![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 3 years ago
Closed 3 years ago
#7846 closed defect (can't reproduce)
Crash destroying Qt widget during garbage collection
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.14.6-x86_64-i386-64bit
ChimeraX Version: 1.4 (2022-06-03 23:39:42 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Using XMAS tool, tried to create DisVis Input, then crashed
Fatal Python error: Segmentation fault
Current thread 0x0000000111f145c0 (most recent call first):
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/qtrangeslider/_generic_range_slider.py", line 146 in setStyleSheet
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/qtrangeslider/_generic_range_slider.py", line 66 in __init__
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/qtrangeslider/_sliders.py", line 8 in __init__
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/chimerax/xmas/tool.py", line 2283 in __init__
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/chimerax/xmas/tool.py", line 2502 in __init__
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/chimerax/xmas/tool.py", line 1357 in make_sliders
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/chimerax/xmas/tool.py", line 1299 in show_subset_dialog
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/chimerax/xmas/tool.py", line 2131 in is_selection_empty
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-packages/chimerax/xmas/integrate.py", line 68 in disvis_input
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 318 in event_loop
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 870 in init
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1021 in
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main
Process: ChimeraX [71650]
Path: /Applications/ChimeraX-1.4.app/Contents/MacOS/ChimeraX
Identifier: edu.ucsf.cgl.ChimeraX
Version: 1.4.0 (1.4.0.0)
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: ChimeraX [71650]
User ID: 501
Date/Time: 2022-10-21 14:47:20.802 +1300
OS Version: Mac OS X 10.14.6 (18G9323)
Report Version: 12
Anonymous UUID: 36A3038F-997C-5506-BFC6-7DC6750245E2
Sleep/Wake UUID: 08A7D824-C6C0-4F8D-A6CE-44699EBFBE56
Time Awake Since Boot: 2200000 seconds
Time Since Wake: 20000 seconds
System Integrity Protection: enabled
Crashed Thread: 0 CrBrowserMain Dispatch queue: com.apple.main-thread
Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: EXC_I386_GPFLT
Exception Note: EXC_CORPSE_NOTIFY
Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff6aafd2c2 __pthread_kill + 10
1 libsystem_pthread.dylib 0x00007fff6abb8bf1 pthread_kill + 284
2 libsystem_c.dylib 0x00007fff6aa1ad8a raise + 26
3 libsystem_platform.dylib 0x00007fff6abadb5d _sigtramp + 29
4 ??? 000000000000000000 0 + 0
5 QtWidgets 0x000000011168ddc7 QGridLayout::~QGridLayout() + 39
6 QtWidgets.abi3.so 0x00000001110fe438 non-virtual thunk to sipQGridLayout::~sipQGridLayout() + 56
7 QtWidgets 0x0000000111669960 QBoxLayout::~QBoxLayout() + 176
8 QtWidgets.abi3.so 0x0000000111173307 sipQVBoxLayout::~sipQVBoxLayout() + 55
9 QtWidgets 0x000000011169e98a QWidget::~QWidget() + 634
10 QtWidgets.abi3.so 0x0000000111190f17 sipQWidget::~sipQWidget() + 55
11 QtCore 0x000000010f0a129f QObjectPrivate::deleteChildren() + 159
12 QtWidgets 0x000000011169ec10 QWidget::~QWidget() + 1280
13 QtWidgets.abi3.so 0x0000000111190f17 sipQWidget::~sipQWidget() + 55
14 QtCore 0x000000010f0a129f QObjectPrivate::deleteChildren() + 159
15 QtWidgets 0x000000011169ec10 QWidget::~QWidget() + 1280
16 QtWidgets.abi3.so 0x0000000111144407 sipQDockWidget::~sipQDockWidget() + 55
17 sip.cpython-39-darwin.so 0x0000000110fdc2e7 forgetObject + 183
18 sip.cpython-39-darwin.so 0x0000000110fdbfd5 sipWrapper_dealloc + 37
19 org.python.python 0x0000000104a7eb3b subtype_dealloc + 1019
20 org.python.python 0x0000000104a5d8c2 dict_dealloc + 162
21 org.python.python 0x0000000104a9097f subtype_clear + 239
22 org.python.python 0x0000000104b6bc29 collect + 3193
23 org.python.python 0x0000000104b6c3c2 _PyObject_GC_Alloc + 338
24 org.python.python 0x0000000104b6c435 _PyObject_GC_New + 21
25 org.python.python 0x0000000104a69eb1 PyCMethod_New + 289
26 sip.cpython-39-darwin.so 0x0000000110fd65f6 sipMethodDescr_descr_get + 70
27 org.python.python 0x0000000104a83674 super_getattro + 308
28 org.python.python 0x0000000104a6e95f _PyObject_GetMethod + 255
29 org.python.python 0x0000000104b011a9 _PyEval_EvalFrameDefault + 25305
30 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
31 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
32 org.python.python 0x0000000104a2dd6a method_vectorcall + 202
33 org.python.python 0x0000000104b03e0c call_function + 732
34 org.python.python 0x0000000104b012a2 _PyEval_EvalFrameDefault + 25554
35 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
36 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
37 org.python.python 0x0000000104a2de59 method_vectorcall + 441
38 org.python.python 0x0000000104b01989 _PyEval_EvalFrameDefault + 27321
39 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
40 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
41 org.python.python 0x0000000104a2b415 _PyObject_FastCallDictTstate + 293
42 org.python.python 0x0000000104a2bf98 _PyObject_Call_Prepend + 152
43 org.python.python 0x0000000104a85b05 slot_tp_init + 165
44 org.python.python 0x0000000104a80fb9 type_call + 345
45 org.python.python 0x0000000104a2b5b7 _PyObject_MakeTpCall + 359
46 org.python.python 0x0000000104b03e9c call_function + 876
47 org.python.python 0x0000000104b0134b _PyEval_EvalFrameDefault + 25723
48 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
49 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
50 org.python.python 0x0000000104a2dd6a method_vectorcall + 202
51 org.python.python 0x0000000104b03e0c call_function + 732
52 org.python.python 0x0000000104b012a2 _PyEval_EvalFrameDefault + 25554
53 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
54 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
55 org.python.python 0x0000000104a2b415 _PyObject_FastCallDictTstate + 293
56 org.python.python 0x0000000104a2bf98 _PyObject_Call_Prepend + 152
57 org.python.python 0x0000000104a85b05 slot_tp_init + 165
58 org.python.python 0x0000000104a80fb9 type_call + 345
59 org.python.python 0x0000000104a2b5b7 _PyObject_MakeTpCall + 359
60 org.python.python 0x0000000104b03e9c call_function + 876
61 org.python.python 0x0000000104b0134b _PyEval_EvalFrameDefault + 25723
62 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
63 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
64 org.python.python 0x0000000104b03e0c call_function + 732
65 org.python.python 0x0000000104b0127e _PyEval_EvalFrameDefault + 25518
66 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
67 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
68 org.python.python 0x0000000104a2dd6a method_vectorcall + 202
69 org.python.python 0x0000000104b03e0c call_function + 732
70 org.python.python 0x0000000104b0134b _PyEval_EvalFrameDefault + 25723
71 org.python.python 0x0000000104a2bd28 function_code_fastcall + 104
72 org.python.python 0x0000000104b03e0c call_function + 732
73 org.python.python 0x0000000104b0127e _PyEval_EvalFrameDefault + 25518
74 org.python.python 0x0000000104a2bd28 function_code_fastcall + 104
75 org.python.python 0x0000000104a2ddb2 method_vectorcall + 274
76 QtCore.abi3.so 0x000000010ed9764d PyQtSlot::call(_object*, _object*) const + 109
77 QtCore.abi3.so 0x000000010ed97516 PyQtSlot::invoke(void**, _object*, void*, bool) const + 358
78 QtCore.abi3.so 0x000000010ed98445 PyQtSlotProxy::unislot(void**) + 85
79 QtCore.abi3.so 0x000000010ed983ba PyQtSlotProxy::qt_metacall(QMetaObject::Call, int, void**) + 58
80 QtCore 0x000000010f0a99e7 0x10efed000 + 772583
81 QtWidgets 0x0000000111785aaf 0x11164d000 + 1280687
82 QtWidgets 0x000000011178594c 0x11164d000 + 1280332
83 QtWidgets 0x0000000111786a09 QAbstractButton::mouseReleaseEvent(QMouseEvent*) + 185
84 QtWidgets.abi3.so 0x000000011115f369 sipQPushButton::mouseReleaseEvent(QMouseEvent*) + 121
85 QtWidgets 0x00000001116af615 QWidget::event(QEvent*) + 389
86 QtWidgets.abi3.so 0x000000011115fc7f sipQPushButton::event(QEvent*) + 191
87 QtWidgets 0x000000011165b067 QApplicationPrivate::notify_helper(QObject*, QEvent*) + 247
88 QtWidgets 0x000000011165d5a2 QApplication::notify(QObject*, QEvent*) + 6002
89 QtWidgets.abi3.so 0x000000011117d829 sipQApplication::notify(QObject*, QEvent*) + 233
90 QtCore 0x000000010f058dca QCoreApplication::notifyInternal2(QObject*, QEvent*) + 170
91 QtWidgets 0x000000011165b777 QApplicationPrivate::sendMouseEvent(QWidget*, QMouseEvent*, QWidget*, QWidget*, QWidget**, QPointer&, bool, bool) + 935
92 QtWidgets 0x00000001116c633e 0x11164d000 + 496446
93 QtWidgets 0x00000001116c5195 0x11164d000 + 491925
94 QtWidgets 0x000000011165b067 QApplicationPrivate::notify_helper(QObject*, QEvent*) + 247
95 QtWidgets 0x000000011165c023 QApplication::notify(QObject*, QEvent*) + 499
96 QtWidgets.abi3.so 0x000000011117d829 sipQApplication::notify(QObject*, QEvent*) + 233
97 QtCore 0x000000010f058dca QCoreApplication::notifyInternal2(QObject*, QEvent*) + 170
98 QtGui 0x0000000111fd1c7c QGuiApplicationPrivate::processMouseEvent(QWindowSystemInterfacePrivate::MouseEvent*) + 2332
99 QtGui 0x000000011201d41c QWindowSystemInterface::sendWindowSystemEvents(QFlags) + 444
100 libqcocoa.dylib 0x000000011e82b67b 0x11e811000 + 108155
101 com.apple.CoreFoundation 0x00007fff3e8f039b __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE0_PERFORM_FUNCTION__ + 17
102 com.apple.CoreFoundation 0x00007fff3e8f0341 __CFRunLoopDoSource0 + 108
103 com.apple.CoreFoundation 0x00007fff3e8d3c0b __CFRunLoopDoSources0 + 195
104 com.apple.CoreFoundation 0x00007fff3e8d31d5 __CFRunLoopRun + 1189
105 com.apple.CoreFoundation 0x00007fff3e8d2ade CFRunLoopRunSpecific + 455
106 com.apple.HIToolbox 0x00007fff3db311ab RunCurrentEventLoopInMode + 292
107 com.apple.HIToolbox 0x00007fff3db30ded ReceiveNextEventCommon + 355
108 com.apple.HIToolbox 0x00007fff3db30c76 _BlockUntilNextEventMatchingListInModeWithFilter + 64
109 com.apple.AppKit 0x00007fff3bec8e89 _DPSNextEvent + 1135
110 com.apple.AppKit 0x00007fff3bec7b77 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1361
111 com.apple.AppKit 0x00007fff3bec1c94 -[NSApplication run] + 699
112 libqcocoa.dylib 0x000000011e82a48c 0x11e811000 + 103564
113 QtCore 0x000000010f062516 QEventLoop::exec(QFlags) + 486
114 QtCore 0x000000010f0593e5 QCoreApplication::exec() + 133
115 QtWidgets.abi3.so 0x000000011126a90a meth_QApplication_exec(_object*, _object*) + 90
116 org.python.python 0x0000000104a6a71d cfunction_call + 125
117 org.python.python 0x0000000104a2b5b7 _PyObject_MakeTpCall + 359
118 org.python.python 0x0000000104b03e9c call_function + 876
119 org.python.python 0x0000000104b012a2 _PyEval_EvalFrameDefault + 25554
120 org.python.python 0x0000000104a2bd28 function_code_fastcall + 104
121 org.python.python 0x0000000104a2dd6a method_vectorcall + 202
122 org.python.python 0x0000000104b03e0c call_function + 732
123 org.python.python 0x0000000104b012a2 _PyEval_EvalFrameDefault + 25554
124 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
125 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
126 org.python.python 0x0000000104b03e0c call_function + 732
127 org.python.python 0x0000000104b0134b _PyEval_EvalFrameDefault + 25723
128 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
129 org.python.python 0x0000000104afadab PyEval_EvalCode + 139
130 org.python.python 0x0000000104af7c12 builtin_exec + 626
131 org.python.python 0x0000000104a6a023 cfunction_vectorcall_FASTCALL + 195
132 org.python.python 0x0000000104b03e0c call_function + 732
133 org.python.python 0x0000000104b0134b _PyEval_EvalFrameDefault + 25723
134 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
135 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
136 org.python.python 0x0000000104b03e0c call_function + 732
137 org.python.python 0x0000000104b0134b _PyEval_EvalFrameDefault + 25723
138 org.python.python 0x0000000104b04b03 _PyEval_EvalCode + 2611
139 org.python.python 0x0000000104a2bcb1 _PyFunction_Vectorcall + 289
140 org.python.python 0x0000000104b6a870 pymain_run_module + 208
141 org.python.python 0x0000000104b69f87 Py_RunMain + 1431
142 org.python.python 0x0000000104b6a58f pymain_main + 223
143 org.python.python 0x0000000104b6a49b Py_Main + 43
144 edu.ucsf.cgl.ChimeraX 0x00000001049e3dc8 main + 120
145 libdyld.dylib 0x00007fff6a9c23d5 start + 1
Thread 1:
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 libopenblas64_.0.dylib 0x0000000105e4c49f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
4 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
5 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 2:: ThreadPoolServiceThread
0 libsystem_kernel.dylib 0x00007fff6aaff0a2 kevent64 + 10
1 QtWebEngineCore 0x0000000116cd05ca 0x112d6e000 + 66463178
2 QtWebEngineCore 0x0000000116cd04c7 0x112d6e000 + 66462919
3 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
4 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
5 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
6 QtWebEngineCore 0x0000000116c5684d 0x112d6e000 + 65964109
7 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
8 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
9 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
10 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
11 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 3:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c62d5f 0x112d6e000 + 66014559
4 QtWebEngineCore 0x0000000116c6380c 0x112d6e000 + 66017292
5 QtWebEngineCore 0x0000000116c6337d 0x112d6e000 + 66016125
6 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 4:: Chrome_IOThread
0 libsystem_kernel.dylib 0x00007fff6aaff0a2 kevent64 + 10
1 QtWebEngineCore 0x0000000116cd05ca 0x112d6e000 + 66463178
2 QtWebEngineCore 0x0000000116cd04c7 0x112d6e000 + 66462919
3 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
4 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
5 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
6 QtWebEngineCore 0x0000000115b95e32 0x112d6e000 + 48397874
7 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
8 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
9 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
10 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
11 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 5:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c9e78f 0x112d6e000 + 66258831
4 QtWebEngineCore 0x0000000116bd4089 0x112d6e000 + 65429641
5 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
6 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
7 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
8 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
9 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
11 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
12 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 6:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c62d5f 0x112d6e000 + 66014559
4 QtWebEngineCore 0x0000000116c6380c 0x112d6e000 + 66017292
5 QtWebEngineCore 0x0000000116c6340d 0x112d6e000 + 66016269
6 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 7:: CompositorTileWorker1
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 QtWebEngineCore 0x0000000116c968bb 0x112d6e000 + 66226363
3 QtWebEngineCore 0x0000000118d6755d 0x112d6e000 + 100635997
4 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
5 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
6 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
7 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 8:: Chrome_InProcGpuThread
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c9e78f 0x112d6e000 + 66258831
4 QtWebEngineCore 0x0000000116bd4089 0x112d6e000 + 65429641
5 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
6 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
7 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
8 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
9 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
11 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
12 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 9:: Chrome_ChildIOThread
0 libsystem_kernel.dylib 0x00007fff6aaff0a2 kevent64 + 10
1 QtWebEngineCore 0x0000000116cd05ca 0x112d6e000 + 66463178
2 QtWebEngineCore 0x0000000116cd04c7 0x112d6e000 + 66462919
3 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
4 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
5 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
6 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
7 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
8 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 10:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c9e78f 0x112d6e000 + 66258831
4 QtWebEngineCore 0x0000000116bd4089 0x112d6e000 + 65429641
5 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
6 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
7 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
8 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
9 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
11 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
12 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 11:: VizCompositorThread
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c9e78f 0x112d6e000 + 66258831
4 QtWebEngineCore 0x0000000116bd4089 0x112d6e000 + 65429641
5 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
6 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
7 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
8 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
9 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
11 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
12 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 12:: NetworkService
0 libsystem_kernel.dylib 0x00007fff6aaff0a2 kevent64 + 10
1 QtWebEngineCore 0x0000000116cd05ca 0x112d6e000 + 66463178
2 QtWebEngineCore 0x0000000116cd04c7 0x112d6e000 + 66462919
3 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
4 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
5 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
6 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
7 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
8 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
9 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
10 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 13:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c9e78f 0x112d6e000 + 66258831
4 QtWebEngineCore 0x0000000116bd4089 0x112d6e000 + 65429641
5 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
6 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
7 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
8 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
9 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
11 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
12 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 14:: ThreadPoolSingleThreadForegroundBlocking0
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c62d5f 0x112d6e000 + 66014559
4 QtWebEngineCore 0x0000000116c6380c 0x112d6e000 + 66017292
5 QtWebEngineCore 0x0000000116c6346d 0x112d6e000 + 66016365
6 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 15:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c9e78f 0x112d6e000 + 66258831
4 QtWebEngineCore 0x0000000116bd4089 0x112d6e000 + 65429641
5 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
6 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
7 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
8 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
9 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
11 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
12 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 16:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff3e8d3e0e __CFRunLoopServiceMachPort + 328
3 com.apple.CoreFoundation 0x00007fff3e8d337c __CFRunLoopRun + 1612
4 com.apple.CoreFoundation 0x00007fff3e8d2ade CFRunLoopRunSpecific + 455
5 com.apple.AppKit 0x00007fff3bed0bae _NSEventThread + 175
6 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
7 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
8 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 17:: MemoryInfra
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c9e78f 0x112d6e000 + 66258831
4 QtWebEngineCore 0x0000000116bd4089 0x112d6e000 + 65429641
5 QtWebEngineCore 0x0000000116c4d19c 0x112d6e000 + 65925532
6 QtWebEngineCore 0x0000000116c04ff8 0x112d6e000 + 65630200
7 QtWebEngineCore 0x0000000116c6f458 0x112d6e000 + 66065496
8 QtWebEngineCore 0x0000000116c6f5ea 0x112d6e000 + 66065898
9 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
11 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
12 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 18:: ThreadPoolSingleThreadSharedBackgroundBlocking1
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c62d5f 0x112d6e000 + 66014559
4 QtWebEngineCore 0x0000000116c6353a 0x112d6e000 + 66016570
5 QtWebEngineCore 0x0000000116c633ad 0x112d6e000 + 66016173
6 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 19:
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 interpreter.cpython-39-darwin.so 0x000000013287dfe3 th_worker(void*) + 115
3 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
4 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
5 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 20:
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 interpreter.cpython-39-darwin.so 0x000000013287dfe3 th_worker(void*) + 115
3 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
4 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
5 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 21:
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 interpreter.cpython-39-darwin.so 0x000000013287dfe3 th_worker(void*) + 115
3 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
4 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
5 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 22:
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 interpreter.cpython-39-darwin.so 0x000000013287dfe3 th_worker(void*) + 115
3 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
4 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
5 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 23:
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 libopenblas.0.dylib 0x000000013562ba9f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
4 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
5 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 24:: JavaScriptCore bmalloc scavenger
0 libsystem_kernel.dylib 0x00007fff6aafa866 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abb956e _pthread_cond_wait + 722
2 libc++.1.dylib 0x00007fff67bf1a0a std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 com.apple.JavaScriptCore 0x00007fff41dcdc42 void std::__1::condition_variable_any::wait >(std::__1::unique_lock&) + 82
4 com.apple.JavaScriptCore 0x00007fff41dd1d4b bmalloc::Scavenger::threadRunLoop() + 139
5 com.apple.JavaScriptCore 0x00007fff41dd1579 bmalloc::Scavenger::threadEntryPoint(bmalloc::Scavenger*) + 9
6 com.apple.JavaScriptCore 0x00007fff41dd2ee7 void* std::__1::__thread_proxy >, void (*)(bmalloc::Scavenger*), bmalloc::Scavenger*> >(void*) + 39
7 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 25:: com.apple.coreanimation.render-server
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 com.apple.QuartzCore 0x00007fff493c6942 CA::Render::Server::server_thread(void*) + 865
3 com.apple.QuartzCore 0x00007fff493c65d6 thread_fun(void*) + 25
4 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
5 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
6 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 26:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff6aaf721a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6aaf7768 mach_msg + 60
2 QtWebEngineCore 0x0000000116c9e9c6 0x112d6e000 + 66259398
3 QtWebEngineCore 0x0000000116c62d5f 0x112d6e000 + 66014559
4 QtWebEngineCore 0x0000000116c6380c 0x112d6e000 + 66017292
5 QtWebEngineCore 0x0000000116c6340d 0x112d6e000 + 66016269
6 QtWebEngineCore 0x0000000116c974a8 0x112d6e000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abb62eb _pthread_body + 126
8 libsystem_pthread.dylib 0x00007fff6abb9249 _pthread_start + 66
9 libsystem_pthread.dylib 0x00007fff6abb540d thread_start + 13
Thread 27:
0 libsystem_pthread.dylib 0x00007fff6abb53f0 start_wqthread + 0
Thread 28:
0 libsystem_pthread.dylib 0x00007fff6abb53f0 start_wqthread + 0
Thread 29:
0 libsystem_pthread.dylib 0x00007fff6abb53f0 start_wqthread + 0
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x0000000111f145c0 rcx: 0x0000000104f03a48 rdx: 0x0000000000000000
rdi: 0x0000000000000307 rsi: 0x000000000000000b rbp: 0x0000000104f03a80 rsp: 0x0000000104f03a48
r8: 0x0000000104f03f48 r9: 0x9d14d26d67eaf32a r10: 0x0000000111f1466c r11: 0x0000000000000287
r12: 0x0000000000000307 r13: 0x000000013ef6aa60 r14: 0x000000000000000b r15: 0x000000000000002d
rip: 0x00007fff6aafd2c2 rfl: 0x0000000000000286 cr2: 0x0000000104f03f48
Logical CPU: 0
Error Code: 0x02000148
Trap Number: 133
Binary Images:
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0x1049ec000 - 0x104c54fff +org.python.python (3.9.11, [c] 2001-2021 Python Software Foundation. - 3.9.11) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/Python
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0x105215000 - 0x105219ff7 +binascii.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/binascii.cpython-39-darwin.so
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0x1052bb000 - 0x1052bdfff +_bz2.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_bz2.cpython-39-darwin.so
0x1052c7000 - 0x1052f8fff +_lzma.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_lzma.cpython-39-darwin.so
0x10530a000 - 0x10530bfff +grp.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/grp.cpython-39-darwin.so
0x105315000 - 0x10531aff7 +_struct.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_struct.cpython-39-darwin.so
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0x10533f000 - 0x105340ff7 +_bisect.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_bisect.cpython-39-darwin.so
0x10534a000 - 0x10534bfff +_random.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_random.cpython-39-darwin.so
0x105395000 - 0x105399fff +_sha512.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_sha512.cpython-39-darwin.so
0x105474000 - 0x105474fff +_arrays.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/arrays/_arrays.cpython-39-darwin.so
0x10547b000 - 0x10551cff7 +libarrays.dylib (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/arrays/lib/libarrays.dylib
0x105600000 - 0x105605fff +_json.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_json.cpython-39-darwin.so
0x10560f000 - 0x1059d6ff3 +_multiarray_umath.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/core/_multiarray_umath.cpython-39-darwin.so
0x105b1b000 - 0x1097a4b47 +libopenblas64_.0.dylib (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/.dylibs/libopenblas64_.0.dylib
0x109a60000 - 0x109b77ff7 +libgfortran.3.dylib (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/.dylibs/libgfortran.3.dylib
0x109be5000 - 0x109c1bfff +libquadmath.0.dylib (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/.dylibs/libquadmath.0.dylib
0x109c2f000 - 0x109c44ff7 +libgcc_s.1.dylib (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/.dylibs/libgcc_s.1.dylib
0x10bc94000 - 0x10bca3fff +_datetime.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_datetime.cpython-39-darwin.so
0x10bd37000 - 0x10bd4efff +_pickle.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_pickle.cpython-39-darwin.so
0x10be8e000 - 0x10bea1ff7 +_multiarray_tests.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/core/_multiarray_tests.cpython-39-darwin.so
0x10bf4c000 - 0x10bf4efff +_posixsubprocess.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_posixsubprocess.cpython-39-darwin.so
0x10bf58000 - 0x10bf5cff7 +select.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/select.cpython-39-darwin.so
0x10bfa6000 - 0x10bfb7ff7 +_ctypes.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_ctypes.cpython-39-darwin.so
0x10c010000 - 0x10c02bfff +_umath_linalg.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/linalg/_umath_linalg.cpython-39-darwin.so
0x10c104000 - 0x10c117fff +_pocketfft_internal.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/fft/_pocketfft_internal.cpython-39-darwin.so
0x10c1a3000 - 0x10c216ff3 +mtrand.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/random/mtrand.cpython-39-darwin.so
0x10c279000 - 0x10c298fff +bit_generator.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/random/bit_generator.cpython-39-darwin.so
0x10c2bb000 - 0x10c2eeff3 +_common.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/random/_common.cpython-39-darwin.so
0x10c30d000 - 0x10c313fff +_hashlib.cpython-39-darwin.so (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_hashlib.cpython-39-darwin.so
0x10c322000 - 0x10c37bff7 +libssl.1.1.dylib (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/libssl.1.1.dylib
0x10c3ad000 - 0x10c5c497f +libcrypto.1.1.dylib (0) /Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/libcrypto.1.1.dylib
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0x7fff4066e000 - 0x7fff406fdfff com.apple.framework.CoreWLAN (13.0 - 1375.2) /System/Library/Frameworks/CoreWLAN.framework/Versions/A/CoreWLAN
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0x7fff4854b000 - 0x7fff4855affb com.apple.opengl (17.7.3 - 17.7.3) /System/Library/Frameworks/OpenGL.framework/Versions/A/OpenGL
0x7fff4855b000 - 0x7fff486f2ff7 GLEngine (17.7.3) /System/Library/Frameworks/OpenGL.framework/Versions/A/Resources/GLEngine.bundle/GLEngine
0x7fff486f3000 - 0x7fff4871cff3 GLRendererFloat (17.7.3) /System/Library/Frameworks/OpenGL.framework/Versions/A/Resources/GLRendererFloat.bundle/GLRendererFloat
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0x7fff48a27000 - 0x7fff48c7bfff com.apple.imageKit (3.0 - 1067) /System/Library/Frameworks/Quartz.framework/Versions/A/Frameworks/ImageKit.framework/Versions/A/ImageKit
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0x7fff495bc000 - 0x7fff49613fff com.apple.QuickLookFramework (5.0 - 775.6) /System/Library/Frameworks/QuickLook.framework/Versions/A/QuickLook
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0x7fff4a182000 - 0x7fff4a1b2ffb com.apple.securityinterface (10.0 - 55109.200.8) /System/Library/Frameworks/SecurityInterface.framework/Versions/A/SecurityInterface
0x7fff4a1b3000 - 0x7fff4a1b7fff com.apple.xpc.ServiceManagement (1.0 - 1) /System/Library/Frameworks/ServiceManagement.framework/Versions/A/ServiceManagement
0x7fff4a1b8000 - 0x7fff4a208ff3 com.apple.sociald.Social (???) /System/Library/Frameworks/Social.framework/Versions/A/Social
0x7fff4a550000 - 0x7fff4a5bdfff com.apple.SystemConfiguration (1.17 - 1.17) /System/Library/Frameworks/SystemConfiguration.framework/Versions/A/SystemConfiguration
0x7fff4a81c000 - 0x7fff4ab7dfff com.apple.VideoToolbox (1.0 - 2290.14) /System/Library/Frameworks/VideoToolbox.framework/Versions/A/VideoToolbox
0x7fff4ab7e000 - 0x7fff4ae35ff7 com.apple.VN (2.0.70 - 2.0.70) /System/Library/Frameworks/Vision.framework/Versions/A/Vision
0x7fff4ae52000 - 0x7fff4b45eff7 libwebrtc.dylib (7607.3.9) /System/Library/Frameworks/WebKit.framework/Versions/A/Frameworks/WebCore.framework/Versions/A/Frameworks/libwebrtc.dylib
0x7fff4b45f000 - 0x7fff4cde5ff7 com.apple.WebCore (14607 - 14607.3.9) /System/Library/Frameworks/WebKit.framework/Versions/A/Frameworks/WebCore.framework/Versions/A/WebCore
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0x7fff4e09f000 - 0x7fff4e0d2ffb com.apple.framework.accountsui (1.0 - 63.6) /System/Library/PrivateFrameworks/AccountsUI.framework/Versions/A/AccountsUI
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0x7fff4e651000 - 0x7fff4e794fff com.apple.AnnotationKit (1.0 - 232.3.31) /System/Library/PrivateFrameworks/AnnotationKit.framework/Versions/A/AnnotationKit
0x7fff4e894000 - 0x7fff4e8c0ff7 com.apple.framework.Apple80211 (13.0 - 1380.2) /System/Library/PrivateFrameworks/Apple80211.framework/Versions/A/Apple80211
0x7fff4e9e8000 - 0x7fff4e9f7fc7 com.apple.AppleFSCompression (96.200.3 - 1.0) /System/Library/PrivateFrameworks/AppleFSCompression.framework/Versions/A/AppleFSCompression
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0x7fff4eaf3000 - 0x7fff4eafefff com.apple.AppleIDAuthSupport (1.0 - 1) /System/Library/PrivateFrameworks/AppleIDAuthSupport.framework/Versions/A/AppleIDAuthSupport
0x7fff4eb3f000 - 0x7fff4eb88ff3 com.apple.AppleJPEG (1.0 - 1) /System/Library/PrivateFrameworks/AppleJPEG.framework/Versions/A/AppleJPEG
0x7fff4eb89000 - 0x7fff4eb99fff com.apple.AppleLDAP (10.14 - 46.200.2) /System/Library/PrivateFrameworks/AppleLDAP.framework/Versions/A/AppleLDAP
0x7fff4edb9000 - 0x7fff4edd6fff com.apple.aps.framework (4.0 - 4.0) /System/Library/PrivateFrameworks/ApplePushService.framework/Versions/A/ApplePushService
0x7fff4edd7000 - 0x7fff4eddbff7 com.apple.AppleSRP (5.0 - 1) /System/Library/PrivateFrameworks/AppleSRP.framework/Versions/A/AppleSRP
0x7fff4eddc000 - 0x7fff4edfefff com.apple.applesauce (1.0 - ???) /System/Library/PrivateFrameworks/AppleSauce.framework/Versions/A/AppleSauce
0x7fff4eebe000 - 0x7fff4eec1ff7 com.apple.AppleSystemInfo (3.1.5 - 3.1.5) /System/Library/PrivateFrameworks/AppleSystemInfo.framework/Versions/A/AppleSystemInfo
0x7fff4eec2000 - 0x7fff4ef12ff7 com.apple.AppleVAFramework (5.1.4 - 5.1.4) /System/Library/PrivateFrameworks/AppleVA.framework/Versions/A/AppleVA
0x7fff4ef5d000 - 0x7fff4ef71ffb com.apple.AssertionServices (1.0 - 1) /System/Library/PrivateFrameworks/AssertionServices.framework/Versions/A/AssertionServices
0x7fff4f341000 - 0x7fff4f42dff7 com.apple.AuthKit (1.0 - 1) /System/Library/PrivateFrameworks/AuthKit.framework/Versions/A/AuthKit
0x7fff4f497000 - 0x7fff4f49bffb com.apple.AuthenticationServices (12.0 - 1.0) /System/Library/PrivateFrameworks/AuthenticationServices.framework/Versions/A/AuthenticationServices
0x7fff4f5ef000 - 0x7fff4f5f7fff com.apple.coreservices.BackgroundTaskManagement (1.0 - 57.1) /System/Library/PrivateFrameworks/BackgroundTaskManagement.framework/Versions/A/BackgroundTaskManagement
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0x7fff67a75000 - 0x7fff67af4fff libate.dylib (1.13.8) /usr/lib/libate.dylib
0x7fff67af8000 - 0x7fff67af8ff3 libauto.dylib (187) /usr/lib/libauto.dylib
0x7fff67bca000 - 0x7fff67bdaffb libbsm.0.dylib (39.200.18) /usr/lib/libbsm.0.dylib
0x7fff67bdb000 - 0x7fff67be8fff libbz2.1.0.dylib (38.200.3) /usr/lib/libbz2.1.0.dylib
0x7fff67be9000 - 0x7fff67c3cff7 libc++.1.dylib (400.9.4) /usr/lib/libc++.1.dylib
0x7fff67c3d000 - 0x7fff67c52ff7 libc++abi.dylib (400.17) /usr/lib/libc++abi.dylib
0x7fff67c53000 - 0x7fff67c53ff3 libcharset.1.dylib (51.200.6) /usr/lib/libcharset.1.dylib
0x7fff67c54000 - 0x7fff67c64ffb libcmph.dylib (6.15.1) /usr/lib/libcmph.dylib
0x7fff67c65000 - 0x7fff67c7dffb libcompression.dylib (52.250.2) /usr/lib/libcompression.dylib
0x7fff67ef2000 - 0x7fff67f08fff libcoretls.dylib (155.220.1) /usr/lib/libcoretls.dylib
0x7fff67f09000 - 0x7fff67f0aff3 libcoretls_cfhelpers.dylib (155.220.1) /usr/lib/libcoretls_cfhelpers.dylib
0x7fff680a8000 - 0x7fff681a0ff7 libcrypto.35.dylib (22.260.1) /usr/lib/libcrypto.35.dylib
0x7fff682a2000 - 0x7fff683a2fcb libcrypto.42.dylib (22.260.1) /usr/lib/libcrypto.42.dylib
0x7fff683a3000 - 0x7fff683aeff7 libcsfde.dylib (546.50.2) /usr/lib/libcsfde.dylib
0x7fff683b6000 - 0x7fff6840cff3 libcups.2.dylib (462.16) /usr/lib/libcups.2.dylib
0x7fff68435000 - 0x7fff68489ff7 libcurl.4.dylib (105.200.6) /usr/lib/libcurl.4.dylib
0x7fff68541000 - 0x7fff68541fff libenergytrace.dylib (17.200.1) /usr/lib/libenergytrace.dylib
0x7fff68542000 - 0x7fff6855bffb libexpat.1.dylib (16.1.2) /usr/lib/libexpat.1.dylib
0x7fff68569000 - 0x7fff6856afff libffi.dylib (18.1) /usr/lib/libffi.dylib
0x7fff68573000 - 0x7fff68578ff7 libgermantok.dylib (17.15.2) /usr/lib/libgermantok.dylib
0x7fff68579000 - 0x7fff6857eff7 libheimdal-asn1.dylib (520.270.8) /usr/lib/libheimdal-asn1.dylib
0x7fff685a9000 - 0x7fff68699fff libiconv.2.dylib (51.200.6) /usr/lib/libiconv.2.dylib
0x7fff6869a000 - 0x7fff688fbffb libicucore.A.dylib (62141.0.1) /usr/lib/libicucore.A.dylib
0x7fff68948000 - 0x7fff68949fff liblangid.dylib (128.15.1) /usr/lib/liblangid.dylib
0x7fff6894a000 - 0x7fff68962ff3 liblzma.5.dylib (10.200.3) /usr/lib/liblzma.5.dylib
0x7fff6897a000 - 0x7fff68a1eff7 libmecab.1.0.0.dylib (779.24.1) /usr/lib/libmecab.1.0.0.dylib
0x7fff68a1f000 - 0x7fff68c23fff libmecabra.dylib (779.24.1) /usr/lib/libmecabra.dylib
0x7fff68dfb000 - 0x7fff6914cff7 libnetwork.dylib (1229.250.15) /usr/lib/libnetwork.dylib
0x7fff691de000 - 0x7fff69963fdf libobjc.A.dylib (756.2) /usr/lib/libobjc.A.dylib
0x7fff69964000 - 0x7fff69965fff libodfde.dylib (24.50.1) /usr/lib/libodfde.dylib
0x7fff69975000 - 0x7fff69979ffb libpam.2.dylib (22.200.1) /usr/lib/libpam.2.dylib
0x7fff6997c000 - 0x7fff699b1fff libpcap.A.dylib (79.250.4) /usr/lib/libpcap.A.dylib
0x7fff69a07000 - 0x7fff69a0afff libpmenergy.dylib (194.267.1) /usr/lib/libpmenergy.dylib
0x7fff69a0b000 - 0x7fff69a0dfff libpmsample.dylib (194.267.1) /usr/lib/libpmsample.dylib
0x7fff69aca000 - 0x7fff69ae2ffb libresolv.9.dylib (65.200.3) /usr/lib/libresolv.9.dylib
0x7fff69ae4000 - 0x7fff69b1fff3 libsandbox.1.dylib (851.270.6) /usr/lib/libsandbox.1.dylib
0x7fff69b20000 - 0x7fff69b32ff7 libsasl2.2.dylib (211.1) /usr/lib/libsasl2.2.dylib
0x7fff69b33000 - 0x7fff69b34ff7 libspindump.dylib (267.3) /usr/lib/libspindump.dylib
0x7fff69b35000 - 0x7fff69d12fff libsqlite3.dylib (274.26) /usr/lib/libsqlite3.dylib
0x7fff69dd6000 - 0x7fff69e05fff libssl.44.dylib (22.260.1) /usr/lib/libssl.44.dylib
0x7fff69f2b000 - 0x7fff69f2eff7 libutil.dylib (51.200.4) /usr/lib/libutil.dylib
0x7fff69f2f000 - 0x7fff69f3cfff libxar.1.dylib (417.1) /usr/lib/libxar.1.dylib
0x7fff69f41000 - 0x7fff6a024fff libxml2.2.dylib (32.20) /usr/lib/libxml2.2.dylib
0x7fff6a025000 - 0x7fff6a04dff3 libxslt.1.dylib (16.7.3) /usr/lib/libxslt.1.dylib
0x7fff6a04e000 - 0x7fff6a060ff7 libz.1.dylib (70.200.4) /usr/lib/libz.1.dylib
0x7fff6a844000 - 0x7fff6a848ff3 libcache.dylib (81) /usr/lib/system/libcache.dylib
0x7fff6a849000 - 0x7fff6a853ff3 libcommonCrypto.dylib (60118.250.2) /usr/lib/system/libcommonCrypto.dylib
0x7fff6a854000 - 0x7fff6a85bff7 libcompiler_rt.dylib (63.4) /usr/lib/system/libcompiler_rt.dylib
0x7fff6a85c000 - 0x7fff6a865ff7 libcopyfile.dylib (146.250.1) /usr/lib/system/libcopyfile.dylib
0x7fff6a866000 - 0x7fff6a8ebfff libcorecrypto.dylib (602.260.3) /usr/lib/system/libcorecrypto.dylib
0x7fff6a972000 - 0x7fff6a9abff7 libdispatch.dylib (1008.270.1) /usr/lib/system/libdispatch.dylib
0x7fff6a9ac000 - 0x7fff6a9d8ff7 libdyld.dylib (655.1.1) /usr/lib/system/libdyld.dylib
0x7fff6a9d9000 - 0x7fff6a9d9ffb libkeymgr.dylib (30) /usr/lib/system/libkeymgr.dylib
0x7fff6a9da000 - 0x7fff6a9e6ff3 libkxld.dylib (4903.278.70) /usr/lib/system/libkxld.dylib
0x7fff6a9e7000 - 0x7fff6a9e7ff7 liblaunch.dylib (1336.261.7) /usr/lib/system/liblaunch.dylib
0x7fff6a9e8000 - 0x7fff6a9edfff libmacho.dylib (927.0.3) /usr/lib/system/libmacho.dylib
0x7fff6a9ee000 - 0x7fff6a9f0ff7 libquarantine.dylib (86.270.1) /usr/lib/system/libquarantine.dylib
0x7fff6a9f1000 - 0x7fff6a9f2ff7 libremovefile.dylib (45.200.2) /usr/lib/system/libremovefile.dylib
0x7fff6a9f3000 - 0x7fff6aa0aff3 libsystem_asl.dylib (356.200.4) /usr/lib/system/libsystem_asl.dylib
0x7fff6aa0b000 - 0x7fff6aa0bff7 libsystem_blocks.dylib (73) /usr/lib/system/libsystem_blocks.dylib
0x7fff6aa0c000 - 0x7fff6aa93fff libsystem_c.dylib (1272.250.3) /usr/lib/system/libsystem_c.dylib
0x7fff6aa94000 - 0x7fff6aa97ffb libsystem_configuration.dylib (963.270.4) /usr/lib/system/libsystem_configuration.dylib
0x7fff6aa98000 - 0x7fff6aa9bff7 libsystem_coreservices.dylib (66.1) /usr/lib/system/libsystem_coreservices.dylib
0x7fff6aa9c000 - 0x7fff6aaa2fff libsystem_darwin.dylib (1272.250.3) /usr/lib/system/libsystem_darwin.dylib
0x7fff6aaa3000 - 0x7fff6aaa9ffb libsystem_dnssd.dylib (878.270.3) /usr/lib/system/libsystem_dnssd.dylib
0x7fff6aaaa000 - 0x7fff6aaf5ffb libsystem_info.dylib (517.200.9) /usr/lib/system/libsystem_info.dylib
0x7fff6aaf6000 - 0x7fff6ab1eff7 libsystem_kernel.dylib (4903.278.70) /usr/lib/system/libsystem_kernel.dylib
0x7fff6ab1f000 - 0x7fff6ab6aff7 libsystem_m.dylib (3158.200.7) /usr/lib/system/libsystem_m.dylib
0x7fff6ab6b000 - 0x7fff6ab95fff libsystem_malloc.dylib (166.270.1) /usr/lib/system/libsystem_malloc.dylib
0x7fff6ab96000 - 0x7fff6aba0ff7 libsystem_networkextension.dylib (767.250.2) /usr/lib/system/libsystem_networkextension.dylib
0x7fff6aba1000 - 0x7fff6aba8fff libsystem_notify.dylib (172.200.21) /usr/lib/system/libsystem_notify.dylib
0x7fff6aba9000 - 0x7fff6abb2fef libsystem_platform.dylib (177.270.1) /usr/lib/system/libsystem_platform.dylib
0x7fff6abb3000 - 0x7fff6abbdff7 libsystem_pthread.dylib (330.250.2) /usr/lib/system/libsystem_pthread.dylib
0x7fff6abbe000 - 0x7fff6abc1ff7 libsystem_sandbox.dylib (851.270.6) /usr/lib/system/libsystem_sandbox.dylib
0x7fff6abc2000 - 0x7fff6abc4ff3 libsystem_secinit.dylib (30.260.2) /usr/lib/system/libsystem_secinit.dylib
0x7fff6abc5000 - 0x7fff6abccff3 libsystem_symptoms.dylib (820.267.2) /usr/lib/system/libsystem_symptoms.dylib
0x7fff6abcd000 - 0x7fff6abe2ff7 libsystem_trace.dylib (906.260.3) /usr/lib/system/libsystem_trace.dylib
0x7fff6abe4000 - 0x7fff6abe9ffb libunwind.dylib (35.4) /usr/lib/system/libunwind.dylib
0x7fff6abea000 - 0x7fff6ac19fff libxpc.dylib (1336.261.7) /usr/lib/system/libxpc.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 1
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: 881128
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=954.8M resident=0K(0%) swapped_out_or_unallocated=954.8M(100%)
Writable regions: Total=2.1G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=2.1G(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 384K 2
Activity Tracing 256K 1
CG backing stores 336K 2
CG image 164K 26
CoreAnimation 748K 45
CoreGraphics 8K 1
CoreImage 156K 36
CoreUI image data 1700K 36
CoreUI image file 488K 7
Foundation 36K 2
JS JIT generated code 1.0G 3
Kernel Alloc Once 8K 1
MALLOC 559.5M 289
MALLOC guard page 32K 8
MALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)
MALLOC_NANO (reserved) 256.0M 1 reserved VM address space (unallocated)
Mach message 16K 3
Memory Tag 242 12K 1
OpenGL GLSL 384K 4
SQLite page cache 64K 1
STACK GUARD 116K 29
Stack 150.2M 30
Stack Guard 56.0M 1
VM_ALLOCATE 80.3M 78
VM_ALLOCATE (reserved) 32.0M 1 reserved VM address space (unallocated)
WebKit Malloc 4216K 8
__DATA 66.2M 702
__DATA_CONST 48K 3
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 271.3M 371
__TEXT 684.3M 666
__UNICODE 564K 1
mapped file 94.2M 156
shared memory 3092K 24
=========== ======= =======
TOTAL 3.2G 2542
TOTAL, minus reserved VM space 2.9G 2542
===== Log before crash start =====
UCSF ChimeraX version: 1.4 (2022-06-03)
© 2016-2022 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Volumes/TL FOR BIOC/Mass Spec Crosslinking Meeting/MBP-COP1 (126-308)
> Dimer Mockup.pse"
Unrecognized file suffix '.pse'
> open "/Volumes/TL FOR BIOC/Mass Spec Crosslinking Meeting/MBP-COP1 (126-308)
> Dimer Mockup.pdb"
Chain information for MBP-COP1 (126-308) Dimer Mockup.pdb #1
---
Chain | Description
A | No description available
> ui tool show XMAS
Unsupported evidence file format
Traceback (most recent call last):
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-
packages/chimerax/xmas/tool.py", line 286, in
function = lambda _, s=selector, t=key: self.map_button_clicked(s,
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-
packages/chimerax/xmas/tool.py", line 444, in map_button_clicked
self.map_crosslinks(self.checked_models, checked_files)
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-
packages/chimerax/xmas/tool.py", line 457, in map_crosslinks
evidence = Evidence(evidence_file)
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-
packages/chimerax/xmas/read_evidence.py", line 38, in __init__
self.peptide_pairs = evidence.peptide_pairs
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'
Populating font family aliases took 1335 ms. Replace uses of missing font
family ".SF NS Text" with one that exists to avoid this cost.
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'
File "/Users/tarren/Library/Application Support/ChimeraX/1.4/site-
packages/chimerax/xmas/read_evidence.py", line 38, in __init__
self.peptide_pairs = evidence.peptide_pairs
See log for complete Python traceback.
Peptide pair mapping of pLink evidence file: /Volumes/TL FOR BIOC/Crosslinking
Stuff/COP1
Dimer/Plink/22051_xlink_trial/reports/22051_MBP_COP1_2022.10.21.filtered_cross-
linked_peptides.csv
Unique peptide pairs: 2 out of 2
Unique peptide pairs with pseudobonds: 2
Pseudobonds are stored in /Volumes/TL FOR BIOC/Crosslinking Stuff/COP1
Dimer/Plink/22051_xlink_trial/reports/22051_MBP_COP1_2022.10.21.filtered_cross-
linked_peptides_1.pb
Mapping information is stored in /Volumes/TL FOR BIOC/Crosslinking Stuff/COP1
Dimer/Plink/22051_xlink_trial/reports/22051_MBP_COP1_2022.10.21.filtered_cross-
linked_peptides_1.tsv
Venn diagrams can only be plotted for two or three groups
/Users/tarren/Library/Application Support/ChimeraX/1.4/site-
packages/seaborn/categorical.py:166: FutureWarning: Setting a gradient palette
using color= is deprecated and will be removed in version 0.13. Set
`palette='dark:gray'` for same effect.
warnings.warn(msg, FutureWarning)
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.4 (2022-06-03)
© 2016-2022 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 INTEL-12.10.31
OpenGL renderer: Intel Iris OpenGL Engine
OpenGL vendor: Intel Inc.
Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.3.0, Qt 6.3.0
Qt runtime version: 6.3.0
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: Mac mini
Model Identifier: Macmini7,1
Processor Name: Intel Core i5
Processor Speed: 2.6 GHz
Number of Processors: 1
Total Number of Cores: 2
L2 Cache (per Core): 256 KB
L3 Cache: 3 MB
Hyper-Threading Technology: Enabled
Memory: 8 GB
Boot ROM Version: 431.140.6.0.0
SMC Version (system): 2.24f32
Software:
System Software Overview:
System Version: macOS 10.14.6 (18G9323)
Kernel Version: Darwin 18.7.0
Time since boot: 65 days 23:49
Graphics/Displays:
Intel Iris:
Chipset Model: Intel Iris
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x0a2e
Revision ID: 0x0009
Metal: Supported, feature set macOS GPUFamily1 v4
Displays:
ASUS VC239:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 60 Hz
Framebuffer Depth: 24-Bit Color (ARGB8888)
Display Serial Number: G2LMTJ003558
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Automatically Adjust Brightness: No
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.3
Babel: 2.10.1
backcall: 0.2.0
blockdiag: 3.0.0
certifi: 2021.10.8
cftime: 1.6.0
charset-normalizer: 2.0.12
ChimeraX-AddCharge: 1.2.3
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2.1
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.4.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.39.1
ChimeraX-AtomicLibrary: 7.0
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.1
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.7
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.1
ChimeraX-CommandLine: 1.2.3
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.4
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.1
ChimeraX-DistMonitor: 1.1.5
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.2
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
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: 1.1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
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: 2.0.6
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.7
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.5.5
ChimeraX-ModelPanel: 1.3.2
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: 1.9
ChimeraX-PDB: 2.6.6
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
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
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.6
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: 1.8
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.0.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.1
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.18.3
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.1.2
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: 1.1.0
ChimeraX-XMAS: 1.1.2
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.2
cycler: 0.11.0
Cython: 0.29.26
debugpy: 1.6.0
decorator: 5.1.1
docutils: 0.17.1
entrypoints: 0.4
et-xmlfile: 1.1.0
filelock: 3.4.2
fonttools: 4.33.3
funcparserlib: 1.0.0
grako: 3.16.5
h5py: 3.7.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.27
imagecodecs: 2021.11.20
imagesize: 1.3.0
ipykernel: 6.6.1
ipython: 7.31.1
ipython-genutils: 0.2.0
jedi: 0.18.1
Jinja2: 3.0.3
jupyter-client: 7.1.0
jupyter-core: 4.10.0
kiwisolver: 1.4.2
line-profiler: 3.4.0
lxml: 4.7.1
lz4: 3.1.10
MarkupSafe: 2.1.1
matplotlib: 3.5.1
matplotlib-inline: 0.1.3
msgpack: 1.0.3
nest-asyncio: 1.5.5
netCDF4: 1.5.8
networkx: 2.6.3
numexpr: 2.8.1
numpy: 1.22.1
openpyxl: 3.0.10
openvr: 1.16.802
packaging: 21.0
pandas: 1.5.0
ParmEd: 3.4.3
parso: 0.8.3
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.0.1
pip: 21.3.1
pkginfo: 1.8.2
prompt-toolkit: 3.0.29
psutil: 5.9.0
ptyprocess: 0.7.0
pycollada: 0.7.2
pydicom: 2.2.2
Pygments: 2.11.2
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
PyQt6-commercial: 6.3.0
PyQt6-Qt6: 6.3.0
PyQt6-sip: 13.3.1
PyQt6-WebEngine-commercial: 6.3.0
PyQt6-WebEngine-Qt6: 6.3.0
python-dateutil: 2.8.2
pytz: 2022.1
pyzmq: 23.1.0
qtconsole: 5.3.0
QtPy: 2.1.0
QtRangeSlider: 0.1.5
RandomWords: 0.3.0
requests: 2.27.1
scipy: 1.7.3
seaborn: 0.12.0
setuptools: 59.8.0
sfftk-rw: 0.7.2
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.3.2
sphinx-autodoc-typehints: 1.15.2
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 3.0.0
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-community: 1.0.0
tables: 3.7.0
tifffile: 2021.11.2
tinyarray: 1.2.4
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.9
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.1
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 3 years ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash destroying Qt widget during garbage collection |
comment:2 by , 3 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
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