![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 2 years ago
Closed 2 years ago
#9612 closed defect (nonchimerax)
Graphics crash, macOS 11.4, Radeon Pro 580
| 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-10.16-x86_64-i386-64bit
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: Aborted
Current thread 0x0000000114a45e00 (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/graphics/opengl.py", line 235 in swap_buffers
File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/opengl.py", line 497 in swap_buffers
File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/view.py", line 191 in draw
File "/Applications/ChimeraX-1.6.1.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-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/updateloop.py", line 139 in _redraw_timer_callback
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
Process: ChimeraX [28475]
Path: /Applications/ChimeraX-1.6.1.app/Contents/MacOS/ChimeraX
Identifier: edu.ucsf.cgl.ChimeraX
Version: 1.6.1 (1.6.1.0)
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: ChimeraX [28475]
User ID: 539241104
Date/Time: 2023-08-21 07:24:17.426 +0100
OS Version: macOS 11.4 (20F71)
Report Version: 12
Anonymous UUID: 2EA3287B-3F5B-7308-03B3-71B9770EC5D7
Time Awake Since Boot: 650000 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 kernel error: 0x1be385f9
Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff2030892e __pthread_kill + 10
1 libsystem_pthread.dylib 0x00007fff203375bd pthread_kill + 263
2 libsystem_c.dylib 0x00007fff2021bbe5 raise + 26
3 libsystem_platform.dylib 0x00007fff2037cd7d _sigtramp + 29
4 ??? 000000000000000000 0 + 0
5 libsystem_c.dylib 0x00007fff2028c411 abort + 120
6 libGPUSupportMercury.dylib 0x00007fff461fe096 gpusGenerateCrashLog.cold.1 + 95
7 libGPUSupportMercury.dylib 0x00007fff461f521c gpusGenerateCrashLog + 89
8 com.apple.AMDRadeonX4000GLDriver 0x000000012aac0302 gpusKillClientExt + 9
9 libGPUSupportMercury.dylib 0x00007fff461f65e7 gpusSubmitDataBuffers + 164
10 com.apple.AMDRadeonX4000GLDriver 0x000000012aa9a92c glrATI_Hwl_SubmitPacketsWithToken + 112
11 com.apple.AMDRadeonX4000GLDriver 0x000000012aaf37f5 gldPresentFramebufferData + 83
12 GLEngine 0x00007fff6bb97a91 glSwap_Exec + 97
13 com.apple.opengl 0x00007fff6b95d2eb CGLFlushDrawable + 59
14 com.apple.AppKit 0x00007fff22fa6430 -[NSOpenGLContext flushBuffer] + 20
15 libqcocoa.dylib 0x0000000129454743 0x1293dc000 + 493379
16 QtGui 0x000000011c700584 QOpenGLContext::swapBuffers(QSurface*) + 212
17 QtGui.abi3.so 0x000000011cd0050f meth_QOpenGLContext_swapBuffers(_object*, _object*) + 95
18 org.python.python 0x000000010b9fc71d cfunction_call + 125
19 org.python.python 0x000000010b9bd5b7 _PyObject_MakeTpCall + 359
20 org.python.python 0x000000010ba95e9c call_function + 876
21 org.python.python 0x000000010ba932a2 _PyEval_EvalFrameDefault + 25554
22 org.python.python 0x000000010ba96b03 _PyEval_EvalCode + 2611
23 org.python.python 0x000000010b9bdcb1 _PyFunction_Vectorcall + 289
24 org.python.python 0x000000010ba95e0c call_function + 732
25 org.python.python 0x000000010ba9327e _PyEval_EvalFrameDefault + 25518
26 org.python.python 0x000000010b9bdd28 function_code_fastcall + 104
27 org.python.python 0x000000010ba95e0c call_function + 732
28 org.python.python 0x000000010ba9327e _PyEval_EvalFrameDefault + 25518
29 org.python.python 0x000000010ba96b03 _PyEval_EvalCode + 2611
30 org.python.python 0x000000010b9bdcb1 _PyFunction_Vectorcall + 289
31 org.python.python 0x000000010b9bfd6a method_vectorcall + 202
32 org.python.python 0x000000010ba95e0c call_function + 732
33 org.python.python 0x000000010ba933e8 _PyEval_EvalFrameDefault + 25880
34 org.python.python 0x000000010b9bdd28 function_code_fastcall + 104
35 org.python.python 0x000000010ba95e0c call_function + 732
36 org.python.python 0x000000010ba9327e _PyEval_EvalFrameDefault + 25518
37 org.python.python 0x000000010b9bdd28 function_code_fastcall + 104
38 org.python.python 0x000000010b9bfdb2 method_vectorcall + 274
39 QtCore.abi3.so 0x00000001190dd298 PyQtSlot::call(_object*, _object*) const + 40
40 QtCore.abi3.so 0x00000001190dd19a PyQtSlot::invoke(void**, _object*, void*, bool) const + 362
41 QtCore.abi3.so 0x00000001190de1a5 PyQtSlotProxy::unislot(void**) + 85
42 QtCore.abi3.so 0x00000001190de11a PyQtSlotProxy::qt_metacall(QMetaObject::Call, int, void**) + 58
43 QtCore 0x00000001193c72be 0x11930a000 + 774846
44 QtCore 0x00000001193db80a QTimer::timerEvent(QTimerEvent*) + 202
45 QtCore.abi3.so 0x0000000118fcf9a9 sipQTimer::timerEvent(QTimerEvent*) + 121
46 QtCore 0x00000001193bf52d QObject::event(QEvent*) + 109
47 QtCore.abi3.so 0x0000000118fcf82a sipQTimer::event(QEvent*) + 186
48 QtWidgets 0x000000011bd7f9c7 QApplicationPrivate::notify_helper(QObject*, QEvent*) + 247
49 QtWidgets 0x000000011bd8090c QApplication::notify(QObject*, QEvent*) + 508
50 QtWidgets.abi3.so 0x000000011b8cf186 sipQApplication::notify(QObject*, QEvent*) + 230
51 QtCore 0x000000011937812a QCoreApplication::notifyInternal2(QObject*, QEvent*) + 170
52 QtCore 0x0000000119501c21 QTimerInfoList::activateTimers() + 993
53 libqcocoa.dylib 0x00000001293f1aa5 0x1293dc000 + 88741
54 com.apple.CoreFoundation 0x00007fff2043097c __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE0_PERFORM_FUNCTION__ + 17
55 com.apple.CoreFoundation 0x00007fff204308e4 __CFRunLoopDoSource0 + 180
56 com.apple.CoreFoundation 0x00007fff20430664 __CFRunLoopDoSources0 + 242
57 com.apple.CoreFoundation 0x00007fff2042f08c __CFRunLoopRun + 893
58 com.apple.CoreFoundation 0x00007fff2042e64c CFRunLoopRunSpecific + 563
59 com.apple.HIToolbox 0x00007fff2866cab3 RunCurrentEventLoopInMode + 292
60 com.apple.HIToolbox 0x00007fff2866c815 ReceiveNextEventCommon + 587
61 com.apple.HIToolbox 0x00007fff2866c5b3 _BlockUntilNextEventMatchingListInModeWithFilter + 70
62 com.apple.AppKit 0x00007fff22c2f6f2 _DPSNextEvent + 864
63 com.apple.AppKit 0x00007fff22c2dec5 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1364
64 com.apple.AppKit 0x00007fff22c20239 -[NSApplication run] + 586
65 libqcocoa.dylib 0x00000001293f2753 0x1293dc000 + 91987
66 QtCore 0x00000001193814b6 QEventLoop::exec(QFlags) + 486
67 QtCore 0x0000000119378725 QCoreApplication::exec() + 133
68 QtWidgets.abi3.so 0x000000011b9bb54a meth_QApplication_exec(_object*, _object*) + 90
69 org.python.python 0x000000010b9fc71d cfunction_call + 125
70 org.python.python 0x000000010b9bd5b7 _PyObject_MakeTpCall + 359
71 org.python.python 0x000000010ba95e9c call_function + 876
72 org.python.python 0x000000010ba932a2 _PyEval_EvalFrameDefault + 25554
73 org.python.python 0x000000010b9bdd28 function_code_fastcall + 104
74 org.python.python 0x000000010b9bfd6a method_vectorcall + 202
75 org.python.python 0x000000010ba95e0c call_function + 732
76 org.python.python 0x000000010ba932a2 _PyEval_EvalFrameDefault + 25554
77 org.python.python 0x000000010ba96b03 _PyEval_EvalCode + 2611
78 org.python.python 0x000000010b9bdcb1 _PyFunction_Vectorcall + 289
79 org.python.python 0x000000010ba95e0c call_function + 732
80 org.python.python 0x000000010ba9334b _PyEval_EvalFrameDefault + 25723
81 org.python.python 0x000000010ba96b03 _PyEval_EvalCode + 2611
82 org.python.python 0x000000010ba8cdab PyEval_EvalCode + 139
83 org.python.python 0x000000010ba89c12 builtin_exec + 626
84 org.python.python 0x000000010b9fc023 cfunction_vectorcall_FASTCALL + 195
85 org.python.python 0x000000010ba95e0c call_function + 732
86 org.python.python 0x000000010ba9334b _PyEval_EvalFrameDefault + 25723
87 org.python.python 0x000000010ba96b03 _PyEval_EvalCode + 2611
88 org.python.python 0x000000010b9bdcb1 _PyFunction_Vectorcall + 289
89 org.python.python 0x000000010ba95e0c call_function + 732
90 org.python.python 0x000000010ba9334b _PyEval_EvalFrameDefault + 25723
91 org.python.python 0x000000010ba96b03 _PyEval_EvalCode + 2611
92 org.python.python 0x000000010b9bdcb1 _PyFunction_Vectorcall + 289
93 org.python.python 0x000000010bafc870 pymain_run_module + 208
94 org.python.python 0x000000010bafbf87 Py_RunMain + 1431
95 org.python.python 0x000000010bafc58f pymain_main + 223
96 org.python.python 0x000000010bafc49b Py_Main + 43
97 edu.ucsf.cgl.ChimeraX 0x000000010b974dc8 main + 120
98 libdyld.dylib 0x00007fff20352f5d start + 1
Thread 1:: ThreadPoolServiceThread
0 libsystem_kernel.dylib 0x00007fff2030b1d2 kevent64 + 10
1 QtWebEngineCore 0x00000001214e33ca 0x11d00e000 + 72176586
2 QtWebEngineCore 0x00000001214e326f 0x11d00e000 + 72176239
3 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
4 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
5 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
6 QtWebEngineCore 0x0000000121490aad 0x11d00e000 + 71838381
7 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
8 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
9 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 2:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x000000012149d4af 0x11d00e000 + 71890095
4 QtWebEngineCore 0x000000012149e057 0x11d00e000 + 71893079
5 QtWebEngineCore 0x000000012149dafd 0x11d00e000 + 71891709
6 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
7 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
8 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 3:: Chrome_IOThread
0 libsystem_kernel.dylib 0x00007fff2030b1d2 kevent64 + 10
1 QtWebEngineCore 0x00000001214e33ca 0x11d00e000 + 72176586
2 QtWebEngineCore 0x00000001214e326f 0x11d00e000 + 72176239
3 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
4 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
5 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
6 QtWebEngineCore 0x000000011ecc7572 0x11d00e000 + 30119282
7 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
8 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
9 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 4:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x00000001214dc71f 0x11d00e000 + 72148767
4 QtWebEngineCore 0x0000000121407e69 0x11d00e000 + 71278185
5 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
6 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
7 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
8 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
9 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
10 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 5:: Chrome_InProcGpuThread
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x00000001214dc71f 0x11d00e000 + 72148767
4 QtWebEngineCore 0x0000000121407e69 0x11d00e000 + 71278185
5 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
6 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
7 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
8 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
9 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
10 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 6:: Chrome_ChildIOThread
0 libsystem_kernel.dylib 0x00007fff2030b1d2 kevent64 + 10
1 QtWebEngineCore 0x00000001214e33ca 0x11d00e000 + 72176586
2 QtWebEngineCore 0x00000001214e326f 0x11d00e000 + 72176239
3 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
4 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
5 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
6 QtWebEngineCore 0x0000000124109882 0x11d00e000 + 118470786
7 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
8 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
9 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 7:: CompositorTileWorker1
0 libsystem_kernel.dylib 0x00007fff20304cde __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20337e49 _pthread_cond_wait + 1298
2 QtWebEngineCore 0x00000001214d4e22 0x11d00e000 + 72117794
3 QtWebEngineCore 0x0000000123717505 0x11d00e000 + 108041477
4 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
5 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 8:: ThreadPoolSingleThreadSharedForeground0
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x000000012149d4af 0x11d00e000 + 71890095
4 QtWebEngineCore 0x000000012149e057 0x11d00e000 + 71893079
5 QtWebEngineCore 0x000000012149dbbd 0x11d00e000 + 71891901
6 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
7 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
8 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 9:: VizCompositorThread
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x00000001214dc71f 0x11d00e000 + 72148767
4 QtWebEngineCore 0x0000000121407e69 0x11d00e000 + 71278185
5 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
6 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
7 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
8 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
9 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
10 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 10:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x00000001214dc71f 0x11d00e000 + 72148767
4 QtWebEngineCore 0x0000000121407e69 0x11d00e000 + 71278185
5 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
6 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
7 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
8 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
9 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
10 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 11:: NetworkService
0 libsystem_kernel.dylib 0x00007fff2030b1d2 kevent64 + 10
1 QtWebEngineCore 0x00000001214e33ca 0x11d00e000 + 72176586
2 QtWebEngineCore 0x00000001214e326f 0x11d00e000 + 72176239
3 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
4 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
5 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
6 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
7 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
8 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
9 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 12:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x00000001214dc71f 0x11d00e000 + 72148767
4 QtWebEngineCore 0x0000000121407e69 0x11d00e000 + 71278185
5 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
6 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
7 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
8 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
9 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
10 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 13:: ThreadPoolSingleThreadForegroundBlocking1
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x000000012149d4af 0x11d00e000 + 71890095
4 QtWebEngineCore 0x000000012149e057 0x11d00e000 + 71893079
5 QtWebEngineCore 0x000000012149dbed 0x11d00e000 + 71891949
6 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
7 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
8 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 14:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x00000001214dc71f 0x11d00e000 + 72148767
4 QtWebEngineCore 0x0000000121407e69 0x11d00e000 + 71278185
5 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
6 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
7 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
8 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
9 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
10 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 15:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff20430b5f __CFRunLoopServiceMachPort + 316
3 com.apple.CoreFoundation 0x00007fff2042f23f __CFRunLoopRun + 1328
4 com.apple.CoreFoundation 0x00007fff2042e64c CFRunLoopRunSpecific + 563
5 com.apple.AppKit 0x00007fff22db568a _NSEventThread + 124
6 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
7 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 16:: MemoryInfra
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x00000001214dc71f 0x11d00e000 + 72148767
4 QtWebEngineCore 0x0000000121407e69 0x11d00e000 + 71278185
5 QtWebEngineCore 0x0000000121483ff3 0x11d00e000 + 71786483
6 QtWebEngineCore 0x000000012143ba32 0x11d00e000 + 71490098
7 QtWebEngineCore 0x00000001214aaa58 0x11d00e000 + 71944792
8 QtWebEngineCore 0x00000001214aabea 0x11d00e000 + 71945194
9 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
10 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 17:: ThreadPoolSingleThreadSharedBackgroundBlocking2
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x000000012149d4af 0x11d00e000 + 71890095
4 QtWebEngineCore 0x000000012149dd0c 0x11d00e000 + 71892236
5 QtWebEngineCore 0x000000012149db2d 0x11d00e000 + 71891757
6 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
7 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
8 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 18:
0 libsystem_kernel.dylib 0x00007fff20304cde __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20337e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000010c7ef23f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 19:
0 libsystem_kernel.dylib 0x00007fff20304cde __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20337e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000010c7ef23f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 20:
0 libsystem_kernel.dylib 0x00007fff20304cde __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20337e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000010c7ef23f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 21:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff203022ba mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2030262c mach_msg + 60
2 QtWebEngineCore 0x00000001214dc933 0x11d00e000 + 72149299
3 QtWebEngineCore 0x000000012149d4af 0x11d00e000 + 71890095
4 QtWebEngineCore 0x000000012149e057 0x11d00e000 + 71893079
5 QtWebEngineCore 0x000000012149db8d 0x11d00e000 + 71891853
6 QtWebEngineCore 0x00000001214d6458 0x11d00e000 + 72123480
7 libsystem_pthread.dylib 0x00007fff203378fc _pthread_start + 224
8 libsystem_pthread.dylib 0x00007fff20333443 thread_start + 15
Thread 22:
0 libsystem_pthread.dylib 0x00007fff20333420 start_wqthread + 0
Thread 23:
0 libsystem_pthread.dylib 0x00007fff20333420 start_wqthread + 0
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x0000000114a45e00 rcx: 0x00007fe5d0047a58 rdx: 0x0000000000000000
rdi: 0x0000000000000103 rsi: 0x0000000000000006 rbp: 0x00007fe5d0047a80 rsp: 0x00007fe5d0047a58
r8: 0x00007fe5d0047f48 r9: 0xbeca845e149c14a2 r10: 0x0000000114a45e00 r11: 0x0000000000000246
r12: 0x0000000000000103 r13: 0x00007fe58cbcaac0 r14: 0x0000000000000006 r15: 0x0000000000000016
rip: 0x00007fff2030892e rfl: 0x0000000000000246 cr2: 0x0000000114a18120
Logical CPU: 0
Error Code: 0x02000148
Trap Number: 133
Thread 0 instruction stream not available.
Thread 0 last branch register state not available.
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0x7fff3fac7000 - 0x7fff3fb44fff com.apple.TextInput (1.0 - 1.0) /System/Library/PrivateFrameworks/TextInput.framework/Versions/A/TextInput
0x7fff40c7a000 - 0x7fff40c83fff com.apple.IOAccelMemoryInfo (1.0 - 1) /System/Library/PrivateFrameworks/IOAccelMemoryInfo.framework/Versions/A/IOAccelMemoryInfo
0x7fff40cde000 - 0x7fff40ce1fff com.apple.quartzframework (1.5 - 25) /System/Library/Frameworks/Quartz.framework/Versions/A/Quartz
0x7fff41106000 - 0x7fff41124fff libCGInterfaces.dylib (544.4) /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vImage.framework/Versions/A/Libraries/libCGInterfaces.dylib
0x7fff427a0000 - 0x7fff43500fff libfaceCore.dylib (4.2.6) /System/Library/Frameworks/Vision.framework/libfaceCore.dylib
0x7fff43501000 - 0x7fff43614fff com.apple.TextRecognition (1.0 - 157) /System/Library/PrivateFrameworks/TextRecognition.framework/Versions/A/TextRecognition
0x7fff43615000 - 0x7fff4362dfff com.apple.Futhark (1.0 - 1) /System/Library/PrivateFrameworks/Futhark.framework/Versions/A/Futhark
0x7fff436af000 - 0x7fff43922fff com.apple.RawCamera.bundle (9.10.0 - 1450.3) /System/Library/CoreServices/RawCamera.bundle/Contents/MacOS/RawCamera
0x7fff4418b000 - 0x7fff4418ffff com.apple.DAAPKit (1.0 - 1) /System/Library/PrivateFrameworks/DAAPKit.framework/Versions/A/DAAPKit
0x7fff45b04000 - 0x7fff45b07fff libpmenergy.dylib (227.100.2) /usr/lib/libpmenergy.dylib
0x7fff461f3000 - 0x7fff461fefff libGPUSupportMercury.dylib (18.5.9) /System/Library/PrivateFrameworks/GPUSupport.framework/Versions/A/Libraries/libGPUSupportMercury.dylib
0x7fff47829000 - 0x7fff47869fff com.apple.osanalytics.OSAnalytics (1.0 - 1) /System/Library/PrivateFrameworks/OSAnalytics.framework/Versions/A/OSAnalytics
0x7fff480b9000 - 0x7fff480d4fff com.apple.network.statistics.framework (1.2 - 1) /System/Library/PrivateFrameworks/NetworkStatistics.framework/Versions/A/NetworkStatistics
0x7fff51480000 - 0x7fff514adfff com.apple.HelpData (2.3 - 201) /System/Library/PrivateFrameworks/HelpData.framework/Versions/A/HelpData
0x7fff514ae000 - 0x7fff514c8fff com.apple.shortcut (2.16 - 118) /System/Library/PrivateFrameworks/Shortcut.framework/Versions/A/Shortcut
0x7fff514c9000 - 0x7fff51568fff com.apple.Symbolication (12.5 - 64544.70.1) /System/Library/PrivateFrameworks/Symbolication.framework/Versions/A/Symbolication
0x7fff51757000 - 0x7fff5175afff libpmsample.dylib (227.100.2) /usr/lib/libpmsample.dylib
0x7fff53ded000 - 0x7fff53e23fff com.apple.ReplayKit (1.0 - 1) /System/Library/Frameworks/ReplayKit.framework/Versions/A/ReplayKit
0x7fff55417000 - 0x7fff5541afff com.apple.ForceFeedback (1.0.6 - 1.0.6) /System/Library/Frameworks/ForceFeedback.framework/Versions/A/ForceFeedback
0x7fff5dfd3000 - 0x7fff5ea2efff libSC.dylib (4.5.14) /System/Library/Extensions/AMDShared.bundle/Contents/PlugIns/libSC.dylib
0x7fff694f9000 - 0x7fff694fdfff libmetal_timestamp.dylib (31001.189) /System/Library/PrivateFrameworks/GPUCompiler.framework/Versions/31001/Libraries/libmetal_timestamp.dylib
0x7fff6b944000 - 0x7fff6b94afff libCoreFSCache.dylib (200.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreFSCache.dylib
0x7fff6b94b000 - 0x7fff6b94ffff libCoreVMClient.dylib (200.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreVMClient.dylib
0x7fff6b950000 - 0x7fff6b95ffff com.apple.opengl (18.5.9 - 18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/OpenGL
0x7fff6b960000 - 0x7fff6b962fff libCVMSPluginSupport.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCVMSPluginSupport.dylib
0x7fff6b963000 - 0x7fff6b96bfff libGFXShared.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGFXShared.dylib
0x7fff6b96c000 - 0x7fff6b99ffff libGLImage.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLImage.dylib
0x7fff6b9a0000 - 0x7fff6b9dcfff libGLU.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLU.dylib
0x7fff6b9dd000 - 0x7fff6bb70fff libGLProgrammability.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLProgrammability.dylib
0x7fff6bb71000 - 0x7fff6bb7bfff libGL.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib
0x7fff6bb7c000 - 0x7fff6bcf9fff GLEngine (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Resources/GLEngine.bundle/GLEngine
0x7fff6bcfa000 - 0x7fff6bd22fff GLRendererFloat (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Resources/GLRendererFloat.bundle/GLRendererFloat
0x7fff6cfbb000 - 0x7fff6d013fff com.apple.opencl (4.6 - 4.6) /System/Library/Frameworks/OpenCL.framework/Versions/A/OpenCL
0x7fff6db3d000 - 0x7fff6dd58fff com.apple.AMDMTLBronzeDriver (4.5.14 - 4.0.5) /System/Library/Extensions/AMDMTLBronzeDriver.bundle/Contents/MacOS/AMDMTLBronzeDriver
0x7fff6debd000 - 0x7fff6df0cfff ATIRadeonX4000SCLib.dylib (4.5.14) /System/Library/Extensions/AMDRadeonX4000GLDriver.bundle/Contents/MacOS/ATIRadeonX4000SCLib.dylib
0x7fff6e0bd000 - 0x7fff6e0c4fff com.apple.agl (3.3.4 - AGL-3.3.3) /System/Library/Frameworks/AGL.framework/Versions/A/AGL
0x7fff6e0c5000 - 0x7fff6e1acfff com.apple.audio.AVFAudio (1.0 - 477.87) /System/Library/Frameworks/AVFAudio.framework/Versions/A/AVFAudio
0x7fff6f72a000 - 0x7fff6f73cfff com.apple.CMImaging (1.0 - 82.6) /System/Library/PrivateFrameworks/CMImaging.framework/Versions/A/CMImaging
0x7fff73a0a000 - 0x7fff73a15fff com.apple.SymptomAnalytics (1.0 - 1431.120.1) /System/Library/PrivateFrameworks/Symptoms.framework/Frameworks/SymptomAnalytics.framework/Versions/A/SymptomAnalytics
0x7fff73c2b000 - 0x7fff73c43fff com.apple.SymptomPresentationFeed (1.0 - 1431.120.1) /System/Library/PrivateFrameworks/Symptoms.framework/Frameworks/SymptomPresentationFeed.framework/Versions/A/SymptomPresentationFeed
0x7fff777b9000 - 0x7fff777c0fff libRosetta.dylib (203.46) /usr/lib/libRosetta.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 0
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: 0
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=1.2G resident=0K(0%) swapped_out_or_unallocated=1.2G(100%)
Writable regions: Total=2.5G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=2.5G(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 512K 4
Activity Tracing 256K 1
CG backing stores 5760K 6
CG image 284K 21
CoreAnimation 92K 15
CoreGraphics 12K 2
CoreUI image data 3136K 25
Foundation 48K 2
IOKit 7940K 1
Kernel Alloc Once 8K 1
MALLOC 1.1G 346
MALLOC guard page 48K 10
MALLOC_MEDIUM (reserved) 720.0M 8 reserved VM address space (unallocated)
MALLOC_NANO (reserved) 384.0M 1 reserved VM address space (unallocated)
Mach message 16K 2
OpenGL GLSL 256K 3
STACK GUARD 92K 23
Stack 147.2M 24
Stack Guard 56.0M 1
VM_ALLOCATE 172.6M 179
__DATA 48.9M 648
__DATA_CONST 25.6M 309
__DATA_DIRTY 1710K 212
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 531.3M 195
__OBJC_RO 70.2M 1
__OBJC_RW 2480K 2
__TEXT 672.1M 629
__UNICODE 588K 1
mapped file 590.1M 69
shared memory 2956K 23
=========== ======= =======
TOTAL 4.5G 2766
TOTAL, minus reserved VM space 3.4G 2766
===== Log before crash start =====
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/fpelisch/OneDrive - University of Dundee/C. elegans centromere
> kinetochore project/MIS12/MIS-12C_HCP-4 model/MIS-12C_HCP-4 colour II.cxs"
opened ChimeraX session
> select /C:200
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /C:177-200
191 atoms, 192 bonds, 24 residues, 1 model selected
> select /E:1-2
16 atoms, 15 bonds, 2 residues, 1 model selected
> select /E:1-26
211 atoms, 212 bonds, 26 residues, 1 model selected
> select /E:99
11 atoms, 11 bonds, 1 residue, 1 model selected
> select /E:99-104
50 atoms, 50 bonds, 6 residues, 1 model selected
> select /E:51
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:51-62
107 atoms, 108 bonds, 12 residues, 1 model selected
> select /E:57
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /E:57
9 atoms, 8 bonds, 1 residue, 1 model selected
> ui tool show Contacts
> contacts sel interModel false intraMol false ignoreHiddenModels true select
> true color #000000 reveal true
18 contacts
> style sel stick
Changed 10 atom styles
> select /B:107
11 atoms, 10 bonds, 1 residue, 1 model selected
> select /B:107
11 atoms, 10 bonds, 1 residue, 1 model selected
> style sel stick
Changed 11 atom styles
> select /E:67
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /E:67-93
233 atoms, 233 bonds, 27 residues, 1 model selected
> select /E:62
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /E:1-62
503 atoms, 509 bonds, 62 residues, 1 model selected
> select /E:1
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:1-49
388 atoms, 392 bonds, 49 residues, 1 model selected
> select /E:50-51
16 atoms, 15 bonds, 2 residues, 1 model selected
> select /E:50-105
468 atoms, 472 bonds, 56 residues, 1 model selected
> hide sel cartoons
> hide sel atoms
> hide sel cartoons
> select /E:1
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:1-29
228 atoms, 229 bonds, 29 residues, 1 model selected
> select /E:27
5 atoms, 4 bonds, 1 residue, 1 model selected
> select /E:1-27
216 atoms, 217 bonds, 27 residues, 1 model selected
> select /E:28-29
12 atoms, 11 bonds, 2 residues, 1 model selected
> select /E:28-105
640 atoms, 647 bonds, 78 residues, 1 model selected
> hide sel cartoons
> select /E:27
5 atoms, 4 bonds, 1 residue, 1 model selected
> select /E:1-27
216 atoms, 217 bonds, 27 residues, 1 model selected
> select
3931 atoms, 3973 bonds, 18 pseudobonds, 486 residues, 2 models selected
> hide sel atoms
> select clear
> select /E:27-28
9 atoms, 8 bonds, 2 residues, 1 model selected
> select /E:1-28
220 atoms, 221 bonds, 28 residues, 1 model selected
> select /E:27
5 atoms, 4 bonds, 1 residue, 1 model selected
> select /E:1-27
216 atoms, 217 bonds, 27 residues, 1 model selected
> select clear
> save /Users/fpelisch/Desktop/image10.png supersample 3
> turn x 90
> turn x -90
> save /Users/fpelisch/Desktop/image11.png supersample 3
> select /E:28
4 atoms, 3 bonds, 1 residue, 1 model selected
> select /E:28-50
180 atoms, 182 bonds, 23 residues, 1 model selected
> select /E:27
5 atoms, 4 bonds, 1 residue, 1 model selected
> select /E:1-27
216 atoms, 217 bonds, 27 residues, 1 model selected
> hide sel cartoons
> select /E:28
4 atoms, 3 bonds, 1 residue, 1 model selected
> select /E:28-50
180 atoms, 182 bonds, 23 residues, 1 model selected
> show sel cartoons
> turn x 90
> select clear
> save /Users/fpelisch/Desktop/image12.png supersample 3
> turn x -90
> turn x 90
> save /Users/fpelisch/Desktop/image13.png supersample 3
> select /E:51
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:51-66
134 atoms, 135 bonds, 16 residues, 1 model selected
> show sel cartoons
> select /E:50
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:1-50
396 atoms, 400 bonds, 50 residues, 1 model selected
> hide sel cartoons
Drag select of 18 residues
Drag select of 16 residues
> ui tool show Contacts
> contacts sel interModel false intraMol false ignoreHiddenModels true select
> true color #000000 reveal true
19 contacts
> select /A:106
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /A:106
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /B:107
11 atoms, 10 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 11 atom styles
> select /A:106
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /A:106
9 atoms, 8 bonds, 1 residue, 1 model selected
> style sel stick
Changed 9 atom styles
> select /E:66@CB
1 atom, 1 residue, 1 model selected
> style sel stick
Changed 1 atom style
> select /E:66
6 atoms, 5 bonds, 1 residue, 1 model selected
> style sel stick
Changed 6 atom styles
> select /E:65-66
14 atoms, 13 bonds, 2 residues, 1 model selected
> select /E:65-68
32 atoms, 31 bonds, 4 residues, 1 model selected
> select /E:51
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:51-93
367 atoms, 369 bonds, 43 residues, 1 model selected
> show sel cartoons
> hide sel atoms
> select /E:1-2
16 atoms, 15 bonds, 2 residues, 1 model selected
> select /E
856 atoms, 865 bonds, 105 residues, 1 model selected
> select /E:3-4
20 atoms, 19 bonds, 2 residues, 1 model selected
> select /E:3-15
106 atoms, 107 bonds, 13 residues, 1 model selected
> select /E:19-21,36-38,51-62,67-93,99-104
443 atoms, 443 bonds, 51 residues, 1 model selected
> select /C:223
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /C
507 atoms, 510 bonds, 64 residues, 1 model selected
> select /E:1
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E
856 atoms, 865 bonds, 105 residues, 1 model selected
> show sel cartoons
> select ~sel
3075 atoms, 3108 bonds, 381 residues, 1 model selected
> hide sel cartoons
> hide sel atoms
> select /E:1-2
16 atoms, 15 bonds, 2 residues, 1 model selected
> select /E:1-6
54 atoms, 54 bonds, 6 residues, 1 model selected
> select /E:51
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:51-93
367 atoms, 369 bonds, 43 residues, 1 model selected
> select /E:50
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:1-50
396 atoms, 400 bonds, 50 residues, 1 model selected
> select /E:50
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:1-50
396 atoms, 400 bonds, 50 residues, 1 model selected
> select /E:51-52
14 atoms, 13 bonds, 2 residues, 1 model selected
> select /E:51-105
460 atoms, 464 bonds, 55 residues, 1 model selected
> hide sel atoms
> hide sel cartoons
> select /E:94
12 atoms, 12 bonds, 1 residue, 1 model selected
> select /E:94-105
93 atoms, 94 bonds, 12 residues, 1 model selected
> hide sel cartoons
> show sel cartoons
> hide sel cartoons
> select /E:105
6 atoms, 5 bonds, 1 residue, 1 model selected
> select /E
856 atoms, 865 bonds, 105 residues, 1 model selected
> show sel cartoons
> select /E:9
6 atoms, 5 bonds, 1 residue, 1 model selected
> select /E:9-45
285 atoms, 288 bonds, 37 residues, 1 model selected
> select /E:51
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /E:51-93
367 atoms, 369 bonds, 43 residues, 1 model selected
> select ~sel
3564 atoms, 3602 bonds, 443 residues, 1 model selected
> hide sel cartoons
> select
3931 atoms, 3973 bonds, 19 pseudobonds, 486 residues, 2 models selected
> show sel cartoons
===== Log before crash end =====
Log:
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
OpenGL version: 4.1 ATI-4.5.14
OpenGL renderer: AMD Radeon Pro 580 OpenGL Engine
OpenGL vendor: ATI Technologies Inc.
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: iMac
Model Identifier: iMac18,3
Processor Name: Quad-Core Intel Core i7
Processor Speed: 4.2 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 8 MB
Hyper-Threading Technology: Enabled
Memory: 32 GB
System Firmware Version: 429.120.4.0.0
SMC Version (system): 2.41f2
Software:
System Software Overview:
System Version: macOS 11.4 (20F71)
Kernel Version: Darwin 20.5.0
Time since boot: 8 days 13:52
Graphics/Displays:
Radeon Pro 580:
Chipset Model: Radeon Pro 580
Type: GPU
Bus: PCIe
PCIe Lane Width: x16
VRAM (Total): 8 GB
Vendor: AMD (0x1002)
Device ID: 0x67df
Revision ID: 0x00c0
ROM Revision: 113-D000AA-931
VBIOS Version: 113-D0001A1X-025
EFI Driver Version: 01.00.931
Metal Family: Supported, Metal GPUFamily macOS 2
Displays:
iMac:
Display Type: Built-In Retina LCD
Resolution: Retina 5K (5120 x 2880)
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Main Display: Yes
Mirror: Off
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: 2022.9.26
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
Change History (2)
comment:1 by , 2 years ago
| Component: | Unassigned → Graphics |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Graphics kernel error |
comment:2 by , 2 years ago
| Resolution: | → nonchimerax |
|---|---|
| Status: | assigned → closed |
| Summary: | Graphics kernel error → Graphics crash, macOS 11.4, Radeon Pro 580 |
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Apple Radeon graphics crash.