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#7668 closed defect (can't reproduce)

Crash disposing of QGridLayout, possibly from XMAS, during garbage collection

Reported by:	chimerax-bug-report@…	Owned by:	Eric Pettersen
Priority:	normal	Milestone:
Component:	Window Toolkit	Version:
Keywords:		Cc:	Tom Goddard, Richard Scheltema
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description

The following bug report has been submitted:
Platform:        macOS-10.15.7-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.
Fatal Python error: Segmentation fault

Current thread 0x0000000119470dc0 (most recent call first):
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/core/_internal.py", line 283 in data_as
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 322 in pointer
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 240 in set_cvec_pointer
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molarray.py", line 123 in __init__
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molarray.py", line 1039 in __init__
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/ctypes_support.py", line 43 in pseudobonds
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 166 in get_prop
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/pbgroup.py", line 105 in get_selected
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/structure.py", line 770 in get_selected
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/selection.py", line 30 in 
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/selection.py", line 30 in models
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/selection.py", line 34 in items
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/selection.py", line 71 in undo_add_selected
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/std_commands/select.py", line 229 in clear_selection
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/std_commands/select.py", line 146 in select_clear
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2897 in run
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/run.py", line 38 in run
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 1554 in 
  File "/Volumes/ChimeraXInstaller/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 "/Volumes/ChimeraXInstaller/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 "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1021 in 
  File "/Volumes/ChimeraXInstaller/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
  File "/Volumes/ChimeraXInstaller/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 [18296]
Path:                  /Volumes/VOLUME/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 [18296]
User ID:               505

Date/Time:             2022-09-24 20:17:39.682 +0200
OS Version:            Mac OS X 10.15.7 (19H15)
Report Version:        12
Bridge OS Version:     5.0.1 (18P2561)
Anonymous UUID:        1C80D7C0-D9D6-B7E4-ABEB-8C57BCD37ACF

Sleep/Wake UUID:       578D9218-BA6D-4F98-80C9-33BD8DC26789

Time Awake Since Boot: 130000 seconds
Time Since Wake:       22000 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        	0x00007fff6e06733a __pthread_kill + 10
1   libsystem_pthread.dylib       	0x00007fff6e123e60 pthread_kill + 430
2   libsystem_c.dylib             	0x00007fff6df7e93e raise + 26
3   libsystem_platform.dylib      	0x00007fff6e1185fd _sigtramp + 29
4   ???                           	000000000000000000 0 + 0
5   QtWidgets                     	0x0000000125bf5dc7 QGridLayout::~QGridLayout() + 39
6   QtWidgets.abi3.so             	0x0000000125666438 non-virtual thunk to sipQGridLayout::~sipQGridLayout() + 56
7   QtWidgets                     	0x0000000125bd1960 QBoxLayout::~QBoxLayout() + 176
8   QtWidgets.abi3.so             	0x00000001256db307 sipQVBoxLayout::~sipQVBoxLayout() + 55
9   QtWidgets                     	0x0000000125c0698a QWidget::~QWidget() + 634
10  QtWidgets.abi3.so             	0x00000001256f8f17 sipQWidget::~sipQWidget() + 55
11  QtCore                        	0x000000012355f29f QObjectPrivate::deleteChildren() + 159
12  QtWidgets                     	0x0000000125c06c10 QWidget::~QWidget() + 1280
13  QtWidgets.abi3.so             	0x00000001256f8f17 sipQWidget::~sipQWidget() + 55
14  QtCore                        	0x000000012355f29f QObjectPrivate::deleteChildren() + 159
15  QtWidgets                     	0x0000000125c06c10 QWidget::~QWidget() + 1280
16  QtWidgets.abi3.so             	0x00000001256ac407 sipQDockWidget::~sipQDockWidget() + 55
17  sip.cpython-39-darwin.so      	0x00000001191aa2e7 forgetObject + 183
18  sip.cpython-39-darwin.so      	0x00000001191a9fd5 sipWrapper_dealloc + 37
19  org.python.python             	0x000000010da68b3b subtype_dealloc + 1019
20  org.python.python             	0x000000010da478c2 dict_dealloc + 162
21  org.python.python             	0x000000010da7a97f subtype_clear + 239
22  org.python.python             	0x000000010db55c29 collect + 3193
23  org.python.python             	0x000000010db563c2 _PyObject_GC_Alloc + 338
24  org.python.python             	0x000000010db56435 _PyObject_GC_New + 21
25  org.python.python             	0x000000010da4a032 new_dict_with_shared_keys + 370
26  org.python.python             	0x000000010da4a19e _PyObjectDict_SetItem + 78
27  org.python.python             	0x000000010da58c4f _PyObject_GenericSetAttrWithDict + 303
28  org.python.python             	0x000000010da58059 PyObject_SetAttr + 73
29  org.python.python             	0x000000010dae81da _PyEval_EvalFrameDefault + 13066
30  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
31  org.python.python             	0x000000010daede0c call_function + 732
32  org.python.python             	0x000000010daeb27e _PyEval_EvalFrameDefault + 25518
33  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
34  org.python.python             	0x000000010daede0c call_function + 732
35  org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
36  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
37  org.python.python             	0x000000010daede0c call_function + 732
38  org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
39  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
40  org.python.python             	0x000000010daede0c call_function + 732
41  org.python.python             	0x000000010daeb2a2 _PyEval_EvalFrameDefault + 25554
42  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
43  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
44  org.python.python             	0x000000010da15415 _PyObject_FastCallDictTstate + 293
45  org.python.python             	0x000000010da15f98 _PyObject_Call_Prepend + 152
46  org.python.python             	0x000000010da6fb05 slot_tp_init + 165
47  org.python.python             	0x000000010da6afb9 type_call + 345
48  org.python.python             	0x000000010da155b7 _PyObject_MakeTpCall + 359
49  org.python.python             	0x000000010daede9c call_function + 876
50  org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
51  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
52  org.python.python             	0x000000010daede0c call_function + 732
53  org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
54  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
55  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
56  org.python.python             	0x000000010da1f323 property_descr_get + 115
57  org.python.python             	0x000000010da585e3 _PyObject_GenericGetAttrWithDict + 163
58  org.python.python             	0x000000010dae9842 _PyEval_EvalFrameDefault + 18802
59  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
60  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
61  org.python.python             	0x000000010da17d6a method_vectorcall + 202
62  org.python.python             	0x000000010daede0c call_function + 732
63  org.python.python             	0x000000010daeb3e8 _PyEval_EvalFrameDefault + 25880
64  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
65  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
66  org.python.python             	0x000000010da17d6a method_vectorcall + 202
67  org.python.python             	0x000000010daede0c call_function + 732
68  org.python.python             	0x000000010daeb3e8 _PyEval_EvalFrameDefault + 25880
69  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
70  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
71  org.python.python             	0x000000010daede0c call_function + 732
72  org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
73  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
74  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
75  org.python.python             	0x000000010daede0c call_function + 732
76  org.python.python             	0x000000010daeb27e _PyEval_EvalFrameDefault + 25518
77  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
78  org.python.python             	0x000000010daede0c call_function + 732
79  org.python.python             	0x000000010daeb27e _PyEval_EvalFrameDefault + 25518
80  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
81  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
82  org.python.python             	0x000000010daede0c call_function + 732
83  org.python.python             	0x000000010daeb27e _PyEval_EvalFrameDefault + 25518
84  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
85  org.python.python             	0x000000010daede0c call_function + 732
86  org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
87  org.python.python             	0x000000010da15d28 function_code_fastcall + 104
88  org.python.python             	0x000000010daeb989 _PyEval_EvalFrameDefault + 27321
89  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
90  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
91  org.python.python             	0x000000010da17d6a method_vectorcall + 202
92  org.python.python             	0x000000010daede0c call_function + 732
93  org.python.python             	0x000000010daeb3e8 _PyEval_EvalFrameDefault + 25880
94  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
95  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
96  org.python.python             	0x000000010daede0c call_function + 732
97  org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
98  org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
99  org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
100 QtCore.abi3.so                	0x0000000118efa64d PyQtSlot::call(_object*, _object*) const + 109
101 QtCore.abi3.so                	0x0000000118efa516 PyQtSlot::invoke(void**, _object*, void*, bool) const + 358
102 QtCore.abi3.so                	0x0000000118efb445 PyQtSlotProxy::unislot(void**) + 85
103 QtCore.abi3.so                	0x0000000118efb3ba PyQtSlotProxy::qt_metacall(QMetaObject::Call, int, void**) + 58
104 QtCore                        	0x00000001235679e7 0x1234ab000 + 772583
105 QtGui                         	0x000000012659b6ad QAction::activate(QAction::ActionEvent) + 397
106 QtCore                        	0x000000012355fe19 QObject::event(QEvent*) + 729
107 QtGui.abi3.so                 	0x00000001269db1df sipQAction::event(QEvent*) + 191
108 QtWidgets                     	0x0000000125bc3067 QApplicationPrivate::notify_helper(QObject*, QEvent*) + 247
109 QtWidgets                     	0x0000000125bc4023 QApplication::notify(QObject*, QEvent*) + 499
110 QtWidgets.abi3.so             	0x00000001256e5829 sipQApplication::notify(QObject*, QEvent*) + 233
111 QtCore                        	0x0000000123516dca QCoreApplication::notifyInternal2(QObject*, QEvent*) + 170
112 QtCore                        	0x0000000123517f00 QCoreApplicationPrivate::sendPostedEvents(QObject*, int, QThreadData*) + 800
113 libqcocoa.dylib               	0x00000001326e8f6b 0x1326cf000 + 106347
114 libqcocoa.dylib               	0x00000001326e967b 0x1326cf000 + 108155
115 com.apple.CoreFoundation      	0x00007fff3404ad52 __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE0_PERFORM_FUNCTION__ + 17
116 com.apple.CoreFoundation      	0x00007fff3404acf1 __CFRunLoopDoSource0 + 103
117 com.apple.CoreFoundation      	0x00007fff3404ab0b __CFRunLoopDoSources0 + 209
118 com.apple.CoreFoundation      	0x00007fff3404983a __CFRunLoopRun + 927
119 com.apple.CoreFoundation      	0x00007fff34048e3e CFRunLoopRunSpecific + 462
120 com.apple.HIToolbox           	0x00007fff32c75abd RunCurrentEventLoopInMode + 292
121 com.apple.HIToolbox           	0x00007fff32c756f4 ReceiveNextEventCommon + 359
122 com.apple.HIToolbox           	0x00007fff32c75579 _BlockUntilNextEventMatchingListInModeWithFilter + 64
123 com.apple.AppKit              	0x00007fff312bb039 _DPSNextEvent + 883
124 com.apple.AppKit              	0x00007fff312b9880 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1352
125 com.apple.AppKit              	0x00007fff312ab58e -[NSApplication run] + 658
126 libqcocoa.dylib               	0x00000001326e848c 0x1326cf000 + 103564
127 QtCore                        	0x0000000123520516 QEventLoop::exec(QFlags) + 486
128 QtCore                        	0x00000001235173e5 QCoreApplication::exec() + 133
129 QtWidgets.abi3.so             	0x00000001257d290a meth_QApplication_exec(_object*, _object*) + 90
130 org.python.python             	0x000000010da5471d cfunction_call + 125
131 org.python.python             	0x000000010da155b7 _PyObject_MakeTpCall + 359
132 org.python.python             	0x000000010daede9c call_function + 876
133 org.python.python             	0x000000010daeb2a2 _PyEval_EvalFrameDefault + 25554
134 org.python.python             	0x000000010da15d28 function_code_fastcall + 104
135 org.python.python             	0x000000010da17d6a method_vectorcall + 202
136 org.python.python             	0x000000010daede0c call_function + 732
137 org.python.python             	0x000000010daeb2a2 _PyEval_EvalFrameDefault + 25554
138 org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
139 org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
140 org.python.python             	0x000000010daede0c call_function + 732
141 org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
142 org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
143 org.python.python             	0x000000010dae4dab PyEval_EvalCode + 139
144 org.python.python             	0x000000010dae1c12 builtin_exec + 626
145 org.python.python             	0x000000010da54023 cfunction_vectorcall_FASTCALL + 195
146 org.python.python             	0x000000010daede0c call_function + 732
147 org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
148 org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
149 org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
150 org.python.python             	0x000000010daede0c call_function + 732
151 org.python.python             	0x000000010daeb34b _PyEval_EvalFrameDefault + 25723
152 org.python.python             	0x000000010daeeb03 _PyEval_EvalCode + 2611
153 org.python.python             	0x000000010da15cb1 _PyFunction_Vectorcall + 289
154 org.python.python             	0x000000010db54870 pymain_run_module + 208
155 org.python.python             	0x000000010db53f87 Py_RunMain + 1431
156 org.python.python             	0x000000010db5458f pymain_main + 223
157 org.python.python             	0x000000010db5449b Py_Main + 43
158 edu.ucsf.cgl.ChimeraX         	0x000000010d9cedc8 main + 120
159 libdyld.dylib                 	0x00007fff6df1fcc9 start + 1

Thread 1:: ThreadPoolServiceThread
0   libsystem_kernel.dylib        	0x00007fff6e069b96 kevent64 + 10
1   QtWebEngineCore               	0x000000012ac1b5ca 0x126cb9000 + 66463178
2   QtWebEngineCore               	0x000000012ac1b4c7 0x126cb9000 + 66462919
3   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
4   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
5   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
6   QtWebEngineCore               	0x000000012aba184d 0x126cb9000 + 65964109
7   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
8   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
9   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
10  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 2:: ThreadPoolBackgroundWorker
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abadd5f 0x126cb9000 + 66014559
4   QtWebEngineCore               	0x000000012abae80c 0x126cb9000 + 66017292
5   QtWebEngineCore               	0x000000012abae37d 0x126cb9000 + 66016125
6   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
7   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
8   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 3:: Chrome_IOThread
0   libsystem_kernel.dylib        	0x00007fff6e069b96 kevent64 + 10
1   QtWebEngineCore               	0x000000012ac1b5ca 0x126cb9000 + 66463178
2   QtWebEngineCore               	0x000000012ac1b4c7 0x126cb9000 + 66462919
3   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
4   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
5   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
6   QtWebEngineCore               	0x0000000129ae0e32 0x126cb9000 + 48397874
7   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
8   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
9   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
10  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 4:: NetworkConfigWatcher
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abe978f 0x126cb9000 + 66258831
4   QtWebEngineCore               	0x000000012ab1f089 0x126cb9000 + 65429641
5   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
6   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
7   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
8   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
9   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
10  libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
11  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 5:: ThreadPoolForegroundWorker
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abadd5f 0x126cb9000 + 66014559
4   QtWebEngineCore               	0x000000012abae80c 0x126cb9000 + 66017292
5   QtWebEngineCore               	0x000000012abae40d 0x126cb9000 + 66016269
6   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
7   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
8   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 6:: CompositorTileWorker1
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   QtWebEngineCore               	0x000000012abe18bb 0x126cb9000 + 66226363
3   QtWebEngineCore               	0x000000012ccb255d 0x126cb9000 + 100635997
4   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
5   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
6   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 7:: Chrome_InProcGpuThread
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abe978f 0x126cb9000 + 66258831
4   QtWebEngineCore               	0x000000012ab1f089 0x126cb9000 + 65429641
5   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
6   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
7   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
8   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
9   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
10  libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
11  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 8:: Chrome_ChildIOThread
0   libsystem_kernel.dylib        	0x00007fff6e069b96 kevent64 + 10
1   QtWebEngineCore               	0x000000012ac1b5ca 0x126cb9000 + 66463178
2   QtWebEngineCore               	0x000000012ac1b4c7 0x126cb9000 + 66462919
3   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
4   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
5   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
6   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
7   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
8   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
9   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 9:: NetworkConfigWatcher
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abe978f 0x126cb9000 + 66258831
4   QtWebEngineCore               	0x000000012ab1f089 0x126cb9000 + 65429641
5   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
6   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
7   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
8   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
9   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
10  libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
11  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 10:: VizCompositorThread
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abe978f 0x126cb9000 + 66258831
4   QtWebEngineCore               	0x000000012ab1f089 0x126cb9000 + 65429641
5   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
6   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
7   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
8   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
9   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
10  libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
11  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 11:: NetworkService
0   libsystem_kernel.dylib        	0x00007fff6e069b96 kevent64 + 10
1   QtWebEngineCore               	0x000000012ac1b5ca 0x126cb9000 + 66463178
2   QtWebEngineCore               	0x000000012ac1b4c7 0x126cb9000 + 66462919
3   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
4   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
5   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
6   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
7   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
8   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
9   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 12:: NetworkConfigWatcher
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abe978f 0x126cb9000 + 66258831
4   QtWebEngineCore               	0x000000012ab1f089 0x126cb9000 + 65429641
5   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
6   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
7   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
8   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
9   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
10  libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
11  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 13:: ThreadPoolSingleThreadForegroundBlocking0
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abadd5f 0x126cb9000 + 66014559
4   QtWebEngineCore               	0x000000012abae80c 0x126cb9000 + 66017292
5   QtWebEngineCore               	0x000000012abae46d 0x126cb9000 + 66016365
6   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
7   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
8   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 14:: NetworkConfigWatcher
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abe978f 0x126cb9000 + 66258831
4   QtWebEngineCore               	0x000000012ab1f089 0x126cb9000 + 65429641
5   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
6   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
7   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
8   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
9   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
10  libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
11  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 15:: com.apple.NSEventThread
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   com.apple.CoreFoundation      	0x00007fff3404aef5 __CFRunLoopServiceMachPort + 247
3   com.apple.CoreFoundation      	0x00007fff340499c2 __CFRunLoopRun + 1319
4   com.apple.CoreFoundation      	0x00007fff34048e3e CFRunLoopRunSpecific + 462
5   com.apple.AppKit              	0x00007fff3145c954 _NSEventThread + 132
6   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
7   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 16:: MemoryInfra
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abe978f 0x126cb9000 + 66258831
4   QtWebEngineCore               	0x000000012ab1f089 0x126cb9000 + 65429641
5   QtWebEngineCore               	0x000000012ab9819c 0x126cb9000 + 65925532
6   QtWebEngineCore               	0x000000012ab4fff8 0x126cb9000 + 65630200
7   QtWebEngineCore               	0x000000012abba458 0x126cb9000 + 66065496
8   QtWebEngineCore               	0x000000012abba5ea 0x126cb9000 + 66065898
9   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
10  libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
11  libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 17:: ThreadPoolSingleThreadSharedBackgroundBlocking1
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abadd5f 0x126cb9000 + 66014559
4   QtWebEngineCore               	0x000000012abae53a 0x126cb9000 + 66016570
5   QtWebEngineCore               	0x000000012abae3ad 0x126cb9000 + 66016173
6   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
7   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
8   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 18:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas64_.0.dylib        	0x000000010e7a549f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 19:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas64_.0.dylib        	0x000000010e7a549f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 20:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas64_.0.dylib        	0x000000010e7a549f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 21:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas64_.0.dylib        	0x000000010e7a549f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 22:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas64_.0.dylib        	0x000000010e7a549f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 23:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas64_.0.dylib        	0x000000010e7a549f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 24:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas64_.0.dylib        	0x000000010e7a549f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 25:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 26:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 27:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 28:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 29:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 30:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 31:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 32:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   interpreter.cpython-39-darwin.so	0x0000000151986fe3 th_worker(void*) + 115
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 33:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas.0.dylib           	0x0000000153242a9f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 34:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas.0.dylib           	0x0000000153242a9f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 35:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas.0.dylib           	0x0000000153242a9f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 36:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas.0.dylib           	0x0000000153242a9f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 37:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas.0.dylib           	0x0000000153242a9f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 38:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas.0.dylib           	0x0000000153242a9f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 39:
0   libsystem_kernel.dylib        	0x00007fff6e063882 __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff6e124425 _pthread_cond_wait + 698
2   libopenblas.0.dylib           	0x0000000153242a9f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
4   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 40:
0   libsystem_pthread.dylib       	0x00007fff6e11fb68 start_wqthread + 0

Thread 41:
0   libsystem_pthread.dylib       	0x00007fff6e11fb68 start_wqthread + 0

Thread 42:
0   libsystem_pthread.dylib       	0x00007fff6e11fb68 start_wqthread + 0

Thread 43:: ThreadPoolBackgroundWorker
0   libsystem_kernel.dylib        	0x00007fff6e060dfa mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff6e061170 mach_msg + 60
2   QtWebEngineCore               	0x000000012abe99c6 0x126cb9000 + 66259398
3   QtWebEngineCore               	0x000000012abadd5f 0x126cb9000 + 66014559
4   QtWebEngineCore               	0x000000012abae53a 0x126cb9000 + 66016570
5   QtWebEngineCore               	0x000000012abae37d 0x126cb9000 + 66016125
6   QtWebEngineCore               	0x000000012abe24a8 0x126cb9000 + 66229416
7   libsystem_pthread.dylib       	0x00007fff6e124109 _pthread_start + 148
8   libsystem_pthread.dylib       	0x00007fff6e11fb8b thread_start + 15

Thread 44:
0   libsystem_pthread.dylib       	0x00007fff6e11fb68 start_wqthread + 0

Thread 0 crashed with X86 Thread State (64-bit):
  rax: 0x0000000000000000  rbx: 0x0000000119470dc0  rcx: 0x00007fcc38067a58  rdx: 0x0000000000000000
  rdi: 0x0000000000000307  rsi: 0x000000000000000b  rbp: 0x00007fcc38067a80  rsp: 0x00007fcc38067a58
   r8: 0x00007fcc38067f48   r9: 0x9a7a1a999613816f  r10: 0x0000000119470dc0  r11: 0x0000000000000246
  r12: 0x0000000000000307  r13: 0x0000000000000000  r14: 0x000000000000000b  r15: 0x0000000000000016
  rip: 0x00007fff6e06733a  rfl: 0x0000000000000246  cr2: 0x00007fcc381075b0
  
Logical CPU:     0
Error Code:      0x02000148
Trap Number:     133


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    0x7fff67e89000 -     0x7fff67e95ffd  com.apple.perfdata (1.0 - 51.100.6)  /System/Library/PrivateFrameworks/perfdata.framework/Versions/A/perfdata
    0x7fff67e96000 -     0x7fff67ec7ffd  com.apple.contacts.vCard (1.0 - 3455.18)  /System/Library/PrivateFrameworks/vCard.framework/Versions/A/vCard
    0x7fff6a91a000 -     0x7fff6a926ff9  libAudioStatistics.dylib (1104.93)  /usr/lib/libAudioStatistics.dylib
    0x7fff6a927000 -     0x7fff6a95affa  libAudioToolboxUtility.dylib (1104.93)  /usr/lib/libAudioToolboxUtility.dylib
    0x7fff6a961000 -     0x7fff6a995fff  libCRFSuite.dylib (48)  /usr/lib/libCRFSuite.dylib
    0x7fff6a998000 -     0x7fff6a9a2fff  libChineseTokenizer.dylib (34)  /usr/lib/libChineseTokenizer.dylib
    0x7fff6a9a3000 -     0x7fff6aa2bfff  libCoreStorage.dylib (551)  /usr/lib/libCoreStorage.dylib
    0x7fff6aa2e000 -     0x7fff6aa30ff7  libDiagnosticMessagesClient.dylib (112)  /usr/lib/libDiagnosticMessagesClient.dylib
    0x7fff6aa76000 -     0x7fff6ac2dffb  libFosl_dynamic.dylib (100.4)  /usr/lib/libFosl_dynamic.dylib
    0x7fff6ac54000 -     0x7fff6ac5aff3  libIOReport.dylib (54)  /usr/lib/libIOReport.dylib
    0x7fff6ad3c000 -     0x7fff6ad43fff  libMatch.1.dylib (36)  /usr/lib/libMatch.1.dylib
    0x7fff6ad72000 -     0x7fff6ad92ff7  libMobileGestalt.dylib (826.140.5)  /usr/lib/libMobileGestalt.dylib
    0x7fff6ae12000 -     0x7fff6aeefff7  libSMC.dylib (20)  /usr/lib/libSMC.dylib
    0x7fff6af04000 -     0x7fff6af05fff  libSystem.B.dylib (1281.100.1)  /usr/lib/libSystem.B.dylib
    0x7fff6af06000 -     0x7fff6af91ff7  libTelephonyUtilDynamic.dylib (5017.1)  /usr/lib/libTelephonyUtilDynamic.dylib
    0x7fff6af92000 -     0x7fff6af93fff  libThaiTokenizer.dylib (3)  /usr/lib/libThaiTokenizer.dylib
    0x7fff6afab000 -     0x7fff6afc1fff  libapple_nghttp2.dylib (1.39.2)  /usr/lib/libapple_nghttp2.dylib
    0x7fff6aff6000 -     0x7fff6b068ff7  libarchive.2.dylib (72.140.1)  /usr/lib/libarchive.2.dylib
    0x7fff6b069000 -     0x7fff6b102fe5  libate.dylib (3.0.1)  /usr/lib/libate.dylib
    0x7fff6b106000 -     0x7fff6b106ff3  libauto.dylib (187)  /usr/lib/libauto.dylib
    0x7fff6b107000 -     0x7fff6b1cbffe  libboringssl.dylib (283.120.1)  /usr/lib/libboringssl.dylib
    0x7fff6b1cc000 -     0x7fff6b1dcffb  libbsm.0.dylib (60.100.1)  /usr/lib/libbsm.0.dylib
    0x7fff6b1dd000 -     0x7fff6b1e9fff  libbz2.1.0.dylib (44)  /usr/lib/libbz2.1.0.dylib
    0x7fff6b1ea000 -     0x7fff6b23cfff  libc++.1.dylib (902.1)  /usr/lib/libc++.1.dylib
    0x7fff6b23d000 -     0x7fff6b252ffb  libc++abi.dylib (902)  /usr/lib/libc++abi.dylib
    0x7fff6b253000 -     0x7fff6b253fff  libcharset.1.dylib (59)  /usr/lib/libcharset.1.dylib
    0x7fff6b254000 -     0x7fff6b265fff  libcmph.dylib (8)  /usr/lib/libcmph.dylib
    0x7fff6b266000 -     0x7fff6b27dfd7  libcompression.dylib (87)  /usr/lib/libcompression.dylib
    0x7fff6b557000 -     0x7fff6b56dff7  libcoretls.dylib (167)  /usr/lib/libcoretls.dylib
    0x7fff6b56e000 -     0x7fff6b56ffff  libcoretls_cfhelpers.dylib (167)  /usr/lib/libcoretls_cfhelpers.dylib
    0x7fff6bb19000 -     0x7fff6bb24fff  libcsfde.dylib (551)  /usr/lib/libcsfde.dylib
    0x7fff6bb2c000 -     0x7fff6bb8bff7  libcups.2.dylib (483.6)  /usr/lib/libcups.2.dylib
    0x7fff6bc95000 -     0x7fff6bc95fff  libenergytrace.dylib (21)  /usr/lib/libenergytrace.dylib
    0x7fff6bc96000 -     0x7fff6bcaefff  libexpat.1.dylib (19.60.2)  /usr/lib/libexpat.1.dylib
    0x7fff6bcaf000 -     0x7fff6bcbbffb  libexslt.0.dylib (16.9)  /usr/lib/libexslt.0.dylib
    0x7fff6bcbc000 -     0x7fff6bcbefff  libfakelink.dylib (149.1)  /usr/lib/libfakelink.dylib
    0x7fff6bcbf000 -     0x7fff6bcc4f57  libffi.dylib (26)  /usr/lib/libffi.dylib
    0x7fff6bccd000 -     0x7fff6bcd2fff  libgermantok.dylib (24)  /usr/lib/libgermantok.dylib
    0x7fff6bcd3000 -     0x7fff6bcdcff7  libheimdal-asn1.dylib (564.140.1)  /usr/lib/libheimdal-asn1.dylib
    0x7fff6bcdd000 -     0x7fff6bdcdfff  libiconv.2.dylib (59)  /usr/lib/libiconv.2.dylib
    0x7fff6bdce000 -     0x7fff6c025fff  libicucore.A.dylib (64260.0.1)  /usr/lib/libicucore.A.dylib
    0x7fff6c03f000 -     0x7fff6c040fff  liblangid.dylib (133)  /usr/lib/liblangid.dylib
    0x7fff6c041000 -     0x7fff6c059ff3  liblzma.5.dylib (16)  /usr/lib/liblzma.5.dylib
    0x7fff6c071000 -     0x7fff6c118ff7  libmecab.dylib (883.11)  /usr/lib/libmecab.dylib
    0x7fff6c119000 -     0x7fff6c37bff1  libmecabra.dylib (883.11)  /usr/lib/libmecabra.dylib
    0x7fff6c6e8000 -     0x7fff6c717fff  libncurses.5.4.dylib (57)  /usr/lib/libncurses.5.4.dylib
    0x7fff6c847000 -     0x7fff6ccc3ff5  libnetwork.dylib (1880.120.4)  /usr/lib/libnetwork.dylib
    0x7fff6ccc4000 -     0x7fff6ccdbfff  libnetworkextension.dylib (1095.140.2)  /usr/lib/libnetworkextension.dylib
    0x7fff6cd64000 -     0x7fff6cd97fde  libobjc.A.dylib (787.1)  /usr/lib/libobjc.A.dylib
    0x7fff6cdaa000 -     0x7fff6cdaefff  libpam.2.dylib (25.100.1)  /usr/lib/libpam.2.dylib
    0x7fff6cdb1000 -     0x7fff6cde7ff7  libpcap.A.dylib (89.120.1)  /usr/lib/libpcap.A.dylib
    0x7fff6ce27000 -     0x7fff6ce35ff9  libperfcheck.dylib (37.100.2)  /usr/lib/libperfcheck.dylib
    0x7fff6ce36000 -     0x7fff6ce39ff3  libpmenergy.dylib (214.120.1)  /usr/lib/libpmenergy.dylib
    0x7fff6ce3a000 -     0x7fff6ce3cfff  libpmsample.dylib (214.120.1)  /usr/lib/libpmsample.dylib
    0x7fff6ce6b000 -     0x7fff6ce83fff  libresolv.9.dylib (67.40.1)  /usr/lib/libresolv.9.dylib
    0x7fff6ce85000 -     0x7fff6cec9ff7  libsandbox.1.dylib (1217.141.2)  /usr/lib/libsandbox.1.dylib
    0x7fff6cedd000 -     0x7fff6cedeff7  libspindump.dylib (281.3)  /usr/lib/libspindump.dylib
    0x7fff6cedf000 -     0x7fff6d0c9ff7  libsqlite3.dylib (308.5)  /usr/lib/libsqlite3.dylib
    0x7fff6d26c000 -     0x7fff6d29dff7  libtidy.A.dylib (17.2)  /usr/lib/libtidy.A.dylib
    0x7fff6d2bf000 -     0x7fff6d319ff8  libusrtcp.dylib (1880.120.4)  /usr/lib/libusrtcp.dylib
    0x7fff6d31a000 -     0x7fff6d31dffb  libutil.dylib (57)  /usr/lib/libutil.dylib
    0x7fff6d31e000 -     0x7fff6d32bff7  libxar.1.dylib (425.2)  /usr/lib/libxar.1.dylib
    0x7fff6d331000 -     0x7fff6d413fff  libxml2.2.dylib (33.5)  /usr/lib/libxml2.2.dylib
    0x7fff6d417000 -     0x7fff6d43ffff  libxslt.1.dylib (16.9)  /usr/lib/libxslt.1.dylib
    0x7fff6d440000 -     0x7fff6d452ff3  libz.1.dylib (76)  /usr/lib/libz.1.dylib
    0x7fff6dd01000 -     0x7fff6dd06ff3  libcache.dylib (83)  /usr/lib/system/libcache.dylib
    0x7fff6dd07000 -     0x7fff6dd12fff  libcommonCrypto.dylib (60165.120.1)  /usr/lib/system/libcommonCrypto.dylib
    0x7fff6dd13000 -     0x7fff6dd1afff  libcompiler_rt.dylib (101.2)  /usr/lib/system/libcompiler_rt.dylib
    0x7fff6dd1b000 -     0x7fff6dd24ff7  libcopyfile.dylib (166.40.1)  /usr/lib/system/libcopyfile.dylib
    0x7fff6dd25000 -     0x7fff6ddb7fdb  libcorecrypto.dylib (866.140.1)  /usr/lib/system/libcorecrypto.dylib
    0x7fff6dec4000 -     0x7fff6df04ff0  libdispatch.dylib (1173.100.2)  /usr/lib/system/libdispatch.dylib
    0x7fff6df05000 -     0x7fff6df3bfff  libdyld.dylib (750.6)  /usr/lib/system/libdyld.dylib
    0x7fff6df3c000 -     0x7fff6df3cffb  libkeymgr.dylib (30)  /usr/lib/system/libkeymgr.dylib
    0x7fff6df3d000 -     0x7fff6df49ff3  libkxld.dylib (6153.141.2.2)  /usr/lib/system/libkxld.dylib
    0x7fff6df4a000 -     0x7fff6df4aff7  liblaunch.dylib (1738.140.1)  /usr/lib/system/liblaunch.dylib
    0x7fff6df4b000 -     0x7fff6df50ff7  libmacho.dylib (959.0.1)  /usr/lib/system/libmacho.dylib
    0x7fff6df51000 -     0x7fff6df53ff3  libquarantine.dylib (110.40.3)  /usr/lib/system/libquarantine.dylib
    0x7fff6df54000 -     0x7fff6df55ff7  libremovefile.dylib (48)  /usr/lib/system/libremovefile.dylib
    0x7fff6df56000 -     0x7fff6df6dff3  libsystem_asl.dylib (377.60.2)  /usr/lib/system/libsystem_asl.dylib
    0x7fff6df6e000 -     0x7fff6df6eff7  libsystem_blocks.dylib (74)  /usr/lib/system/libsystem_blocks.dylib
    0x7fff6df6f000 -     0x7fff6dff6fff  libsystem_c.dylib (1353.100.2)  /usr/lib/system/libsystem_c.dylib
    0x7fff6dff7000 -     0x7fff6dffaffb  libsystem_configuration.dylib (1061.141.1)  /usr/lib/system/libsystem_configuration.dylib
    0x7fff6dffb000 -     0x7fff6dffefff  libsystem_coreservices.dylib (114)  /usr/lib/system/libsystem_coreservices.dylib
    0x7fff6dfff000 -     0x7fff6e007fff  libsystem_darwin.dylib (1353.100.2)  /usr/lib/system/libsystem_darwin.dylib
    0x7fff6e008000 -     0x7fff6e00ffff  libsystem_dnssd.dylib (1096.100.3)  /usr/lib/system/libsystem_dnssd.dylib
    0x7fff6e010000 -     0x7fff6e011ffb  libsystem_featureflags.dylib (17)  /usr/lib/system/libsystem_featureflags.dylib
    0x7fff6e012000 -     0x7fff6e05fff7  libsystem_info.dylib (538)  /usr/lib/system/libsystem_info.dylib
    0x7fff6e060000 -     0x7fff6e08cff7  libsystem_kernel.dylib (6153.141.2.2)  /usr/lib/system/libsystem_kernel.dylib
    0x7fff6e08d000 -     0x7fff6e0d4fff  libsystem_m.dylib (3178)  /usr/lib/system/libsystem_m.dylib
    0x7fff6e0d5000 -     0x7fff6e0fcfff  libsystem_malloc.dylib (283.100.6)  /usr/lib/system/libsystem_malloc.dylib
    0x7fff6e0fd000 -     0x7fff6e10affb  libsystem_networkextension.dylib (1095.140.2)  /usr/lib/system/libsystem_networkextension.dylib
    0x7fff6e10b000 -     0x7fff6e114ff7  libsystem_notify.dylib (241.100.2)  /usr/lib/system/libsystem_notify.dylib
    0x7fff6e115000 -     0x7fff6e11dfef  libsystem_platform.dylib (220.100.1)  /usr/lib/system/libsystem_platform.dylib
    0x7fff6e11e000 -     0x7fff6e128fff  libsystem_pthread.dylib (416.100.3)  /usr/lib/system/libsystem_pthread.dylib
    0x7fff6e129000 -     0x7fff6e12dff3  libsystem_sandbox.dylib (1217.141.2)  /usr/lib/system/libsystem_sandbox.dylib
    0x7fff6e12e000 -     0x7fff6e130fff  libsystem_secinit.dylib (62.100.2)  /usr/lib/system/libsystem_secinit.dylib
    0x7fff6e131000 -     0x7fff6e138ffb  libsystem_symptoms.dylib (1238.120.1)  /usr/lib/system/libsystem_symptoms.dylib
    0x7fff6e139000 -     0x7fff6e14fff2  libsystem_trace.dylib (1147.120)  /usr/lib/system/libsystem_trace.dylib
    0x7fff6e151000 -     0x7fff6e156ff7  libunwind.dylib (35.4)  /usr/lib/system/libunwind.dylib
    0x7fff6e157000 -     0x7fff6e18cffe  libxpc.dylib (1738.140.1)  /usr/lib/system/libxpc.dylib

External Modification Summary:
  Calls made by other processes targeting this process:
    task_for_pid: 2
    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: 125781
    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=3.8G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=3.8G(100%)
 
                                VIRTUAL   REGION 
REGION TYPE                        SIZE    COUNT (non-coalesced) 
===========                     =======  ======= 
Accelerate framework               384K        3 
Activity Tracing                   256K        1 
CG backing stores                 9192K       14 
CG image                          7068K       32 
CoreAnimation                      848K       26 
CoreGraphics                         8K        1 
CoreImage                           32K        4 
CoreServices                       216K        1 
CoreUI image data                 2980K       31 
Foundation                           4K        1 
Kernel Alloc Once                    8K        1 
MALLOC                             1.4G      228 
MALLOC guard page                   48K       10 
MALLOC_MEDIUM (reserved)           1.5G       15         reserved VM address space (unallocated)
MALLOC_NANO (reserved)           256.0M        1         reserved VM address space (unallocated)
Mach message                        16K        3 
OpenGL GLSL                        384K        4 
STACK GUARD                        176K       44 
Stack                            157.8M       45 
Stack Guard                       56.0M        1 
VM_ALLOCATE                      177.1M      147 
VM_ALLOCATE (reserved)           352.0M        2         reserved VM address space (unallocated)
__DATA                            83.4M      763 
__DATA_CONST                       180K       10 
__FONT_DATA                          4K        1 
__GLSLBUILTINS                    5176K        1 
__LINKEDIT                       439.3M      375 
__OBJC_RO                         32.3M        1 
__OBJC_RW                         1908K        2 
__TEXT                           747.0M      708 
__UNICODE                          564K        1 
mapped file                       96.8M       59 
shared memory                     2856K       27 
===========                     =======  ======= 
TOTAL                              5.3G     2563 
TOTAL, minus reserved VM space     3.1G     2563 

===== Log before crash start =====
UCSF ChimeraX version: 1.4 (2022-06-03)  
© 2016-2022 Regents of the University of California. All rights reserved.  

> open /Users/elena/Desktop/figures_TAC/xl-ms-alphafold.cxs

Log from Sat Sep 24 18:59:33 2022UCSF ChimeraX version: 1.4 (2022-06-03)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/elena/Desktop/Ring1b-BMI1-models-coot/refined-coot-5.pdb

refined-coot-5.pdb title:  
Molrep --- /vers 11.9.02; 28.02.2022/ [more info...]  
  
Chain information for refined-coot-5.pdb #1  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
D H | No description available  
E | No description available  
F | No description available  
G | No description available  
I | No description available  
J | No description available  
K | No description available  
L | No description available  
  

> show atoms

> show cartoons

> hide atoms

> lighting simple

> open /Users/elena/Desktop/figures_TAC/ranked_0.pdb

Chain information for ranked_0.pdb #2  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  

> matchmaker #2 to #1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker refined-coot-5.pdb, chain L (#1) with ranked_0.pdb, chain B (#2),
sequence alignment score = 474.6  
RMSD between 95 pruned atom pairs is 0.917 angstroms; (across all 101 pairs:
1.217)  
  

> ui tool show "Show Sequence Viewer"

> sequence chain #2/B

Alignment identifier is 2/B  

> sequence chain #2/A

Alignment identifier is 2/A  

> sequence chain #2/C

Alignment identifier is 2/C  

> select #2/C:335

18 atoms, 18 bonds, 1 residue, 1 model selected  

> select #2/C:1-335

5299 atoms, 5359 bonds, 335 residues, 1 model selected  

> ui tool show "Color Actions"

> color sel khaki

> select clear

> select #2/B:340

23 atoms, 22 bonds, 1 residue, 1 model selected  

> select #2/B:91-340

3885 atoms, 3917 bonds, 250 residues, 1 model selected  

> select #2/B:1

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #2/B:1-260

3984 atoms, 4013 bonds, 260 residues, 1 model selected  

> select #2/B:340

23 atoms, 22 bonds, 1 residue, 1 model selected  

> select #2/B:1-340

5277 atoms, 5320 bonds, 340 residues, 1 model selected  

> ui tool show "Color Actions"

[Repeated 1 time(s)]

> color sel cadet blue

> select clear

> select #2/A:1

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #2/A:1-162

2554 atoms, 2591 bonds, 162 residues, 1 model selected  

> ui tool show "Color Actions"

> color sel rosy brown

> select clear

[Repeated 1 time(s)]

> ui tool show "Show Sequence Viewer"

> sequence chain #1/K

Alignment identifier is 1/K  

> sequence chain #1/L

Alignment identifier is 1/L  

> select #1/L:115

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/L:15-115

787 atoms, 801 bonds, 101 residues, 1 model selected  

> select #1/K:98

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/K:5-98

754 atoms, 769 bonds, 94 residues, 1 model selected  

> delete sel

> select #1/L:115

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/L:15-115

787 atoms, 801 bonds, 101 residues, 1 model selected  

> delete sel

> combine #1 #2

Remapping chain ID 'A' in ranked_0.pdb #2 to 'K'  
Remapping chain ID 'B' in ranked_0.pdb #2 to 'L'  
Remapping chain ID 'C' in ranked_0.pdb #2 to 'M'  

> save /Users/elena/Desktop/figures_TAC/xl-ms-alphafold.cxs

——— End of log from Sat Sep 24 18:59:33 2022 ———

opened ChimeraX session  

> select #2/C:1

19 atoms, 18 bonds, 1 residue, 1 model selected  

> select #2/C:1-61

986 atoms, 996 bonds, 61 residues, 1 model selected  

> hide #!1 models

> hide #2 models

> ui tool show XMAS

Please select pseudobonds  
Please select pseudobonds  
  
Peptide pair mapping of XlinkX evidence file:
/Users/elena/Downloads/20220909_EXPL6_NiKr_LC12-16_SA_Orbi4324_Sample02_fractionation_Crosslinks.txt  
Unique peptide pairs: 108 out of 108  
Unique peptide pairs with pseudobonds: 60  
Pseudobonds are stored in
/Users/elena/Downloads/20220909_EXPL6_NiKr_LC12-16_SA_Orbi4324_Sample02_fractionation_Crosslinks_3.pb  
Mapping information is stored in
/Users/elena/Downloads/20220909_EXPL6_NiKr_LC12-16_SA_Orbi4324_Sample02_fractionation_Crosslinks_3.tsv  
Please select pseudobonds  
/Users/elena/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)  
/Users/elena/Library/Application Support/ChimeraX/1.4/site-
packages/chimerax/xmas/tool.py:1113: UserWarning: Tight layout not applied.
The left and right margins cannot be made large enough to accommodate all axes
decorations.  
plt.tight_layout()  

> select clear


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.4 (2022-06-03)  
© 2016-2022 Regents of the University of California. All rights reserved.  

> open /Users/elena/Desktop/figures_TAC/xl-ms-alphafold.cxs

Log from Sat Sep 24 18:59:33 2022UCSF ChimeraX version: 1.4 (2022-06-03)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/elena/Desktop/Ring1b-BMI1-models-coot/refined-coot-5.pdb

refined-coot-5.pdb title:  
Molrep --- /vers 11.9.02; 28.02.2022/ [more info...]  
  
Chain information for refined-coot-5.pdb #1  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
D H | No description available  
E | No description available  
F | No description available  
G | No description available  
I | No description available  
J | No description available  
K | No description available  
L | No description available  
  

> show atoms

> show cartoons

> hide atoms

> lighting simple

> open /Users/elena/Desktop/figures_TAC/ranked_0.pdb

Chain information for ranked_0.pdb #2  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  

> matchmaker #2 to #1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker refined-coot-5.pdb, chain L (#1) with ranked_0.pdb, chain B (#2),
sequence alignment score = 474.6  
RMSD between 95 pruned atom pairs is 0.917 angstroms; (across all 101 pairs:
1.217)  
  

> ui tool show "Show Sequence Viewer"

> sequence chain #2/B

Alignment identifier is 2/B  

> sequence chain #2/A

Alignment identifier is 2/A  

> sequence chain #2/C

Alignment identifier is 2/C  

> select #2/C:335

18 atoms, 18 bonds, 1 residue, 1 model selected  

> select #2/C:1-335

5299 atoms, 5359 bonds, 335 residues, 1 model selected  

> ui tool show "Color Actions"

> color sel khaki

> select clear

> select #2/B:340

23 atoms, 22 bonds, 1 residue, 1 model selected  

> select #2/B:91-340

3885 atoms, 3917 bonds, 250 residues, 1 model selected  

> select #2/B:1

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #2/B:1-260

3984 atoms, 4013 bonds, 260 residues, 1 model selected  

> select #2/B:340

23 atoms, 22 bonds, 1 residue, 1 model selected  

> select #2/B:1-340

5277 atoms, 5320 bonds, 340 residues, 1 model selected  

> ui tool show "Color Actions"

[Repeated 1 time(s)]

> color sel cadet blue

> select clear

> select #2/A:1

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #2/A:1-162

2554 atoms, 2591 bonds, 162 residues, 1 model selected  

> ui tool show "Color Actions"

> color sel rosy brown

> select clear

[Repeated 1 time(s)]

> ui tool show "Show Sequence Viewer"

> sequence chain #1/K

Alignment identifier is 1/K  

> sequence chain #1/L

Alignment identifier is 1/L  

> select #1/L:115

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/L:15-115

787 atoms, 801 bonds, 101 residues, 1 model selected  

> select #1/K:98

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/K:5-98

754 atoms, 769 bonds, 94 residues, 1 model selected  

> delete sel

> select #1/L:115

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/L:15-115

787 atoms, 801 bonds, 101 residues, 1 model selected  

> delete sel

> combine #1 #2

Remapping chain ID 'A' in ranked_0.pdb #2 to 'K'  
Remapping chain ID 'B' in ranked_0.pdb #2 to 'L'  
Remapping chain ID 'C' in ranked_0.pdb #2 to 'M'  

> save /Users/elena/Desktop/figures_TAC/xl-ms-alphafold.cxs

——— End of log from Sat Sep 24 18:59:33 2022 ———

opened ChimeraX session  




OpenGL version: 4.1 ATI-3.10.18
OpenGL renderer: AMD Radeon Pro 560X OpenGL Engine
OpenGL vendor: ATI Technologies 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: MacBook Pro
      Model Identifier: MacBookPro15,1
      Processor Name: 8-Core Intel Core i9
      Processor Speed: 2,4 GHz
      Number of Processors: 1
      Total Number of Cores: 8
      L2 Cache (per Core): 256 KB
      L3 Cache: 16 MB
      Hyper-Threading Technology: Enabled
      Memory: 32 GB
      Boot ROM Version: 1554.50.3.0.0 (iBridge: 18.16.12561.0.0,0)

Software:

    System Software Overview:

      System Version: macOS 10.15.7 (19H15)
      Kernel Version: Darwin 19.6.0
      Time since boot: 3 days 20:24

Graphics/Displays:

    Intel UHD Graphics 630:

      Chipset Model: Intel UHD Graphics 630
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x3e9b
      Revision ID: 0x0002
      Automatic Graphics Switching: Supported
      gMux Version: 5.0.0
      Metal: Supported, feature set macOS GPUFamily2 v1

    Radeon Pro 560X:

      Chipset Model: Radeon Pro 560X
      Type: GPU
      Bus: PCIe
      PCIe Lane Width: x8
      VRAM (Total): 4 GB
      Vendor: AMD (0x1002)
      Device ID: 0x67ef
      Revision ID: 0x00c2
      ROM Revision: 113-C980AL-075
      VBIOS Version: 113-C97501U-005
      EFI Driver Version: 01.A1.075
      Automatic Graphics Switching: Supported
      gMux Version: 5.0.0
      Metal: Supported, feature set macOS GPUFamily2 v1
      Displays:
        Color LCD:
          Display Type: Built-In Retina LCD
          Resolution: 2880 x 1800 Retina
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: No
          Connection Type: Internal
        LG HDR 4K:
          Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition)
          UI Looks like: 1920 x 1080 @ 60 Hz
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Mirror: Off
          Online: Yes
          Rotation: Supported
          Automatically Adjust Brightness: No
          Connection Type: Thunderbolt/DisplayPort


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 Eric Pettersen, 3 years ago

Cc:	Tom Goddard Richard Scheltema added
Component:	Unassigned → Window Toolkit
Owner:	set to Eric Pettersen
Platform:	→ all
Project:	→ ChimeraX
Status:	new → accepted
Summary:	ChimeraX bug report submission → Crash disposing of QGridLayout, possibly from XMAS, during garbage collection

comment:2 by Eric Pettersen, 3 years ago

Resolution:	→ can't reproduce
Status:	accepted → closed

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