show sel atoms > style sel stick Changed 22 atom styles > select clear > delete H > save ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Map_model_coloured_v3.cxs"" includeMaps true > ui tool show ""Side View"" > cartoon style width 1 > cartoon style width 1.5 > select add #5 2929 atoms, 2959 bonds, 380 residues, 1 model selected > show sel surfaces > select clear > lighting soft > select #5/O 539 atoms, 545 bonds, 76 residues, 1 model selected > hide sel surfaces > select #3/O 539 atoms, 545 bonds, 76 residues, 1 model selected > show sel surfaces > select clear > save /Users/zbxg977/Desktop/image1.png supersample 3 > cartoon style thickness 1 > cartoon style thickness 0.8 > cartoon style thickness 0.7 > cartoon style width 2 0.7 Expected a keyword > cartoon style width 2 > lighting soft > lighting full > lighting simple > lighting soft > save /Users/zbxg977/Desktop/image2.png supersample 3 > select add #5 2929 atoms, 2959 bonds, 380 residues, 1 model selected > hide sel surfaces > select #3/O 539 atoms, 545 bonds, 76 residues, 1 model selected > hide sel surfaces > select clear > save /Users/zbxg977/Desktop/image3.png supersample 3 > open /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_55/P64_J12_model- > coot-52.pdb Summary of feedback from opening /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_55/P64_J12_model- coot-52.pdb --- warnings | Start residue of secondary structure not found: HELIX 46 46 ILE L 23 GLU L 34 1 12 Start residue of secondary structure not found: HELIX 47 47 PRO L 38 GLN L 40 5 3 Start residue of secondary structure not found: HELIX 48 48 SER L 57 TYR L 59 5 3 Start residue of secondary structure not found: HELIX 49 49 ILE Q 23 GLU Q 34 1 12 Start residue of secondary structure not found: HELIX 50 50 PRO Q 38 GLN Q 40 5 3 9 messages similar to the above omitted Chain information for P64_J12_model-coot-52.pdb #7 --- Chain | Description A | No description available B | No description available D | No description available E K N P | No description available F | No description available G | No description available H | No description available I | No description available J | No description available M | No description available O R | No description available S T | No description available W | No description available X | No description available Y | No description available > select add #7 61508 atoms, 62229 bonds, 43 pseudobonds, 4259 residues, 2 models selected > select subtract #7 Nothing selected > hide #!5 models > select add #7 61508 atoms, 62229 bonds, 43 pseudobonds, 4259 residues, 2 models selected > show sel atoms > close #7 > show #!6 models > hide #!6 models > show #!5 models > open /Users/zbxg977/Desktop/penta_Ub.pdb Summary of feedback from opening /Users/zbxg977/Desktop/penta_Ub.pdb --- warnings | Start residue of secondary structure not found: HELIX 1 1 ILE A 23 LYS A 33 1 11 Start residue of secondary structure not found: HELIX 2 2 PRO A 38 GLN A 40 1 3 Start residue of secondary structure not found: HELIX 3 3 SER A 57 TYR A 59 1 3 Start residue of secondary structure not found: SHEET 1 1 1 GLN A 2 THR A 7 0 Start residue of secondary structure not found: SHEET 2 2 1 THR A 12 GLU A 16 0 7 messages similar to the above omitted Chain information for penta_Ub.pdb --- Chain | Description 7.1/A 7.2/A 7.3/A 7.4/A 7.6/L | No description available 7.5/O | No description available > close #7 > open /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_55/P64_J12_model- > coot-52.pdb Chain information for P64_J12_model-coot-52.pdb #7 --- Chain | Description A B C L S T | No description available E K N P | No description available F | No description available G | No description available H | No description available I | No description available J | No description available M | No description available O R | No description available Q | No description available U | No description available V | No description available W | No description available X | No description available Y | No description available > hide #!5 models > hide #!3 models > select add #7 63898 atoms, 64643 bonds, 43 pseudobonds, 4563 residues, 2 models selected > hide sel atoms > show sel cartoons > select clear > dssp > save /Users/zbxg977/Desktop/BRISC_project/Phenix/PDBTools_55/P64_J12_model- > coot-52.pdb models #7 > colour #7/B,G,X,M #0096FF > colour #7/A,F,J,W #00F900 > colour #7/H,Y,D,I #9437FF > colour #7/L,O,Q,R,S,T #FF9300 > colour #7/E,K,N,P #EF4E5D > colour #7/G,X,M,U #0096FF > colour #7/Q,F,J,W #00F900 > colour #7/H,Y,D,I,V #9437FF > colour #7/L,O,R,S,T,C,B,A #FF9300 > colour #7/E,K,N,P #EF4E5D > cartoon style width 1 > cartoon style width 2 > cartoon style width 1.5 > cartoon style width 2 > open /Users/zbxg977/Desktop/penta_Ub_merged.pdb Chain information for penta_Ub_merged.pdb #8 --- Chain | Description A B C L | No description available O | No description available > select add #8 3424 atoms, 3454 bonds, 380 residues, 1 model selected > hide sel atoms > show sel cartoons > ui tool show Matchmaker > matchmaker #8 to #7/S pairing bs Parameters --- Chain pairing | bs 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 P64_J12_model-coot-52.pdb, chain S (#7) with penta_Ub_merged.pdb, chain L (#8), sequence alignment score = 373.5 RMSD between 76 pruned atom pairs is 0.190 angstroms; (across all 76 pairs: 0.190) > select clear > select #8/O 1034 atoms, 1040 bonds, 76 residues, 1 model selected > hide sel atoms > hide sel cartoons > select #7/S,T 2394 atoms, 2406 bonds, 152 residues, 1 model selected > hide sel cartoons > color #8 #ff9300ff > select clear > save /Users/zbxg977/Desktop/image4.png supersample 3 > hide #8 models > show #8 models > save ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Map_model_coloured_v4.cxs"" includeMaps true ——— End of log from Wed Oct 2 15:29:10 2024 ——— opened ChimeraX session > lighting simple > hide #8 models > show #8 models > show #!6 models > hide #!6 models > show #!1 models > hide #!1 models > close #1 > show #!2 models > hide #!2 models > close #3 > show #!4 models > hide #!4 models > close #4 > show #!5 models > hide #!5 models > close #5 > show #!6 models > hide #!6 models > show #!6 models > hide #!6 models > close #6 > hide #8 models > show #8 models > save /Users/zbxg977/Desktop/BRISC_Ub5_colouredbychain.cxs includeMaps true ——— End of log from Tue Oct 8 13:02:45 2024 ——— opened ChimeraX session > open ""/Users/zbxg977/Desktop/BRISC_project/CryoSPARC processing > Ub5/P64_W2_J50/P64_W2_J50_tightTarget.mrc"" Opened P64_W2_J50_tightTarget.mrc as #1, grid size 512,512,512, pixel 0.74, shown at level 9.17e-05, step 2, values float32 > hide #8 models > hide #!7 models > show #!2 models > volume #1 step 1 > volume #1 level 0.03755 > volume #1 level 0.04504 > ui tool show ""Fit in Map"" > fitmap #1 inMap #2 Fit map P64_W2_J50_tightTarget.mrc in map P64_J12_deepemhancer.mrc using 199202 points correlation = 0.5686, correlation about mean = 0.3003, overlap = 8709 steps = 48, shift = 0.318, angle = 0.391 degrees Position of P64_W2_J50_tightTarget.mrc (#1) relative to P64_J12_deepemhancer.mrc (#2) coordinates: Matrix rotation and translation 0.99997687 -0.00507535 -0.00452680 1.41739114 0.00507771 0.99998698 0.00051083 -1.00298621 0.00452415 -0.00053381 0.99998962 -0.85475381 Axis -0.07657733 -0.66347764 0.74426698 Axis point 208.59266405 277.12373612 0.00000000 Rotation angle (degrees) 0.39080851 Shift along axis -0.07924613 [deleted to fit within ticket limits] > crossfade > color #3/V #C0C0C0 > color #3/I dimgrey > wait 50 > crossfade > cartoon #3/O,L,D,C,B > wait 50 > crossfade > cartoon hide #6/O,L,A,C,B > wait 50 > roll y 1 360 > wait 390 > roll x -1 90 > wait 100 > crossfade > color #3/G,Q #0096FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/G,Q dimgray > wait 50 > crossfade > color #3/Y,Z #9437FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/Y,Z #C0C0C0 > wait 50 > roll x 1 90 > wait 100 > crossfade > cartoon hide #3/O,L,D,C,B > wait 50 > crossfade > cartoon #6/O,L,A,C,B > wait 50 > roll y 1 90 > wait 100 > crossfade > color #3/Q #0096FF > color #3/Z #9437FF > wait 50 > wait 50 > crossfade > color #3/Q dimgray > color #3/Z #C0C0C0 > wait 50 > crossfade > color #3/V #0096FF > color #3/I #9437FF > wait 50 > wait 50 > crossfade > color #3/V #C0C0C0 > color #3/I dimgrey > wait 50 > crossfade > cartoon #3/O,L,D,C,B > wait 50 > crossfade > cartoon hide #6/O,L,A,C,B > wait 50 > Movie record Unknown command: Movie record > roll y 1 360 > wait 390 > roll x -1 90 > wait 100 > crossfade > color #3/G,Q #0096FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/G,Q dimgray > wait 50 > crossfade > color #3/Y,Z #9437FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/Y,Z #C0C0C0 > wait 50 > roll x 1 90 > wait 100 > crossfade > cartoon hide #3/O,L,D,C,B > wait 50 > crossfade > cartoon #6/O,L,A,C,B > wait 50 > roll y 1 90 > wait 100 > crossfade > color #3/Q #0096FF > color #3/Z #9437FF > wait 50 > wait 50 > crossfade > color #3/Q dimgray > color #3/Z #C0C0C0 > wait 50 > crossfade > color #3/V #0096FF > color #3/I #9437FF > wait 50 > wait 50 > crossfade > color #3/V #C0C0C0 > color #3/I dimgrey > wait 50 > wait 100 > movie encode No frames have been recorded > crossfade > cartoon #3/O,L,D,C,B > wait 50 > crossfade > cartoon hide #6/O,L,A,C,B > wait 50 > Movie start Unknown command: Movie start > roll y 1 360 > wait 390 > roll x -1 90 > wait 100 > crossfade > color #3/G,Q #0096FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/G,Q dimgray > wait 50 > crossfade > color #3/Y,Z #9437FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/Y,Z #C0C0C0 > wait 50 > roll x 1 90 > wait 100 > crossfade > cartoon hide #3/O,L,D,C,B > wait 50 > crossfade > cartoon #6/O,L,A,C,B > wait 50 > roll y 1 90 > wait 100 > crossfade > color #3/Q #0096FF > color #3/Z #9437FF > wait 50 > wait 50 > crossfade > color #3/Q dimgray > color #3/Z #C0C0C0 > wait 50 > crossfade > color #3/V #0096FF > color #3/I #9437FF > wait 50 > wait 50 > crossfade > color #3/V #C0C0C0 > color #3/I dimgrey > wait 50 > wait 100 > movie encode No frames have been recorded > crossfade > cartoon #3/O,L,D,C,B > wait 50 > crossfade > cartoon hide #6/O,L,A,C,B > wait 50 > movie record > roll y 1 360 > wait 390 > roll x -1 90 > wait 100 > crossfade > color #3/G,Q #0096FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/G,Q dimgray > wait 50 > crossfade > color #3/Y,Z #9437FF > wait 50 [Repeated 1 time(s)] > crossfade > color #3/Y,Z #C0C0C0 > wait 50 > roll x 1 90 > wait 100 > crossfade > cartoon hide #3/O,L,D,C,B > wait 50 > crossfade > cartoon #6/O,L,A,C,B > wait 50 > roll y 1 90 > wait 100 > crossfade > color #3/Q #0096FF > color #3/Z #9437FF > wait 50 > wait 50 > crossfade > color #3/Q dimgray > color #3/Z #C0C0C0 > wait 50 > crossfade > color #3/V #0096FF > color #3/I #9437FF > wait 50 > wait 50 > crossfade > color #3/V #C0C0C0 > color #3/I dimgrey > wait 50 > wait 100 > movie encode Movie saved to /Users/zbxg977/Desktop/movie.mp4 > save ""/Users/zbxg977/Desktop/BRISC_project/Main figures/Figure > 2/Ub_states_movie.cxs"" includeMaps true ——— End of log from Fri Nov 22 14:40:20 2024 ——— opened ChimeraX session > close #7 > show #!5 models > show #!4 models > hide #!4 models > show #!4 models > hide #!4 models > show #!4 models > close #1-2 > close #4-5 > hide #!8 models > show #!8 models > hide #6 models > show #6 models > select add #3 53424 atoms, 54081 bonds, 43 pseudobonds, 4083 residues, 2 models selected > show sel cartoons > hide #6 models > select subtract #3 22 models selected > show #6 models > hide #6 models > hide #!8 models > show #!8 models > select #8/L,T 584 atoms, 590 bonds, 76 residues, 1 model selected > select #8/L,C 1186 atoms, 1198 bonds, 152 residues, 1 model selected > hide sel cartoons > select add #8 3424 atoms, 3454 bonds, 380 residues, 3 models selected > select subtract #8 5 models selected > open ""/Users/zbxg977/Desktop/BRISC_project/CryoSPARC processing > Ub5/Composite_map_v1.mrc"" Opened Composite_map_v1.mrc as #1, grid size 881,854,755, pixel 0.74,0.74,0.74, shown at step 1, values float32 > volume #1 level 0,0 level 0.01661,0.8 level 1.287,1 > volume #1 level 0,1 level 0.01661,0.8 level 1.287,1 > volume #1 region 0,0,0,880,853,754 step 4 [Repeated 1 time(s)] > volume #1 step 1 > hide #!1 models > show #!1 models > volume #1 level 0,1 level 0,0 level 1.287,1 > volume #1 level 0,1 level 0,0 level 1.322,0 > volume planes z style image imageMode ""full region"" > mousemode rightMode ""move planes"" > volume planes z style image imageMode ""full region"" > mousemode rightMode ""move planes"" > volume planes z style image imageMode ""full region"" > mousemode rightMode ""move planes"" > volume style surface > volume region all imageMode ""full region"" > volume unzone > mousemode rightMode ""crop volume"" Volume zone shortcut requires 1 displayed atomic model and 1 map, got 2 atomic models, 1 maps. > volume #1 orthoplanes xyz positionPlanes 440,427,377 style image region all > mousemode rightMode ""move planes"" > volume style surface > volume #1 level 0.04462 > surface dust #1 size 7.4 > ui tool show ""Side View"" > ui tool show ""Fit in Map"" > fitmap #3 inMap #1 Fit molecule P64_J12_model-coot-56.pdb (#3) to map Composite_map_v1.mrc (#1) using 53424 atoms average map value = 0.2036, steps = 252 shifted from previous position = 23.8 rotated from previous position = 6.84 degrees atoms outside contour = 19147, contour level = 0.044618 Position of P64_J12_model-coot-56.pdb (#3) relative to Composite_map_v1.mrc (#1) coordinates: Matrix rotation and translation 0.99999824 -0.00034178 0.00184313 -0.29642060 0.00034053 0.99999971 0.00068229 -0.21302121 -0.00184336 -0.00068166 0.99999807 0.51592373 Axis -0.34188411 0.92404809 0.17102743 Axis point 280.38615462 0.00000000 162.43947673 Rotation angle (degrees) 0.11429067 Shift along axis -0.00726324 > fitmap #8 inMap #1 Fit molecule penta_Ub_merged.pdb (#8) to map Composite_map_v1.mrc (#1) using 3424 atoms average map value = 0.144, steps = 232 shifted from previous position = 18.2 rotated from previous position = 20.5 degrees atoms outside contour = 1522, contour level = 0.044618 Position of penta_Ub_merged.pdb (#8) relative to Composite_map_v1.mrc (#1) coordinates: Matrix rotation and translation -0.65356489 0.44939063 0.60901642 118.65823822 0.44163674 -0.42703489 0.78904891 10.59241835 0.61466245 0.78465869 0.08062760 -72.88467696 Axis -0.41618722 -0.53523602 -0.73505823 Axis point 79.98021623 31.62011254 0.00000000 Rotation angle (degrees) 179.69780160 Shift along axis -1.47900474 > transparency 0 > transparency 50 > close #6 > transparency 0 > dssp > volume showOutlineBox false > hide #!1 models > select #8/O 1034 atoms, 1040 bonds, 76 residues, 1 model selected > hide sel cartoons > select add #8 3424 atoms, 3454 bonds, 380 residues, 2 models selected > select subtract #8 5 models selected > save ""/Users/zbxg977/Desktop/BRISC_project/CryoSPARC processing > Ub5/Map_model_Ub5_27Nov2024.cxs"" includeMaps true ——— End of log from Wed Nov 27 09:59:35 2024 ——— opened ChimeraX session > save /Users/sxfp8838/Library/CloudStorage/OneDrive- > UniversityofLeeds/BRISC/BRISC.cxs ——— End of log from Tue Feb 18 11:20:33 2025 ——— opened ChimeraX session > select #3/N:309 11 atoms, 10 bonds, 1 residue, 1 model selected > select up 45 atoms, 45 bonds, 3 residues, 2 models selected > select up 3760 atoms, 3805 bonds, 237 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 3760 atoms, 3805 bonds, 237 residues, 23 models selected > color (#!3 & sel) #ff8ad8ff [Repeated 1 time(s)] > color (#!3 & sel) #fc7d78ff [Repeated 1 time(s)] > select #3/A:281 9 atoms, 8 bonds, 1 residue, 1 model selected > select up 42 atoms, 42 bonds, 5 residues, 2 models selected > select up 1839 atoms, 1884 bonds, 231 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 1839 atoms, 1884 bonds, 231 residues, 23 models selected > color (#!3 & sel) #fc7d78ff > select #3/Z:383 20 atoms, 19 bonds, 1 residue, 1 model selected > select up 351 atoms, 356 bonds, 22 residues, 2 models selected > select up 3987 atoms, 4047 bonds, 251 residues, 2 models selected > select up 4001 atoms, 4060 bonds, 253 residues, 2 models selected > select up 4600 atoms, 4672 bonds, 314 residues, 2 models selected > select up 4761 atoms, 4831 bonds, 330 residues, 2 models selected > select up 4866 atoms, 4939 bonds, 340 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 4866 atoms, 4939 bonds, 340 residues, 23 models selected > color (#!3 & sel) #9838ffff > color (#!3 & sel) #9437ffff [Repeated 1 time(s)] > select #3/G:145 17 atoms, 16 bonds, 1 residue, 1 model selected > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected > select #3/Q:88 Nothing selected > select #3/Q:145 Nothing selected > select #3/G:134 16 atoms, 15 bonds, 1 residue, 1 model selected > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 188 atoms, 187 bonds, 14 residues, 2 models selected > select up 1601 atoms, 1620 bonds, 110 residues, 2 models selected > select up 1640 atoms, 1657 bonds, 113 residues, 2 models selected > select up 3743 atoms, 3777 bonds, 250 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 43 pseudobonds, 4083 residues, 24 models selected > select down 53424 atoms, 54081 bonds, 4083 residues, 23 models selected > select down 3743 atoms, 3777 bonds, 250 residues, 23 models selected > color (#!3 & sel) #28a3ffff > color (#!3 & sel) #2bb3ffff > color (#!3 & sel) #2799ffff > color (#!3 & sel) #28a2ffff > color (#!3 & sel) #0096ffff > color (#!3 & sel) #0433ffff > color (#!3 & sel) #0096ffff > color (#!3 & sel) #76d6ffff > color (#!3 & sel) #0096ffff > color (#!3 & sel) #005493ff > color (#!3 & sel) #0096ffff > color (#!3 & sel) #125895ff > color (#!3 & sel) #2591f6ff > color (#!3 & sel) #0096ffff > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected > style sel stick Changed 7 atom styles > show sel atoms > show sel cartoons > show sel surfaces > hide sel surfaces > style sel stick Changed 7 atom styles > style sel sphere Changed 7 atom styles > style sel ball Changed 7 atom styles > hbonds sel reveal true 0 hydrogen bonds found > hbonds sel reveal true 0 hydrogen bonds found > ~hbonds > style sel stick Changed 7 atom styles > hbonds sel reveal true 0 hydrogen bonds found > ~hbonds > select #3/B:25 8 atoms, 7 bonds, 1 residue, 1 model selected > select up 98 atoms, 96 bonds, 12 residues, 2 models selected > select up 272 atoms, 272 bonds, 35 residues, 2 models selected > select up 287 atoms, 287 bonds, 37 residues, 2 models selected > select up 602 atoms, 606 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 602 atoms, 606 bonds, 76 residues, 23 models selected > show sel atoms > hide sel atoms > style sel sphere Changed 602 atom styles > style sel sphere Changed 602 atom styles > show sel atoms > style sel stick Changed 602 atom styles > hide sel atoms > show sel surfaces > select #3/O:69 19 atoms, 18 bonds, 1 residue, 1 model selected > select up 85 atoms, 85 bonds, 5 residues, 2 models selected > select up 1070 atoms, 1076 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 1070 atoms, 1076 bonds, 76 residues, 23 models selected > show sel surfaces > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected > style sel ball Changed 7 atom styles > color (#!3 & sel) blue > select #3/F:248 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 639 atoms, 640 bonds, 47 residues, 2 models selected > select up 1049 atoms, 1056 bonds, 80 residues, 2 models selected > select up 1319 atoms, 1327 bonds, 98 residues, 2 models selected > select up 2901 atoms, 2929 bonds, 195 residues, 2 models selected > select up 2925 atoms, 2952 bonds, 197 residues, 2 models selected > select up 3369 atoms, 3402 bonds, 229 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 3369 atoms, 3402 bonds, 229 residues, 23 models selected > color (#!3 & sel) lime > select #3/M:222 10 atoms, 9 bonds, 1 residue, 1 model selected > select up 472 atoms, 473 bonds, 41 residues, 2 models selected > select up 934 atoms, 941 bonds, 75 residues, 2 models selected > select up 1124 atoms, 1132 bonds, 89 residues, 2 models selected > select up 1888 atoms, 1907 bonds, 154 residues, 2 models selected > select up 1906 atoms, 1924 bonds, 156 residues, 2 models selected > select up 2009 atoms, 2030 bonds, 163 residues, 2 models selected > select up 2382 atoms, 2408 bonds, 192 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 2382 atoms, 2408 bonds, 192 residues, 23 models selected > color (#!3 & sel) lime > select #3/Q:306 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 363 atoms, 366 bonds, 31 residues, 2 models selected > select up 1386 atoms, 1399 bonds, 100 residues, 2 models selected > select up 1538 atoms, 1556 bonds, 112 residues, 2 models selected > select up 1838 atoms, 1861 bonds, 140 residues, 2 models selected > select up 1869 atoms, 1891 bonds, 142 residues, 2 models selected > select up 2009 atoms, 2033 bonds, 151 residues, 2 models selected > select up 2045 atoms, 2068 bonds, 155 residues, 2 models selected > select up 2420 atoms, 2446 bonds, 183 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 2420 atoms, 2446 bonds, 183 residues, 23 models selected > color (#!3 & sel) #0096ffff > select #3/I:122 17 atoms, 16 bonds, 1 residue, 1 model selected > select up 320 atoms, 322 bonds, 19 residues, 2 models selected > select up 4963 atoms, 5054 bonds, 383 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 4963 atoms, 5054 bonds, 383 residues, 23 models selected > color (#!3 & sel) #9437ffff > select #3/J:122 17 atoms, 16 bonds, 1 residue, 1 model selected > select up 256 atoms, 258 bonds, 16 residues, 2 models selected > select up 1430 atoms, 1454 bonds, 100 residues, 2 models selected > select up 1465 atoms, 1487 bonds, 104 residues, 2 models selected > select up 1838 atoms, 1864 bonds, 132 residues, 2 models selected > select up 2185 atoms, 2211 bonds, 161 residues, 2 models selected > select up 4726 atoms, 4795 bonds, 322 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 4726 atoms, 4795 bonds, 322 residues, 23 models selected > color (#!3 & sel) #9437ffff > select #3/G:88@CA 1 atom, 1 residue, 1 model selected > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected > select #3/G:88@CA 1 atom, 1 residue, 1 model selected > select #3/B:36@CD1 1 atom, 1 residue, 1 model selected > select #3/J:298 14 atoms, 13 bonds, 1 residue, 1 model selected > select #3/Y:9 24 atoms, 23 bonds, 1 residue, 1 model selected > select up 106 atoms, 106 bonds, 8 residues, 2 models selected > select up 565 atoms, 568 bonds, 44 residues, 2 models selected > select up 602 atoms, 604 bonds, 47 residues, 2 models selected > select up 723 atoms, 727 bonds, 53 residues, 2 models selected > select up 808 atoms, 812 bonds, 60 residues, 2 models selected > select up 2035 atoms, 2062 bonds, 151 residues, 2 models selected > select up 2247 atoms, 2275 bonds, 168 residues, 2 models selected > select up 4056 atoms, 4129 bonds, 351 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 4056 atoms, 4129 bonds, 351 residues, 23 models selected > color (#!3 & sel) #9437ffff > select #3/U:137 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 178 atoms, 180 bonds, 14 residues, 2 models selected > select up 631 atoms, 639 bonds, 46 residues, 2 models selected > select up 943 atoms, 951 bonds, 69 residues, 2 models selected > select up 1303 atoms, 1319 bonds, 94 residues, 2 models selected > select up 1574 atoms, 1591 bonds, 114 residues, 2 models selected > select up 2313 atoms, 2337 bonds, 178 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 43 pseudobonds, 4083 residues, 24 models selected > select up 53424 atoms, 54081 bonds, 43 pseudobonds, 4083 residues, 24 models selected > select down 43 pseudobonds, 23 models selected > select #3/U:137 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 178 atoms, 180 bonds, 14 residues, 2 models selected > select up 631 atoms, 639 bonds, 46 residues, 2 models selected > select up 943 atoms, 951 bonds, 69 residues, 2 models selected > select up 1303 atoms, 1319 bonds, 94 residues, 2 models selected > select up 1574 atoms, 1591 bonds, 114 residues, 2 models selected > select up 2313 atoms, 2337 bonds, 178 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 2313 atoms, 2337 bonds, 178 residues, 23 models selected > color (#!3 & sel) lime > select #3/V:262 19 atoms, 18 bonds, 1 residue, 1 model selected > select up 329 atoms, 330 bonds, 22 residues, 2 models selected > select up 1237 atoms, 1249 bonds, 91 residues, 2 models selected > select up 1558 atoms, 1577 bonds, 116 residues, 2 models selected > select up 1653 atoms, 1673 bonds, 124 residues, 2 models selected > select up 1660 atoms, 1679 bonds, 125 residues, 2 models selected > select up 1997 atoms, 2019 bonds, 152 residues, 2 models selected > select up 1998 atoms, 2019 bonds, 153 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 1998 atoms, 2019 bonds, 153 residues, 23 models selected > ui tool show ""Color Actions"" > color (#!3 & sel) #0096ffff > select #3/X:262 19 atoms, 18 bonds, 1 residue, 1 model selected > select up 329 atoms, 330 bonds, 22 residues, 2 models selected > select up 1411 atoms, 1424 bonds, 100 residues, 2 models selected > select up 1657 atoms, 1671 bonds, 116 residues, 2 models selected > select up 1715 atoms, 1730 bonds, 119 residues, 2 models selected > select up 2709 atoms, 2735 bonds, 200 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 2709 atoms, 2735 bonds, 200 residues, 23 models selected > color (#!3 & sel) #0096ffff > select #3/W:237 11 atoms, 10 bonds, 1 residue, 1 model selected > select up 605 atoms, 606 bonds, 44 residues, 2 models selected > select up 787 atoms, 789 bonds, 57 residues, 2 models selected > select up 794 atoms, 795 bonds, 58 residues, 2 models selected > select up 927 atoms, 929 bonds, 68 residues, 2 models selected > select up 1285 atoms, 1288 bonds, 92 residues, 2 models selected > select up 2872 atoms, 2895 bonds, 189 residues, 2 models selected > select up 2904 atoms, 2926 bonds, 191 residues, 2 models selected > select up 3353 atoms, 3381 bonds, 223 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 3353 atoms, 3381 bonds, 223 residues, 23 models selected > color (#!3 & sel) lime > select #3/G:88@CA 1 atom, 1 residue, 1 model selected > select #3/G:88@CB 1 atom, 1 residue, 1 model selected > color (#!3 & sel) cyan > select #3/G:88@CA 1 atom, 1 residue, 1 model selected > select #3/G:88@CB 1 atom, 1 residue, 1 model selected > color (#!3 & sel) #ff2600ff > select #3/G:88@CA 1 atom, 1 residue, 1 model selected > color (#!3 & sel) #ff2600ff > select #3/X:290 24 atoms, 23 bonds, 1 residue, 1 model selected > select #3/G:88@CA 1 atom, 1 residue, 1 model selected > color (#!3 & sel) #0096ffff > select #3/G:88@CB 1 atom, 1 residue, 1 model selected > color (#!3 & sel) #0096ffff > select #3/G:129 16 atoms, 15 bonds, 1 residue, 1 model selected > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected > select #3/G:145 17 atoms, 16 bonds, 1 residue, 1 model selected > select #3/G:145 17 atoms, 16 bonds, 1 residue, 1 model selected > select #3/G:88@CB 1 atom, 1 residue, 1 model selected > show sel atoms > hide sel atoms > select #3/G:145 17 atoms, 16 bonds, 1 residue, 1 model selected > show sel atoms > color bfactor sel 17 atoms, 1 residues, 1 surfaces, atom bfactor range 64.7 to 84.5 > color bfactor sel 17 atoms, 1 residues, 1 surfaces, atom bfactor range 64.7 to 84.5 > nucleotides sel atoms > style nucleic & sel stick Changed 0 atom styles > show sel atoms > hide sel atoms > show sel atoms > style sel ball Changed 17 atom styles > hide sel atoms > show sel atoms > lighting simple > ui tool show ""Side View"" [Repeated 2 time(s)] > view > color (#!3 & sel) red > view sel > view > ui tool show ""Side View"" > select #3/X:215 14 atoms, 14 bonds, 1 residue, 1 model selected > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected Drag select of P64_J12_model-coot-56.pdb_O SES surface, 70 of 93436 triangles, 2 residues > select #3/G:145 17 atoms, 16 bonds, 1 residue, 1 model selected > hide sel atoms > color (#!3 & sel) #0096ffff > select #3/O:34@CB 1 atom, 1 residue, 1 model selected > select up 7 atoms, 6 bonds, 1 residue, 2 models selected > select up 102 atoms, 103 bonds, 8 residues, 2 models selected > select up 1070 atoms, 1076 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 1070 atoms, 1076 bonds, 76 residues, 23 models selected > select down 102 atoms, 103 bonds, 8 residues, 2 models selected > select up 1070 atoms, 1076 bonds, 76 residues, 2 models selected > nucleotides sel atoms > style nucleic & sel stick Changed 0 atom styles > hide sel surfaces > select #3/B:66@N 1 atom, 1 residue, 1 model selected > select up 7 atoms, 6 bonds, 1 residue, 2 models selected > select up 48 atoms, 48 bonds, 6 residues, 2 models selected > select up 330 atoms, 334 bonds, 41 residues, 2 models selected > select up 334 atoms, 337 bonds, 42 residues, 2 models selected > select up 369 atoms, 372 bonds, 46 residues, 2 models selected > select up 432 atoms, 434 bonds, 54 residues, 2 models selected > select up 602 atoms, 606 bonds, 76 residues, 2 models selected > select down 432 atoms, 434 bonds, 54 residues, 2 models selected > hide sel surfaces > select up 602 atoms, 606 bonds, 76 residues, 2 models selected > hide sel surfaces > select #3/Y:140 20 atoms, 20 bonds, 1 residue, 1 model selected > show sel atoms > select #3/D:25 8 atoms, 7 bonds, 1 residue, 1 model selected > select up 98 atoms, 97 bonds, 12 residues, 2 models selected > select up 602 atoms, 608 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 602 atoms, 608 bonds, 76 residues, 23 models selected > show sel surfaces > ui tool show ""Side View"" > select #3/D:8@CD2 1 atom, 1 residue, 1 model selected > select #3/Y:140 20 atoms, 20 bonds, 1 residue, 1 model selected > view sel [Repeated 2 time(s)] > view > color (#!3 & sel) red > select #3/L:19 7 atoms, 7 bonds, 1 residue, 1 model selected > select up 44 atoms, 44 bonds, 6 residues, 2 models selected > select up 584 atoms, 590 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 584 atoms, 590 bonds, 76 residues, 23 models selected > show sel cartoons > show sel surfaces > hide sel surfaces > select #3/Y:71 19 atoms, 18 bonds, 1 residue, 1 model selected > select #3/Y:140 20 atoms, 20 bonds, 1 residue, 1 model selected > hide sel atoms > color (#!3 & sel) #9437ffff > select #3/D:16@N 1 atom, 1 residue, 1 model selected > select up 9 atoms, 8 bonds, 1 residue, 2 models selected > select up 39 atoms, 38 bonds, 5 residues, 2 models selected > select up 602 atoms, 608 bonds, 76 residues, 2 models selected > hide sel surfaces > select #3/G:33 10 atoms, 9 bonds, 1 residue, 1 model selected > select #3/G:33 10 atoms, 9 bonds, 1 residue, 1 model selected > select #3/G:33 10 atoms, 9 bonds, 1 residue, 1 model selected > view sel > view > select #3/f:33 24 atoms, 23 bonds, 1 residue, 1 model selected > view sel > select #3/Q:33 10 atoms, 9 bonds, 1 residue, 1 model selected > view sel > view > show sel atoms > color (#!3 & sel) orange red > color (#!3 & sel) red > select #3/G:33 10 atoms, 9 bonds, 1 residue, 1 model selected > view sel > show sel atoms > color (#!3 & sel) red > view > select #3/Q:33 10 atoms, 9 bonds, 1 residue, 1 model selected > ui tool show ""Color Actions"" > color (#!3 & sel) #0096ffff > hide sel atoms > select #3/O:25 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 168 atoms, 167 bonds, 11 residues, 2 models selected > select up 1070 atoms, 1076 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 1070 atoms, 1076 bonds, 76 residues, 23 models selected > show sel surfaces > select #3/B:15 8 atoms, 7 bonds, 1 residue, 1 model selected > select up 39 atoms, 38 bonds, 5 residues, 2 models selected > select up 233 atoms, 234 bonds, 30 residues, 2 models selected > select up 268 atoms, 268 bonds, 34 residues, 2 models selected > select up 272 atoms, 272 bonds, 35 residues, 2 models selected > select up 287 atoms, 287 bonds, 37 residues, 2 models selected > select up 602 atoms, 606 bonds, 76 residues, 2 models selected > show sel surfaces > select #3/L:14 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 37 atoms, 36 bonds, 5 residues, 2 models selected > select up 584 atoms, 590 bonds, 76 residues, 2 models selected > show sel surfaces > select #3/A:161 6 atoms, 5 bonds, 1 residue, 1 model selected > select #3/G:89 7 atoms, 6 bonds, 1 residue, 1 model selected > show sel atoms > select #3/L:20@N 1 atom, 1 residue, 1 model selected > select down 1 atom, 1 residue, 2 models selected > select down 1 atom, 1 residue, 2 models selected > select up 6 atoms, 5 bonds, 1 residue, 2 models selected > select up 44 atoms, 44 bonds, 6 residues, 2 models selected > select up 584 atoms, 590 bonds, 76 residues, 2 models selected > hide sel surfaces > style sel ball Changed 584 atom styles > style sel ball Changed 584 atom styles > select clear > style sel ball Changed 0 atom styles > style sel ball Changed 0 atom styles > style sel stick Changed 0 atom styles > style sel ball Changed 0 atom styles > select #3/G:88 7 atoms, 6 bonds, 1 residue, 1 model selected > show sel atoms > select #3/G:89 7 atoms, 6 bonds, 1 residue, 1 model selected > hide sel atoms > select #3/G:33 10 atoms, 9 bonds, 1 residue, 1 model selected > hide sel atoms > color (#!3 & sel) #0096ffff > select #3/G:88@CB 1 atom, 1 residue, 1 model selected > hide sel atoms > select #3/B:49@NE2 1 atom, 1 residue, 1 model selected > select up 9 atoms, 8 bonds, 1 residue, 2 models selected > select up 93 atoms, 93 bonds, 12 residues, 2 models selected > select up 330 atoms, 334 bonds, 41 residues, 2 models selected > select up 334 atoms, 337 bonds, 42 residues, 2 models selected > select up 369 atoms, 372 bonds, 46 residues, 2 models selected > select up 432 atoms, 434 bonds, 54 residues, 2 models selected > select up 602 atoms, 606 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 602 atoms, 606 bonds, 76 residues, 23 models selected > hide sel surfaces > select #3/O:45@CE1 1 atom, 1 residue, 1 model selected > select up 20 atoms, 20 bonds, 1 residue, 2 models selected > select up 279 atoms, 280 bonds, 21 residues, 2 models selected > select up 1070 atoms, 1076 bonds, 76 residues, 2 models selected > hide sel surfaces > select #3/Y:263 20 atoms, 20 bonds, 1 residue, 1 model selected > show sel atoms > color (#!3 & sel) red > select #3/Y:320 11 atoms, 10 bonds, 1 residue, 1 model selected > show sel atoms > color (#!3 & sel) red > style sel ball Changed 11 atom styles > select #3/Y:263 20 atoms, 20 bonds, 1 residue, 1 model selected > style sel ball Changed 20 atom styles > select #3/L:57 6 atoms, 5 bonds, 1 residue, 1 model selected > select up 26 atoms, 26 bonds, 3 residues, 2 models selected > select up 584 atoms, 590 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 584 atoms, 590 bonds, 76 residues, 23 models selected > show sel surfaces > select #3/O:20 7 atoms, 6 bonds, 1 residue, 1 model selected > select up 65 atoms, 65 bonds, 6 residues, 2 models selected > select up 1070 atoms, 1076 bonds, 76 residues, 2 models selected > show sel surfaces > select #3/D:29 9 atoms, 8 bonds, 1 residue, 1 model selected > select up 98 atoms, 97 bonds, 12 residues, 2 models selected > select up 602 atoms, 608 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 602 atoms, 608 bonds, 76 residues, 23 models selected > show sel surfaces > select #3/F:133 19 atoms, 18 bonds, 1 residue, 1 model selected > select #3/Y:320 11 atoms, 10 bonds, 1 residue, 1 model selected > hide sel atoms > color (#!3 & sel) #9437ffff > select #3/Y:263 20 atoms, 20 bonds, 1 residue, 1 model selected > color (#!3 & sel) #9437ffff > hide sel atoms > select #3/D:58@OD2 1 atom, 1 residue, 1 model selected > select up 8 atoms, 7 bonds, 1 residue, 2 models selected > select up 26 atoms, 26 bonds, 3 residues, 2 models selected > select up 602 atoms, 608 bonds, 76 residues, 2 models selected > hide sel surfaces > select #3/L:1@CB 1 atom, 1 residue, 1 model selected > select up 5 atoms, 4 bonds, 1 residue, 2 models selected > select up 584 atoms, 590 bonds, 76 residues, 2 models selected > select up 53424 atoms, 54081 bonds, 4083 residues, 2 models selected > select down 584 atoms, 590 bonds, 76 residues, 23 models selected > hide sel surfaces > select #3/O:32@O 1 atom, 1 residue, 1 model selected > select up 7 atoms, 6 bonds, 1 residue, 2 models selected > select up 168 atoms, 167 bonds, 11 residues, 2 models selected > select up 1070 atoms, 1076 bonds, 76 residues, 2 models selected > hide sel surfaces > save ""/Users/sxfp8838/OneDrive - University of Leeds/BRISC/BRISC coloured > .cxs"" ——— End of log from Tue Feb 25 14:10:22 2025 ——— opened ChimeraX session OpenGL version: 4.1 Metal - 89.3 OpenGL renderer: Apple M3 Pro OpenGL vendor: Apple Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.4.2, Qt 6.4.2 Qt runtime version: 6.4.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: Mac15,6 Model Number: MRX33B/A Chip: Apple M3 Pro Total Number of Cores: 11 (5 performance and 6 efficiency) Memory: 18 GB System Firmware Version: 11881.81.4 OS Loader Version: 11881.81.4 Software: System Software Overview: System Version: macOS 15.3.1 (24D70) Kernel Version: Darwin 24.3.0 Time since boot: 35 days, 3 hours, 46 minutes Graphics/Displays: Apple M3 Pro: Chipset Model: Apple M3 Pro Type: GPU Bus: Built-In Total Number of Cores: 14 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: PL2783Q: Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition) UI Looks like: 2560 x 1440 @ 60.00Hz Main Display: Yes Mirror: On Mirror Status: Master Mirror Online: Yes Rotation: Supported Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Mirror: On Mirror Status: Hardware Mirror Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 0.7.13 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.2.1 Babel: 2.12.1 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 build: 0.10.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 3.1.0 ChimeraX-AddCharge: 1.5.9.1 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.3.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.9.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.43.10 ChimeraX-AtomicLibrary: 10.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3.2 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.8 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.2 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3.1 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.3 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.6.1 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.4.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2 ChimeraX-DistMonitor: 1.4 ChimeraX-DockPrep: 1.1.1 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: 1.2.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 ChimeraX-Map: 1.1.4 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: 2.0.12 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.9 ChimeraX-ModelPanel: 1.3.7 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.0 ChimeraX-NRRD: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.10.1 ChimeraX-PDB: 2.7.2 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 3.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.1 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.8.3 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10.3 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1.2 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Topography: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.28.4 ChimeraX-uniprot: 2.2.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.2 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.1 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.1.3 contourpy: 1.0.7 cxservices: 1.2.2 cycler: 0.11.0 Cython: 0.29.33 debugpy: 1.6.7 decorator: 5.1.1 docutils: 0.19 executing: 1.2.0 filelock: 3.9.0 fonttools: 4.39.3 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.8.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.35 imagecodecs: 2022.2.22 imagesize: 1.4.1 importlib-metadata: 6.6.0 ipykernel: 6.21.1 ipython: 8.10.0 ipython-genutils: 0.2.0 ipywidgets: 8.0.6 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.0.2 jupyter-core: 5.3.0 jupyterlab-widgets: 3.0.7 kiwisolver: 1.4.4 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.2 matplotlib: 3.6.3 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.2 networkx: 2.8.8 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.4 numpy: 1.23.5 openvr: 1.23.701 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.3.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 3.5.0 prompt-toolkit: 3.0.38 psutil: 5.9.4 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.14.0 pynrrd: 1.0.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.4.2 PyQt6-Qt6: 6.4.3 PyQt6-sip: 13.4.1 PyQt6-WebEngine-commercial: 6.4.0 PyQt6-WebEngine-Qt6: 6.4.3 python-dateutil: 2.8.2 pytz: 2023.3 pyzmq: 25.0.2 qtconsole: 5.4.0 QtPy: 2.3.1 RandomWords: 0.4.0 requests: 2.28.2 scipy: 1.9.3 setuptools: 67.4.0 setuptools-scm: 7.0.5 sfftk-rw: 0.7.3 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.4.1 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 sphinxcontrib-applehelp: 1.0.4 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.1 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 tcia-utils: 1.2.0 tifffile: 2022.10.10 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.3.1 traitlets: 5.9.0 typing-extensions: 4.5.0 tzdata: 2023.3 urllib3: 1.26.15 wcwidth: 0.2.6 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.7 zipp: 3.15.0 }}} " defect closed normal Window Toolkit duplicate all ChimeraX