![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 4 years ago
Closed 4 years ago
#5291 closed defect (nonchimerax)
Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Graphics | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.14.6-x86_64-i386-64bit
ChimeraX Version: 1.3.dev202109020559 (2021-09-02 05:59:02 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Aborted
Current thread 0x000000010f4265c0 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/opengl.py", line 2617 in release_buffer
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/opengl.py", line 2661 in update_buffer_data
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 1847 in update_buffers
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 1859 in activate_bindings
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 786 in _draw_geometry
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 759 in draw_self
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 752 in draw
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 1512 in _draw_multiple
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 1499 in draw_opaque
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/view.py", line 233 in _draw_scene
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/view.py", line 165 in draw
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/updateloop.py", line 73 in draw_new_frame
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/updateloop.py", line 138 in _redraw_timer_callback
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 301 in event_loop
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 882 in init
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1031 in
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main
Process: ChimeraX [410]
Path: /Applications/ChimeraX_Daily.app/Contents/MacOS/ChimeraX
Identifier: ChimeraX
Version: 1.3.0 (1.3.0.0)
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: ChimeraX [410]
User ID: 501
Date/Time: 2021-09-26 22:03:06.082 -0700
OS Version: Mac OS X 10.14.6 (18G103)
Report Version: 12
Bridge OS Version: 3.0 (14Y904)
Anonymous UUID: 5C5D08FC-F001-8956-A2C8-41B405FE88E3
Time Awake Since Boot: 17000 seconds
System Integrity Protection: enabled
Crashed Thread: 0 CrBrowserMain Dispatch queue: com.apple.main-thread
Exception Type: EXC_CRASH (SIGABRT)
Exception Codes: 0x0000000000000000, 0x0000000000000000
Exception Note: EXC_CORPSE_NOTIFY
Application Specific Information:
abort() called
Application Specific Signatures:
Graphics hardware encountered an error and was reset: 0x00000803
Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff7df3d2c6 __pthread_kill + 10
1 libsystem_pthread.dylib 0x00007fff7dff8bf1 pthread_kill + 284
2 libsystem_c.dylib 0x00007fff7de5ad8a raise + 26
3 libsystem_platform.dylib 0x00007fff7dfedb5d _sigtramp + 29
4 ??? 000000000000000000 0 + 0
5 libsystem_c.dylib 0x00007fff7dea76a6 abort + 127
6 libGPUSupportMercury.dylib 0x00007fff6cf14240 gpusGenerateCrashLog + 166
7 com.apple.driver.AppleIntelKBLGraphicsGLDriver 0x00007fff4b1fd578 gpusKillClientExt + 9
8 libGPUSupportMercury.dylib 0x00007fff6cf15730 gpusSubmitDataBuffers + 490
9 com.apple.driver.AppleIntelKBLGraphicsGLDriver 0x00007fff4a656ea8 IntelCommandBuffer::getNew(GLDContextRec*) + 48
10 com.apple.driver.AppleIntelKBLGraphicsGLDriver 0x00007fff4a656cba intelSubmitCommands + 171
11 GLEngine 0x00007fff5bc0918e gleUnbindBufferObject + 58
12 GLEngine 0x00007fff5bc1e381 gleUnbindDeleteHashNameAndObject + 63
13 GLEngine 0x00007fff5bb51472 glDeleteBuffers_Exec + 2206
14 libffi.dylib 0x00007fff7b9abf6c ffi_call_unix64 + 76
15 libffi.dylib 0x00007fff7b9ac775 ffi_call + 785
16 _ctypes.cpython-39-darwin.so 0x000000010e76dead _ctypes_callproc + 1037
17 _ctypes.cpython-39-darwin.so 0x000000010e767c36 PyCFuncPtr_call + 1206
18 org.python.python 0x000000010aac96cc _PyObject_Call + 140
19 org.python.python 0x000000010ab21d46 slot_tp_call + 230
20 wrapper.cpython-39-darwin.so 0x00000001290172ae __pyx_pw_17OpenGL_accelerate_7wrapper_7Wrapper_3__call__ + 830
21 latebind.cpython-39-darwin.so 0x000000012907349e __pyx_pw_17OpenGL_accelerate_8latebind_8LateBind_11__call__ + 158
22 org.python.python 0x000000010aac917d _PyObject_MakeTpCall + 365
23 org.python.python 0x000000010aba161c call_function + 876
24 org.python.python 0x000000010ab9eab3 _PyEval_EvalFrameDefault + 25219
25 org.python.python 0x000000010aac9948 function_code_fastcall + 104
26 org.python.python 0x000000010aba158c call_function + 732
27 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
28 org.python.python 0x000000010aac9948 function_code_fastcall + 104
29 org.python.python 0x000000010aba158c call_function + 732
30 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
31 org.python.python 0x000000010aac9948 function_code_fastcall + 104
32 org.python.python 0x000000010aba158c call_function + 732
33 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
34 org.python.python 0x000000010aac9948 function_code_fastcall + 104
35 org.python.python 0x000000010aba158c call_function + 732
36 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
37 org.python.python 0x000000010aba2283 _PyEval_EvalCode + 2611
38 org.python.python 0x000000010aac98d1 _PyFunction_Vectorcall + 289
39 org.python.python 0x000000010aacb98a method_vectorcall + 202
40 org.python.python 0x000000010aba158c call_function + 732
41 org.python.python 0x000000010ab9ebe1 _PyEval_EvalFrameDefault + 25521
42 org.python.python 0x000000010aac9948 function_code_fastcall + 104
43 org.python.python 0x000000010aba158c call_function + 732
44 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
45 org.python.python 0x000000010aac9948 function_code_fastcall + 104
46 org.python.python 0x000000010aba158c call_function + 732
47 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
48 org.python.python 0x000000010aac9948 function_code_fastcall + 104
49 org.python.python 0x000000010aba158c call_function + 732
50 org.python.python 0x000000010ab9eb4b _PyEval_EvalFrameDefault + 25371
51 org.python.python 0x000000010aac9948 function_code_fastcall + 104
52 org.python.python 0x000000010aba158c call_function + 732
53 org.python.python 0x000000010ab9eb4b _PyEval_EvalFrameDefault + 25371
54 org.python.python 0x000000010aac9948 function_code_fastcall + 104
55 org.python.python 0x000000010aba158c call_function + 732
56 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
57 org.python.python 0x000000010aba2283 _PyEval_EvalCode + 2611
58 org.python.python 0x000000010aac98d1 _PyFunction_Vectorcall + 289
59 org.python.python 0x000000010aacb98a method_vectorcall + 202
60 org.python.python 0x000000010aba158c call_function + 732
61 org.python.python 0x000000010ab9ebe1 _PyEval_EvalFrameDefault + 25521
62 org.python.python 0x000000010aac9948 function_code_fastcall + 104
63 org.python.python 0x000000010aba158c call_function + 732
64 org.python.python 0x000000010ab9ea92 _PyEval_EvalFrameDefault + 25186
65 org.python.python 0x000000010aac9948 function_code_fastcall + 104
66 org.python.python 0x000000010aacb9d2 method_vectorcall + 274
67 QtCore.abi3.so 0x00000001153c8957 PyQtSlot::call(_object*, _object*) const + 39
68 QtCore.abi3.so 0x00000001153c8866 PyQtSlot::invoke(void**, _object*, void*, bool) const + 374
69 QtCore.abi3.so 0x00000001153c9455 PyQtSlotProxy::unislot(void**) + 85
70 QtCore.abi3.so 0x00000001153c93ca PyQtSlotProxy::qt_metacall(QMetaObject::Call, int, void**) + 58
71 QtCore 0x00000001157acf6e void doActivate(QObject*, int, void**) + 1118
72 QtCore 0x00000001157b64c2 QTimer::timerEvent(QTimerEvent*) + 98
73 QtCore.abi3.so 0x00000001152b1bf9 sipQTimer::timerEvent(QTimerEvent*) + 121
74 QtCore 0x00000001157a485f QObject::event(QEvent*) + 111
75 QtCore.abi3.so 0x00000001152b1a7a sipQTimer::event(QEvent*) + 186
76 QtWidgets 0x00000001161da9ea QApplicationPrivate::notify_helper(QObject*, QEvent*) + 266
77 QtWidgets 0x00000001161dbe11 QApplication::notify(QObject*, QEvent*) + 497
78 QtWidgets.abi3.so 0x0000000115d8ddb9 sipQApplication::notify(QObject*, QEvent*) + 233
79 QtCore 0x0000000115779a34 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212
80 QtCore 0x00000001157df35f QTimerInfoList::activateTimers() + 991
81 libqcocoa.dylib 0x000000012610e8f2 QCocoaEventDispatcherPrivate::activateTimersSourceCallback(void*) + 18
82 com.apple.CoreFoundation 0x00007fff51ec6de3 __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE0_PERFORM_FUNCTION__ + 17
83 com.apple.CoreFoundation 0x00007fff51ec6d89 __CFRunLoopDoSource0 + 108
84 com.apple.CoreFoundation 0x00007fff51eaa74b __CFRunLoopDoSources0 + 195
85 com.apple.CoreFoundation 0x00007fff51ea9d15 __CFRunLoopRun + 1189
86 com.apple.CoreFoundation 0x00007fff51ea961e CFRunLoopRunSpecific + 455
87 com.apple.HIToolbox 0x00007fff511081ab RunCurrentEventLoopInMode + 292
88 com.apple.HIToolbox 0x00007fff51107ded ReceiveNextEventCommon + 355
89 com.apple.HIToolbox 0x00007fff51107c76 _BlockUntilNextEventMatchingListInModeWithFilter + 64
90 com.apple.AppKit 0x00007fff4f4a077d _DPSNextEvent + 1135
91 com.apple.AppKit 0x00007fff4f49f46b -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1361
92 com.apple.AppKit 0x00007fff4f499588 -[NSApplication run] + 699
93 libqcocoa.dylib 0x000000012610f62f QCocoaEventDispatcher::processEvents(QFlags) + 2495
94 QtCore 0x0000000115775acf QEventLoop::exec(QFlags) + 431
95 QtCore 0x000000011577a042 QCoreApplication::exec() + 130
96 QtWidgets.abi3.so 0x0000000115e7f702 meth_QApplication_exec_(_object*, _object*) + 82
97 org.python.python 0x000000010ab0806d cfunction_call + 125
98 org.python.python 0x000000010aac917d _PyObject_MakeTpCall + 365
99 org.python.python 0x000000010aba161c call_function + 876
100 org.python.python 0x000000010ab9eab3 _PyEval_EvalFrameDefault + 25219
101 org.python.python 0x000000010aac9948 function_code_fastcall + 104
102 org.python.python 0x000000010aacb98a method_vectorcall + 202
103 org.python.python 0x000000010aba158c call_function + 732
104 org.python.python 0x000000010ab9eab3 _PyEval_EvalFrameDefault + 25219
105 org.python.python 0x000000010aba2283 _PyEval_EvalCode + 2611
106 org.python.python 0x000000010aac98d1 _PyFunction_Vectorcall + 289
107 org.python.python 0x000000010aba158c call_function + 732
108 org.python.python 0x000000010ab9eb4b _PyEval_EvalFrameDefault + 25371
109 org.python.python 0x000000010aba2283 _PyEval_EvalCode + 2611
110 org.python.python 0x000000010ab9870b PyEval_EvalCode + 139
111 org.python.python 0x000000010ab95592 builtin_exec + 626
112 org.python.python 0x000000010ab0786a cfunction_vectorcall_FASTCALL + 218
113 org.python.python 0x000000010aba158c call_function + 732
114 org.python.python 0x000000010ab9eb4b _PyEval_EvalFrameDefault + 25371
115 org.python.python 0x000000010aba2283 _PyEval_EvalCode + 2611
116 org.python.python 0x000000010aac98d1 _PyFunction_Vectorcall + 289
117 org.python.python 0x000000010aba158c call_function + 732
118 org.python.python 0x000000010ab9eb4b _PyEval_EvalFrameDefault + 25371
119 org.python.python 0x000000010aba2283 _PyEval_EvalCode + 2611
120 org.python.python 0x000000010aac98d1 _PyFunction_Vectorcall + 289
121 org.python.python 0x000000010ac07e20 pymain_run_module + 208
122 org.python.python 0x000000010ac07537 Py_RunMain + 1431
123 org.python.python 0x000000010ac07b3f pymain_main + 223
124 org.python.python 0x000000010ac07a4b Py_Main + 43
125 edu.ucsf.cgl.ChimeraX 0x000000010aa82dc8 main + 120
126 libdyld.dylib 0x00007fff7de023d5 start + 1
Thread 1:
0 libsystem_kernel.dylib 0x00007fff7df37332 swtch_pri + 10
1 libsystem_pthread.dylib 0x00007fff7dff8e90 sched_yield + 11
2 libopenblas.0.dylib 0x000000010f7851cb blas_thread_server + 123
3 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
4 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
5 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 2:: ThreadPoolServiceThread
0 libsystem_kernel.dylib 0x00007fff7df3f0a6 kevent64 + 10
1 QtWebEngineCore 0x0000000119e99e6a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x0000000119e99cc7 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
4 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
5 QtWebEngineCore 0x0000000119e2da94 base::internal::ServiceThread::Run(base::RunLoop*) + 20
6 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 3:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e37778 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x0000000119e38150 base::internal::WorkerThread::RunWorker() + 1024
5 QtWebEngineCore 0x0000000119e37c44 base::internal::WorkerThread::RunBackgroundPooledWorker() + 20
6 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 4:: Chrome_IOThread
0 libsystem_kernel.dylib 0x00007fff7df3f0a6 kevent64 + 10
1 QtWebEngineCore 0x0000000119e99e6a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x0000000119e99cc7 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
4 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
5 QtWebEngineCore 0x000000011dd66f06 content::BrowserProcessSubThread::IOThreadRun(base::RunLoop*) + 102
6 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 5:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e8f2cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000119db71db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
10 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
11 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 6:: CompositorTileWorker1
0 libsystem_kernel.dylib 0x00007fff7df3a86a __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff7dff956e _pthread_cond_wait + 722
2 QtWebEngineCore 0x0000000119e86e18 base::ConditionVariable::Wait() + 104
3 QtWebEngineCore 0x000000011b13e5f8 non-virtual thunk to cc::SingleThreadTaskGraphRunner::Run() + 56
4 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
5 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
6 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
7 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 7:: Chrome_InProcGpuThread
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119db720f base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 223
4 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
5 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
6 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 8:: Chrome_ChildIOThread
0 libsystem_kernel.dylib 0x00007fff7df3f0a6 kevent64 + 10
1 QtWebEngineCore 0x0000000119e99e6a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x0000000119e99cc7 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
4 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
5 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
6 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 9:: VizCompositorThread
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119db720f base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 223
4 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
5 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
6 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 10:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e8f2cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000119db71db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
10 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
11 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 11:: ThreadPoolSingleThreadForegroundBlocking0
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e8f2cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000119e3776a base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 42
5 QtWebEngineCore 0x0000000119e38150 base::internal::WorkerThread::RunWorker() + 1024
6 QtWebEngineCore 0x0000000119e37d34 base::internal::WorkerThread::RunDedicatedWorker() + 20
7 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 12:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e8f2cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000119db71db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
10 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
11 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 13:: MemoryInfra
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e8f2cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000119db71db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
10 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
11 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 14:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e8f2cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000119db71db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000119e2262b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000119de67cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000119e41a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
10 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
11 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 15:: ThreadPoolSingleThreadSharedBackgroundBlocking1
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e8f2cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000119e3776a base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 42
5 QtWebEngineCore 0x0000000119e37e3d base::internal::WorkerThread::RunWorker() + 237
6 QtWebEngineCore 0x0000000119e37c74 base::internal::WorkerThread::RunBackgroundSharedWorker() + 20
7 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 16:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff51eaa94e __CFRunLoopServiceMachPort + 328
3 com.apple.CoreFoundation 0x00007fff51ea9ebc __CFRunLoopRun + 1612
4 com.apple.CoreFoundation 0x00007fff51ea961e CFRunLoopRunSpecific + 455
5 com.apple.AppKit 0x00007fff4f4a84a2 _NSEventThread + 175
6 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
7 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
8 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 17:: QFileInfoGatherer
0 libsystem_kernel.dylib 0x00007fff7df3a86a __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff7dff956e _pthread_cond_wait + 722
2 QtCore 0x00000001155ab75b QWaitConditionPrivate::wait(QDeadlineTimer) + 59
3 QtCore 0x00000001155ab69d QWaitCondition::wait(QMutex*, QDeadlineTimer) + 93
4 QtWidgets 0x000000011640ac68 QFileInfoGatherer::run() + 136
5 QtCore 0x00000001155a3619 QThreadPrivate::start(void*) + 329
6 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
7 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
8 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 18:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e37778 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x0000000119e38150 base::internal::WorkerThread::RunWorker() + 1024
5 QtWebEngineCore 0x0000000119e37cd4 base::internal::WorkerThread::RunPooledWorker() + 20
6 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 19:
0 libsystem_pthread.dylib 0x00007fff7dff53f0 start_wqthread + 0
Thread 20:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e37778 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x0000000119e38150 base::internal::WorkerThread::RunWorker() + 1024
5 QtWebEngineCore 0x0000000119e37cd4 base::internal::WorkerThread::RunPooledWorker() + 20
6 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 21:
0 libsystem_pthread.dylib 0x00007fff7dff53f0 start_wqthread + 0
Thread 22:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff7df3722a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff7df3776c mach_msg + 60
2 QtWebEngineCore 0x0000000119e8f492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000119e37778 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x0000000119e38150 base::internal::WorkerThread::RunWorker() + 1024
5 QtWebEngineCore 0x0000000119e37cd4 base::internal::WorkerThread::RunPooledWorker() + 20
6 QtWebEngineCore 0x0000000119e8ae07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff7dff62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff7dff9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff7dff540d thread_start + 13
Thread 23:
0 libsystem_pthread.dylib 0x00007fff7dff53f0 start_wqthread + 0
Thread 24:
0 libsystem_pthread.dylib 0x00007fff7dff53f0 start_wqthread + 0
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x000000010f4265c0 rcx: 0x000000010af9ba48 rdx: 0x0000000000000000
rdi: 0x0000000000000307 rsi: 0x0000000000000006 rbp: 0x000000010af9ba80 rsp: 0x000000010af9ba48
r8: 0x000000010af9bf48 r9: 0x59c03692721bc44d r10: 0x000000010f42666c r11: 0x0000000000000206
r12: 0x0000000000000307 r13: 0x000000012a92b518 r14: 0x0000000000000006 r15: 0x000000000000002d
rip: 0x00007fff7df3d2c6 rfl: 0x0000000000000206 cr2: 0x000000010acf5f10
Logical CPU: 0
Error Code: 0x02000148
Trap Number: 133
Binary Images:
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0x7fff7bd8a000 - 0x7fff7bd8bfff liblangid.dylib (128.15.1) /usr/lib/liblangid.dylib
0x7fff7bd8c000 - 0x7fff7bda4ff3 liblzma.5.dylib (10.200.3) /usr/lib/liblzma.5.dylib
0x7fff7bdbc000 - 0x7fff7be60ff7 libmecab.1.0.0.dylib (779.24.1) /usr/lib/libmecab.1.0.0.dylib
0x7fff7be61000 - 0x7fff7c065fff libmecabra.dylib (779.24.1) /usr/lib/libmecabra.dylib
0x7fff7c23d000 - 0x7fff7c58eff7 libnetwork.dylib (1229.250.15) /usr/lib/libnetwork.dylib
0x7fff7c620000 - 0x7fff7cda5fdf libobjc.A.dylib (756.2) /usr/lib/libobjc.A.dylib
0x7fff7cdb7000 - 0x7fff7cdbbffb libpam.2.dylib (22.200.1) /usr/lib/libpam.2.dylib
0x7fff7cdbe000 - 0x7fff7cdf3fff libpcap.A.dylib (79.250.1) /usr/lib/libpcap.A.dylib
0x7fff7ce49000 - 0x7fff7ce4cfff libpmenergy.dylib (194.267.1) /usr/lib/libpmenergy.dylib
0x7fff7ce4d000 - 0x7fff7ce4ffff libpmsample.dylib (194.267.1) /usr/lib/libpmsample.dylib
0x7fff7cf0c000 - 0x7fff7cf24ffb libresolv.9.dylib (65.200.2) /usr/lib/libresolv.9.dylib
0x7fff7cf26000 - 0x7fff7cf61ff3 libsandbox.1.dylib (851.270.1) /usr/lib/libsandbox.1.dylib
0x7fff7cf75000 - 0x7fff7cf76ff7 libspindump.dylib (267.3) /usr/lib/libspindump.dylib
0x7fff7cf77000 - 0x7fff7d154fff libsqlite3.dylib (274.26) /usr/lib/libsqlite3.dylib
0x7fff7d36d000 - 0x7fff7d370ff7 libutil.dylib (51.200.4) /usr/lib/libutil.dylib
0x7fff7d371000 - 0x7fff7d37efff libxar.1.dylib (417.1) /usr/lib/libxar.1.dylib
0x7fff7d383000 - 0x7fff7d465ff3 libxml2.2.dylib (32.10) /usr/lib/libxml2.2.dylib
0x7fff7d466000 - 0x7fff7d48eff3 libxslt.1.dylib (16.5) /usr/lib/libxslt.1.dylib
0x7fff7d48f000 - 0x7fff7d4a1ff7 libz.1.dylib (70.200.4) /usr/lib/libz.1.dylib
0x7fff7dc85000 - 0x7fff7dc89ff3 libcache.dylib (81) /usr/lib/system/libcache.dylib
0x7fff7dc8a000 - 0x7fff7dc94ff3 libcommonCrypto.dylib (60118.250.2) /usr/lib/system/libcommonCrypto.dylib
0x7fff7dc95000 - 0x7fff7dc9cff7 libcompiler_rt.dylib (63.4) /usr/lib/system/libcompiler_rt.dylib
0x7fff7dc9d000 - 0x7fff7dca6ff7 libcopyfile.dylib (146.250.1) /usr/lib/system/libcopyfile.dylib
0x7fff7dca7000 - 0x7fff7dd2bfc3 libcorecrypto.dylib (602.260.2) /usr/lib/system/libcorecrypto.dylib
0x7fff7ddb2000 - 0x7fff7ddebff7 libdispatch.dylib (1008.270.1) /usr/lib/system/libdispatch.dylib
0x7fff7ddec000 - 0x7fff7de18ff7 libdyld.dylib (655.1.1) /usr/lib/system/libdyld.dylib
0x7fff7de19000 - 0x7fff7de19ffb libkeymgr.dylib (30) /usr/lib/system/libkeymgr.dylib
0x7fff7de1a000 - 0x7fff7de26ff3 libkxld.dylib (4903.271.2) /usr/lib/system/libkxld.dylib
0x7fff7de27000 - 0x7fff7de27ff7 liblaunch.dylib (1336.261.2) /usr/lib/system/liblaunch.dylib
0x7fff7de28000 - 0x7fff7de2dfff libmacho.dylib (927.0.3) /usr/lib/system/libmacho.dylib
0x7fff7de2e000 - 0x7fff7de30ffb libquarantine.dylib (86.220.1) /usr/lib/system/libquarantine.dylib
0x7fff7de31000 - 0x7fff7de32ff7 libremovefile.dylib (45.200.2) /usr/lib/system/libremovefile.dylib
0x7fff7de33000 - 0x7fff7de4aff3 libsystem_asl.dylib (356.200.4) /usr/lib/system/libsystem_asl.dylib
0x7fff7de4b000 - 0x7fff7de4bff7 libsystem_blocks.dylib (73) /usr/lib/system/libsystem_blocks.dylib
0x7fff7de4c000 - 0x7fff7ded3fff libsystem_c.dylib (1272.250.1) /usr/lib/system/libsystem_c.dylib
0x7fff7ded4000 - 0x7fff7ded7ffb libsystem_configuration.dylib (963.270.3) /usr/lib/system/libsystem_configuration.dylib
0x7fff7ded8000 - 0x7fff7dedbff7 libsystem_coreservices.dylib (66) /usr/lib/system/libsystem_coreservices.dylib
0x7fff7dedc000 - 0x7fff7dee2fff libsystem_darwin.dylib (1272.250.1) /usr/lib/system/libsystem_darwin.dylib
0x7fff7dee3000 - 0x7fff7dee9ff7 libsystem_dnssd.dylib (878.270.2) /usr/lib/system/libsystem_dnssd.dylib
0x7fff7deea000 - 0x7fff7df35ffb libsystem_info.dylib (517.200.9) /usr/lib/system/libsystem_info.dylib
0x7fff7df36000 - 0x7fff7df5eff7 libsystem_kernel.dylib (4903.271.2) /usr/lib/system/libsystem_kernel.dylib
0x7fff7df5f000 - 0x7fff7dfaaff7 libsystem_m.dylib (3158.200.7) /usr/lib/system/libsystem_m.dylib
0x7fff7dfab000 - 0x7fff7dfd5fff libsystem_malloc.dylib (166.270.1) /usr/lib/system/libsystem_malloc.dylib
0x7fff7dfd6000 - 0x7fff7dfe0ff7 libsystem_networkextension.dylib (767.250.2) /usr/lib/system/libsystem_networkextension.dylib
0x7fff7dfe1000 - 0x7fff7dfe8fff libsystem_notify.dylib (172.200.21) /usr/lib/system/libsystem_notify.dylib
0x7fff7dfe9000 - 0x7fff7dff2fef libsystem_platform.dylib (177.270.1) /usr/lib/system/libsystem_platform.dylib
0x7fff7dff3000 - 0x7fff7dffdff7 libsystem_pthread.dylib (330.250.2) /usr/lib/system/libsystem_pthread.dylib
0x7fff7dffe000 - 0x7fff7e001ff7 libsystem_sandbox.dylib (851.270.1) /usr/lib/system/libsystem_sandbox.dylib
0x7fff7e002000 - 0x7fff7e004ff3 libsystem_secinit.dylib (30.260.2) /usr/lib/system/libsystem_secinit.dylib
0x7fff7e005000 - 0x7fff7e00cff3 libsystem_symptoms.dylib (820.267.1) /usr/lib/system/libsystem_symptoms.dylib
0x7fff7e00d000 - 0x7fff7e022fff libsystem_trace.dylib (906.260.1) /usr/lib/system/libsystem_trace.dylib
0x7fff7e024000 - 0x7fff7e029ffb libunwind.dylib (35.4) /usr/lib/system/libunwind.dylib
0x7fff7e02a000 - 0x7fff7e059fff libxpc.dylib (1336.261.2) /usr/lib/system/libxpc.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 3973
thread_create: 0
thread_set_state: 0
Calls made by this process:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
Calls made by all processes on this machine:
task_for_pid: 1566690
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=829.7M resident=0K(0%) swapped_out_or_unallocated=829.7M(100%)
Writable regions: Total=10.1G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=10.1G(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 1152K 9
Activity Tracing 256K 1
CG backing stores 1432K 4
CG image 524K 69
CoreAnimation 7380K 96
CoreGraphics 8K 1
CoreImage 112K 18
CoreUI image data 4976K 67
CoreUI image file 456K 8
Foundation 24K 2
Kernel Alloc Once 8K 1
MALLOC 9.5G 5092
MALLOC guard page 32K 7
MALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)
MALLOC_NANO (reserved) 256.0M 1 reserved VM address space (unallocated)
Mach message 24K 5
Memory Tag 242 12K 1
OpenGL GLSL 384K 5
STACK GUARD 96K 24
Stack 147.7M 25
Stack Guard 56.0M 1
VM_ALLOCATE 167.0M 155
__DATA 50.4M 484
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 313.9M 141
__TEXT 515.8M 464
__UNICODE 564K 1
mapped file 110.9M 125
shared memory 2908K 28
=========== ======= =======
TOTAL 11.1G 6838
TOTAL, minus reserved VM space 10.9G 6838
===== Log before crash start =====
UCSF ChimeraX version: 1.3.dev202109020559 (2021-09-02)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/cbilles/Downloads/cryosparc_P194_J674_010_volume_map_sharp.mrc
Opened cryosparc_P194_J674_010_volume_map_sharp.mrc as #1, grid size
360,360,360, pixel 0.86, shown at level 0.166, step 2, values float32
> open "/Users/cbilles/Downloads/cryosparc_P71_J897_010_volume_map_sharp_local
> (1).mrc"
Opened cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc as #2, grid size
300,300,300, pixel 0.834, shown at level 0.209, step 2, values float32
> volume #1 level 0.6217
> volume #2 level 0.5689
> select #2
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.61137,0.05307,0.78957,-67.915,-0.49757,0.80163,0.33139,36.027,-0.61535,-0.59546,0.51649,206.24
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.61137,0.05307,0.78957,-26.705,-0.49757,0.80163,0.33139,77.918,-0.61535,-0.59546,0.51649,243.75
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.62984,-0.66246,0.40552,108.12,0.026602,0.54018,0.84113,-19.155,-0.77627,-0.51899,0.35785,274.3
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.62984,-0.66246,0.40552,107.53,0.026602,0.54018,0.84113,-21.341,-0.77627,-0.51899,0.35785,268.04
> ui mousemode right "rotate selected models"
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.62984,-0.66246,0.40552,110.99,0.026602,0.54018,0.84113,-23.247,-0.77627,-0.51899,0.35785,266.68
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.56919,-0.76199,0.30887,142.77,0.14344,0.46192,0.87525,-31.829,-0.8096,-0.45388,0.37221,260.79
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.58857,-0.6316,0.50465,98.717,0.021043,0.63598,0.77142,-24.69,-0.80817,-0.44342,0.38761,257.31
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.58857,-0.6316,0.50465,98.702,0.021043,0.63598,0.77142,-24.838,-0.80817,-0.44342,0.38761,258.79
> ui mousemode right translate
> volume #1 step 1
> volume #2 step 1
> volume #1 level 0.9725
> volume #2 level 0.6752
> ui tool show "Fit in Map"
Fit map cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc in map
cryosparc_P194_J674_010_volume_map_sharp.mrc using 36237 points
correlation = 0.7546, correlation about mean = 0.3994, overlap = 4.734e+04
steps = 92, shift = 1.11, angle = 12.5 degrees
Position of cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc (#2)
relative to cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.58337398 -0.74655108 0.31990042 136.35234847
0.13789715 0.47918892 0.86681160 -30.84479588
-0.80041188 -0.46156198 0.38249361 260.07707044
Axis -0.68126876 0.57456259 0.45359751
Axis point 0.00000000 278.35889796 207.70760304
Rotation angle (degrees) 77.14242677
Shift along axis 7.35544933
Fit map cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc in map
cryosparc_P194_J674_010_volume_map_sharp.mrc using 36237 points
correlation = 0.7546, correlation about mean = 0.3995, overlap = 4.734e+04
steps = 36, shift = 0.00217, angle = 0.00554 degrees
Position of cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc (#2)
relative to cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.58331313 -0.74660409 0.31988766 136.36531850
0.13788181 0.47913151 0.86684578 -30.84026295
-0.80045887 -0.46153584 0.38242683 260.08864883
Axis -0.68125813 0.57456771 0.45360701
Axis point 0.00000000 278.35816165 207.71406741
Rotation angle (degrees) 77.14786431
Shift along axis 7.35823364
> ~select #2
Nothing selected
> open /Users/cbilles/Downloads/temp-coot-0.pdb
Summary of feedback from opening /Users/cbilles/Downloads/temp-coot-0.pdb
---
warnings | Cannot find LINK/SSBOND residue DRG (1 )
Cannot find LINK/SSBOND residue DRG (1 )
Chain information for temp-coot-0.pdb #3
---
Chain | Description
A | No description available
B | No description available
H | No description available
L | No description available
> ui mousemode right "rotate selected models"
> select #3
13171 atoms, 13326 bonds, 3 pseudobonds, 868 residues, 3 models selected
> view matrix models
> #3,0.55275,-0.33806,0.7617,-14.337,0.21105,0.94101,0.26448,-52.883,-0.80618,0.014567,0.59149,144.47
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.55275,-0.33806,0.7617,35.373,0.21105,0.94101,0.26448,-51.885,-0.80618,0.014567,0.59149,164.25
Fit molecule temp-coot-0.pdb (#3) to map
cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) using 13171 atoms
average map value = 0.1218, steps = 204
shifted from previous position = 7.15
rotated from previous position = 4.59 degrees
atoms outside contour = 12548, contour level = 0.97246
Position of temp-coot-0.pdb (#3) relative to
cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.50062092 -0.34299791 0.79481516 38.99594720
0.17178813 0.93925682 0.29712870 -44.77615526
-0.84845008 -0.01220903 0.52913458 180.01939111
Axis -0.17680728 0.93923643 0.29423479
Axis point 176.84291294 0.00000000 61.15299469
Rotation angle (degrees) 61.01987744
Shift along axis 4.01780445
Fit molecule temp-coot-0.pdb (#3) to map
cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) using 13171 atoms
average map value = 0.1218, steps = 64
shifted from previous position = 0.00741
rotated from previous position = 0.00873 degrees
atoms outside contour = 12549, contour level = 0.97246
Position of temp-coot-0.pdb (#3) relative to
cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.50054394 -0.34299640 0.79486429 39.00129991
0.17168333 0.93925629 0.29719095 -44.76633977
-0.84851670 -0.01229218 0.52902581 180.05070170
Axis -0.17687997 0.93924721 0.29415668
Axis point 176.85185121 0.00000000 61.16483229
Rotation angle (degrees) 61.02597774
Shift along axis 4.01790880
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.75196,-0.55053,0.36259,94.34,0.13759,0.669,0.73042,-68.435,-0.64469,-0.49936,0.5788,207.65
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.75196,-0.55053,0.36259,84.134,0.13759,0.669,0.73042,-44.047,-0.64469,-0.49936,0.5788,223.95
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.71084,-0.59639,0.37285,92.727,0.014665,0.54256,0.83989,-30.388,-0.7032,-0.59156,0.39442,266.56
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.71084,-0.59639,0.37285,96.161,0.014665,0.54256,0.83989,-21.813,-0.7032,-0.59156,0.39442,261.25
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.5324,-0.78688,0.31203,146.86,0.19223,0.47137,0.86073,-36.191,-0.82438,-0.39827,0.40222,251.04
Fit molecule temp-coot-0.pdb (#3) to map
cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) using 13171 atoms
average map value = 0.7562, steps = 68
shifted from previous position = 2.03
rotated from previous position = 4.43 degrees
atoms outside contour = 8660, contour level = 0.97246
Position of temp-coot-0.pdb (#3) relative to
cryosparc_P194_J674_010_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.58426884 -0.74816944 0.31443984 137.11067371
0.14181533 0.47561238 0.86814819 -31.02360716
-0.79907343 -0.46263954 0.38398739 259.65967509
Axis -0.68241212 0.57099636 0.45637360
Axis point 0.00000000 277.24504936 207.94941913
Rotation angle (degrees) 77.17733052
Shift along axis 7.22147040
> ~select #3
Nothing selected
> ui tool show "Side View"
> volume #1 level 0.6339
> volume #2 level 0.5201
> volume #1 level 0.9273
> hide #!2 models
> show #!2 models
> volume #2 level 0.5292
> volume #1 level 0.9048
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> volume #2 level 0.438
> volume #2 level 0.5931
> volume #2 level 0.5566
> volume #1 level 0.5436
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> volume #1 level 0.8145
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> open /Users/cbilles/Downloads/cryosparc_P194_J674_011_volume_map_sharp.mrc
Opened cryosparc_P194_J674_011_volume_map_sharp.mrc as #4, grid size
360,360,360, pixel 0.86, shown at level 0.152, step 2, values float32
> volume #4 level 0.5254
> volume #4 step 1
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> volume #4 level 0.3641
> volume #4 level 0.4044
> hide #!2 models
> show #!2 models
> hide #!4 models
> show #!4 models
> volume #4 level 0.606
> color #2 #bfbfbf models
> color #4 #ededed models
> color #4 #0099fd models
> color #4 #6599fd models
> color #4 #65b7fd models
> color #3 grey
> color #3 #404040
> color #3 #4040406f
> color #3 #404040b1
> select #3
13171 atoms, 13326 bonds, 3 pseudobonds, 868 residues, 3 models selected
> color (#!3 & sel) byhetero
> select clear
> color #2 #bfbfbfa7 models
> color #2 #bfbfbf9d models
> color #2 #bfbfbf8f models
> close #1
> color #4 #e68a98 models
> color #4 #e68a98e6 models
> color #4 #e68a98 models
> color #4 #e68ace models
> color #4 #e68ac1 models
> color #4 #e68acc models
> color #2 #9ebfbf8f models
> color #2 #89bfbf8f models
> color #2 #81bfbf8f models
> color #2 #81d5bf8f models
> color #2 #81cabf8f models
> color #2 #81c7bf8f models
> volume #2 level 0.53
> volume #4 level 0.6844
> volume #2 level 0.5743
> hide #!4 models
> show #!4 models
> volume #2 level 0.5034
> volume #4 level 0.5277
> volume #2 style mesh
> set bgColor white
> volume #4 level 0.3907
> open /Users/cbilles/Downloads/cryosparc_P194_J674_011_volume_map.mrc
Opened cryosparc_P194_J674_011_volume_map.mrc as #1, grid size 360,360,360,
pixel 0.86, shown at level 0.125, step 2, values float32
> hide #!2 models
> hide #!3 models
> hide #!4 models
> volume #1 level 0.3684
> volume #1 step 1
> volume #1 level 0.4447
> volume #1 level 0.3748
> ui mousemode right "map eraser"
Drag select of eraser sphere, 29 of 1000 triangles, 1
cryosparc_P194_J674_011_volume_map.mrc
Drag select of eraser sphere, 25 of 1000 triangles, 1
cryosparc_P194_J674_011_volume_map.mrc
> volume erase #1 center 162.94,162.58,225.24 radius 16.737
Opened cryosparc_P194_J674_011_volume_map.mrc copy as #6, grid size
360,360,360, pixel 0.86, shown at step 1, values float32
> volume erase #6 center 159.42,161.78,208.41 radius 38.081
Drag select of eraser sphere, 226 of 1000 triangles
> volume erase #6 center 148.68,135.04,186.41 radius 13.777
> volume erase #6 center 167.9,162.25,171.09 radius 13.777
> volume erase #6 center 175.9,156.43,170.66 radius 6.3468
> volume erase #6 center 175.48,153.42,173.58 radius 6.3468
> volume erase #6 center 171.62,149.95,171.85 radius 6.3468
> volume erase #6 center 161.12,157.61,167.61 radius 6.3468
> volume erase #6 center 149.85,151.95,176.3 radius 6.3468
> volume erase #6 center 149.46,150.25,175.74 radius 6.3468
> volume erase #6 center 147.19,136.93,175.87 radius 6.3468
> volume #1 level 0.3653
> volume #6 level 0.3833
> volume erase #6 center 158.99,125.14,166.49 radius 6.3468
> volume erase #6 center 167,121.47,163.63 radius 6.3468
> volume erase #6 center 117.51,144.16,134.73 radius 6.3468
> volume erase #6 center 135.02,168.41,131.71 radius 6.3468
> volume erase #6 center 130.25,160.57,136.88 radius 6.3468
> volume erase #6 center 131.08,163.08,127.35 radius 6.3468
> volume erase #6 center 152.95,174.72,120.27 radius 6.3468
> volume erase #6 center 151.3,171.94,107.72 radius 6.3468
> volume erase #6 center 169.75,145.17,108.93 radius 6.3468
> volume erase #6 center 171.74,141.03,121.54 radius 6.3468
> volume erase #6 center 172.47,134.8,123.7 radius 6.3468
> volume erase #6 center 175.95,120.23,154.21 radius 6.3468
> volume erase #6 center 185.15,156.15,141.78 radius 6.3468
> volume erase #6 center 186.26,165.78,140.24 radius 6.3468
> volume erase #6 center 184.2,174.99,130.55 radius 6.3468
> volume erase #6 center 149.02,132.32,138.23 radius 2.6316
> volume erase #6 center 147.96,129.44,138.83 radius 2.6316
> volume erase #6 center 142.95,128.9,144.99 radius 2.6316
> volume erase #6 center 128.47,135.69,144.41 radius 2.6316
No map chosen to save
> ~select #5
Nothing selected
> select #6
3 models selected
> save /Users/cbilles/Downloads/J674_cspq_mask-tm_0.383.mrc models #6
> open /Users/cbilles/Downloads/J674_cspq_mask-tm_0.383_final.mrc
Opened J674_cspq_mask-tm_0.383_final.mrc as #7, grid size 360,360,360, pixel
0.86, shown at level 5e-05, step 2, values float32
> volume #7 level 0.9649
> volume #7 step 1
> volume #7 level 0.7634
> hide #!7 models
> show #!7 models
> hide #!7 models
> hide #!6 models
> show #!7 models
> hide #!7 models
> show #!4 models
> hide #!4 models
> show #!4 models
> close #6-7
> open /Users/cbilles/Downloads/cryosparc_P194_J674_012_volume_map_sharp.mrc
Opened cryosparc_P194_J674_012_volume_map_sharp.mrc as #5, grid size
360,360,360, pixel 0.86, shown at level 0.183, step 2, values float32
> show #!2 models
> show #!3 models
> hide #!4 models
> color #5 #b269b2 models
> color #5 #b267b2 models
> hide #!4 models
> volume #5 level 0.891
> volume #5 step 1
> volume #5 level 0.5907
> ui mousemode right rotate
> ui mousemode right translate
> volume #5 level 0.4405
> volume #5 level 0.7623
> volume #5 level 0.5263
> open /Users/cbilles/Downloads/cryosparc_P194_J675_008_volume_map_sharp.mrc
Opened cryosparc_P194_J675_008_volume_map_sharp.mrc as #6, grid size
360,360,360, pixel 0.86, shown at level 0.144, step 2, values float32
> volume #6 level 0.4087
> volume #6 step 1
> hide #!5 models
> volume #6 level 0.2706
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!6 models
> show #!6 models
> hide #!5 models
> volume #6 level 0.3584
> show #!5 models
> volume #5 level 0.891
> hide #!6 models
> show #!6 models
> hide #!6 models
> close #6
> volume #5 level 0.7409
> volume #5 level 0.5692
> volume #5 level 0.6979
> hide #!5 models
> show #!5 models
> volume #2 style surface
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> volume #5 level 0.8696
> close #1
> close #4
> color #2 #816dbf8f models
> color #2 #d26dbf8f models
> color #2 #d86dbf8f models
> color #2 #d86dbf45 models
> color #5 #3b67b2 models
> color #5 #3b9cb2 models
> color #5 #3baab2 models
> color #5 #3baabe models
> color #5 #69aabe models
> color #5 #69a6be models
> color #5 #69a6af models
> color #5 #69a6aa models
> hide #!3 models
> show #!3 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!5 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> color #2 #d86dbf60 models
> color #2 #d86dbfc7 models
> color #2 #d86dbff7 models
> color #2 #d86dbf models
> color #2 #d86dbf57 models
> color #2 #d866bf57 models
> color #2 #d899bf57 models
> color #2 #d89ebf57 models
> color #2 #d892bf57 models
> color #2 #d87cbf57 models
> color #2 #d88cbf57 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> color #2 #0433ff models
> color #2 #ff2600 models
> color #2 #ff40ff models
> color #2 #ff40ffa3 models
> color #2 #ff40ff4c models
> color #2 #ff40ff38 models
> color #2 #ff40ff22 models
> volume #2 style mesh
> volume #2 style surface
> volume #2 style mesh
> show #!5 models
> volume #2 color #ff40ff
> volume #2 color #ff40ffc6
> volume #5 level 0.5778
> volume #5 level 0.7445
> volume #5 level 0.5362
> volume #5 level 0.9113
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> volume #5 level 0.6404
> open emdb:21539
Summary of feedback from opening 21539 fetched from emdb
---
note | Fetching compressed map 21539 from
ftp://ftp.wwpdb.org/pub/emdb/structures/EMD-21539/map/emd_21539.map.gz
Opened emdb 21539 as #1, grid size 300,300,300, pixel 0.849, shown at level
1.55, step 2, values float32
> volume #1 level 4.086
> select #1
4 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.83392,0.55153,-0.019797,-49.679,-0.42265,0.66129,0.61972,8.0765,0.35489,-0.50843,0.78457,54.424
> view matrix models
> #1,0.69698,-0.028478,0.71653,-60.798,-0.70637,0.14487,0.69286,99.877,-0.12353,-0.98904,0.080854,274.61
> view matrix models
> #1,0.38954,-0.056976,0.91924,-48.566,-0.63768,0.70348,0.31383,71.63,-0.66455,-0.70843,0.2377,280.86
> view matrix models
> #1,0.40712,-0.39164,0.82515,6.588,-0.43119,0.71399,0.55163,11.786,-0.80519,-0.58037,0.12181,297.34
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.40712,-0.39164,0.82515,36.336,-0.43119,0.71399,0.55163,51.961,-0.80519,-0.58037,0.12181,310.42
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.30439,-0.91125,0.27745,194.32,0.010471,0.29445,0.95561,-3.1626,-0.95249,-0.28797,0.099169,292.94
> view matrix models
> #1,0.47615,-0.75564,0.44976,128.83,-0.077142,0.4736,0.87736,-5.1038,-0.87597,-0.45245,0.16721,295.74
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.47615,-0.75564,0.44976,136.3,-0.077142,0.4736,0.87736,-10.558,-0.87597,-0.45245,0.16721,296.78
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.54913,-0.74893,0.37088,137.74,-0.098483,0.3827,0.91861,-1.8539,-0.82991,-0.54096,0.13639,307.2
> view matrix models
> #1,0.65216,-0.38334,0.65401,37.3,-0.40115,0.55752,0.7268,38.738,-0.64324,-0.73635,0.20982,300.01
> view matrix models
> #1,0.661,-0.46314,0.5904,55.699,-0.29912,0.55896,0.77336,19.67,-0.68819,-0.68779,0.23094,296.07
> color #5 #00f900 models
> color #5 #c2f84e models
> color #5 #94f84e models
> color #5 #94f8b8 models
> color #5 #94f84e models
> color #5 #97c94e models
> ui tool show "Fit in Map"
Fit map emdb 21539 in map cryosparc_P71_J897_010_volume_map_sharp_local
(1).mrc using 6715 points
correlation = 0.4586, correlation about mean = 0.09123, overlap = 1.295e+04
steps = 92, shift = 1.84, angle = 4.35 degrees
Position of emdb 21539 (#1) relative to
cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc (#2) coordinates:
Matrix rotation and translation
0.89246890 0.35998156 0.27186862 -69.41139950
-0.29631796 0.92222466 -0.24838950 76.61971840
-0.34013958 0.14112035 0.92972583 30.84684324
Axis 0.39816422 0.62560619 -0.67088162
Axis point 193.72941030 250.24861951 0.00000000
Rotation angle (degrees) 29.28355578
Shift along axis -0.39794584
Fit map emdb 21539 in map cryosparc_P71_J897_010_volume_map_sharp_local
(1).mrc using 6715 points
correlation = 0.4586, correlation about mean = 0.09127, overlap = 1.295e+04
steps = 44, shift = 0.00294, angle = 0.00534 degrees
Position of emdb 21539 (#1) relative to
cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc (#2) coordinates:
Matrix rotation and translation
0.89244881 0.36000879 0.27189850 -69.41598141
-0.29631130 0.92220463 -0.24847180 76.62958034
-0.34019809 0.14118176 0.92969510 30.84905130
Axis 0.39825971 0.62561576 -0.67081601
Axis point 193.74978812 250.25809906 0.00000000
Rotation angle (degrees) 29.28770495
Shift along axis -0.39895287
> view matrix models
> #1,0.81771,-0.35039,0.4567,41.413,-0.23019,0.52815,0.81736,11.104,-0.5276,-0.77349,0.35121,271.38
> view matrix models
> #1,0.70989,-0.62911,0.31667,110.82,0.063384,0.50485,0.86088,-27.389,-0.70146,-0.59105,0.39826,261.73
> view matrix models
> #1,0.67771,-0.67522,0.2912,124.36,0.11665,0.48971,0.86405,-32.271,-0.72602,-0.55161,0.41064,257.76
> view matrix models
> #1,0.69618,-0.71599,0.051922,161.25,0.19644,0.25957,0.94553,-23.139,-0.69047,-0.64806,0.32136,278.75
Fit map emdb 21539 in map cryosparc_P71_J897_010_volume_map_sharp_local
(1).mrc using 6715 points
correlation = 0.8878, correlation about mean = 0.5762, overlap = 3.927e+04
steps = 228, shift = 10.6, angle = 9.77 degrees
Position of emdb 21539 (#1) relative to
cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc (#2) coordinates:
Matrix rotation and translation
0.99596118 0.03508134 -0.08264765 4.79485900
-0.02458933 0.99188883 0.12470734 -12.20330447
0.08635218 -0.12217142 0.98874539 0.82549649
Axis -0.80924002 -0.55396188 -0.19559353
Axis point 0.00000000 3.18789524 85.98700055
Rotation angle (degrees) 8.77400212
Shift along axis 2.71851195
> color #5 #97c9c2 models
> color #1 #99bf7c models
> color #1 #99bf70 models
> color #1 #99bf67 models
> select clear
> ui mousemode right translate
> volume #1 step 1
> volume #1 level 2.81
> volume #5 level 0.526
> volume #1 level 4.937
> volume #1 level 4.851
> hide #!1 models
> show #!1 models
> hide #!1 models
> open /Users/cbilles/Downloads/cryosparc_P194_J674_013_volume_map_sharp.mrc
Opened cryosparc_P194_J674_013_volume_map_sharp.mrc as #4, grid size
360,360,360, pixel 0.86, shown at level 0.184, step 2, values float32
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> hide #!4 models
> hide #!5 models
> show #!4 models
> volume #4 step 1
> volume #4 level 0.5878
> hide #!5 models
Back buffer dpr of 1 doesn't match
contents scale of 2 - updating layer to match.
Drag select of 2 cryosparc_P71_J897_010_volume_map_sharp_local (1).mrc , 4
cryosparc_P194_J674_013_volume_map_sharp.mrc
> select clear
> volume #4 level 0.6429
> open /Users/cbilles/Downloads/cryosparc_P194_J674_013_volume_map.mrc
Opened cryosparc_P194_J674_013_volume_map.mrc as #6, grid size 360,360,360,
pixel 0.86, shown at level 0.179, step 2, values float32
> hide #!4 models
> volume #6 level 0.3744
> volume #6 step 1
> volume #6 level 0.4349
> volume #6 level 0.3394
> volume #6 level 0.4031
> close #5
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> volume #6 level 0.4317
> volume #6 color #b2b2b26b
> volume #6 color #b2b2b240
> volume #6 color #b2b2b2
> open /Users/cbilles/Downloads/cryosparc_P194_J620_005_volume_map_sharp.mrc
Opened cryosparc_P194_J620_005_volume_map_sharp.mrc as #5, grid size
360,360,360, pixel 0.86, shown at level 0.418, step 2, values float32
> volume #4 level 1.327
> hide #!4 models
> show #!4 models
> hide #!4 models
> hide #!5 models
> show #!5 models
> volume #5 step 1
> volume #5 level 0.9664
> select #5
4 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #5,-0.3004,0.83028,0.46946,-2.8598,-0.75104,-0.50931,0.42017,287.87,0.58796,-0.22636,0.77657,-20.403
> view matrix models
> #5,-0.8455,0.4499,0.28761,170.18,-0.49676,-0.86028,-0.11464,387.85,0.19584,-0.2398,0.95086,15.096
> view matrix models
> #5,-0.9973,-0.056427,-0.047073,326.09,0.069075,-0.93841,-0.33854,347.63,-0.025071,-0.34088,0.93977,67.014
> view matrix models
> #5,-0.88214,-0.4252,-0.20259,390.74,0.45337,-0.88313,-0.12057,245.01,-0.12764,-0.19821,0.97181,55.428
> view matrix models
> #5,0.72793,-0.63379,-0.26159,183.12,0.65502,0.53005,0.53851,-112.41,-0.20265,-0.56335,0.80098,151.42
> view matrix models
> #5,0.5708,0.70569,0.41974,-110.56,-0.70859,0.68164,-0.1824,188.72,-0.41483,-0.19331,0.88913,112.22
> view matrix models
> #5,0.72497,0.65244,0.22076,-94.767,-0.67097,0.74138,0.012323,142.83,-0.15563,-0.15706,0.97525,52.751
> view matrix models
> #5,0.7049,0.60891,0.36379,-107.32,-0.6986,0.68477,0.20748,125.31,-0.12277,-0.4004,0.90808,96.525
> view matrix models
> #5,0.17662,0.86302,0.47329,-82.605,-0.98346,0.13512,0.12063,269.66,0.040155,-0.48677,0.87261,90.428
> view matrix models
> #5,0.20285,0.85394,0.47921,-86.176,-0.97092,0.11185,0.21167,257.05,0.12716,-0.50821,0.85179,83.584
> view matrix models
> #5,0.18655,0.85951,0.47586,-83.997,-0.97969,0.12649,0.1556,264.93,0.073545,-0.49522,0.86565,87.674
> ui mousemode right rotate
> ui mousemode right translate
> ui tool show "Fit in Map"
Fit map cryosparc_P194_J620_005_volume_map_sharp.mrc in map
cryosparc_P194_J674_013_volume_map.mrc using 44897 points
correlation = 0.9251, correlation about mean = 0.5583, overlap = 5.525e+04
steps = 84, shift = 4.15, angle = 3 degrees
Position of cryosparc_P194_J620_005_volume_map_sharp.mrc (#5) relative to
cryosparc_P194_J674_013_volume_map.mrc (#6) coordinates:
Matrix rotation and translation
0.20006078 0.87335266 0.44410677 -80.80287859
-0.97288709 0.12338862 0.19561687 257.95611221
0.11604479 -0.47120101 0.87435875 72.96235879
Axis -0.33505170 0.16483920 -0.92766826
Axis point 99.77364901 183.17449600 0.00000000
Rotation angle (degrees) 84.32393408
Shift along axis 1.90955759
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.3.dev202109020559 (2021-09-02)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/cbilles/Downloads/cryosparc_P194_J620_005_volume_map_sharp.mrc
Opened cryosparc_P194_J620_005_volume_map_sharp.mrc as #1, grid size
360,360,360, pixel 0.86, shown at level 0.418, step 2, values float32
OpenGL version: 4.1 INTEL-12.10.12
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 650
OpenGL vendor: Intel Inc.Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro14,2
Processor Name: Intel Core i5
Processor Speed: 3.3 GHz
Number of Processors: 1
Total Number of Cores: 2
L2 Cache (per Core): 256 KB
L3 Cache: 4 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
Boot ROM Version: 198.71.1.0.0
SMC Version (system): 2.44f1
Software:
System Software Overview:
System Version: macOS 10.14.6 (18G103)
Kernel Version: Darwin 18.7.0
Time since boot: 4:54
Graphics/Displays:
Intel Iris Plus Graphics 650:
Chipset Model: Intel Iris Plus Graphics 650
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x5927
Revision ID: 0x0006
Metal: Supported, feature set macOS GPUFamily2 v1
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Framebuffer Depth: 24-Bit Color (ARGB8888)
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Automatically Adjust Brightness: No
Locale: (None, 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.2
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.5.30
cftime: 1.5.0
chardet: 4.0.0
charset-normalizer: 2.0.4
ChimeraX-AddCharge: 1.1.4
ChimeraX-AddH: 2.1.10
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.2
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.29
ChimeraX-AtomicLibrary: 4.1.4
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.5.3
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.1
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.4.1
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3.dev202109020559
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.1
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.4
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.1
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.1
ChimeraX-MDcrds: 2.5
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.1
ChimeraX-ModelPanel: 1.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.1
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.1
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.12
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.0.1
cycler: 0.10.0
Cython: 0.29.23
decorator: 5.0.9
distlib: 0.3.1
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.4.0
html2text: 2020.1.16
idna: 2.10
ihm: 0.20
imagecodecs: 2021.4.28
imagesize: 1.2.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 2.11.3
jupyter-client: 6.1.12
jupyter-core: 4.7.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 1.1.1
matplotlib: 3.4.2
matplotlib-inline: 0.1.2
msgpack: 1.0.2
netCDF4: 1.5.6
networkx: 2.6.2
numexpr: 2.7.3
numpy: 1.21.0
numpydoc: 1.1.0
openvr: 1.16.801
packaging: 21.0
ParmEd: 3.2.0
parso: 0.8.2
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 8.2.0
pip: 21.1.1
pkginfo: 1.7.0
prompt-toolkit: 3.0.20
psutil: 5.8.0
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.9.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.1
pytz: 2021.1
pyzmq: 22.2.1
qtconsole: 5.1.0
QtPy: 1.10.0
RandomWords: 0.3.0
requests: 2.25.1
scipy: 1.6.3
setuptools: 57.0.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.1.0
sortedcontainers: 2.4.0
Sphinx: 4.0.1
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.0
urllib3: 1.26.6
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.36.2
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 4 years ago
| Component: | Unassigned → Graphics |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash releasing buffer |
comment:2 by , 4 years ago
| Resolution: | → nonchimerax |
|---|---|
| Status: | assigned → closed |
| Summary: | Crash releasing buffer → Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650 |
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Apple graphics driver crash.
Details https://www.rbvi.ucsf.edu/chimerax/data/apple-opengl-sep2021/