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#5328 closed defect (can't reproduce)
Crash in AtomSearchTree implementation
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Structure Analysis | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| 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: 1.3.dev202109251824 (2021-09-25 18:24:47 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Process: ChimeraX [18326]
Path: /Volumes/VOLUME/*/ChimeraX-1.2.5.app/Contents/MacOS/ChimeraX
Identifier: ChimeraX
Version: ???
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: ChimeraX [18326]
User ID: 501
Date/Time: 2021-09-28 23:16:46.953 -0400
OS Version: Mac OS X 10.15.7 (19H2)
Report Version: 12
Bridge OS Version: 4.6 (17P6610)
Anonymous UUID: 14DA238E-DDD2-6AA3-AC40-9404AFB54528
Sleep/Wake UUID: 7644EDEB-4300-49AD-861E-16B4FFA3EC3C
Time Awake Since Boot: 66000 seconds
Time Since Wake: 6300 seconds
System Integrity Protection: enabled
Notes: Translocated Process
Crashed Thread: 0 CrBrowserMain Dispatch queue: com.apple.main-thread
Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000000
Exception Note: EXC_CORPSE_NOTIFY
VM Regions Near 0:
-->
__TEXT 000000010d69c000-000000010d69d000 [ 4K] r-x/r-x SM=COW /var/folders/*/ChimeraX-1.2.5.app/Contents/MacOS/ChimeraX
Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff70ea233a __pthread_kill + 10
1 libsystem_pthread.dylib 0x00007fff70f5ee60 pthread_kill + 430
2 libsystem_c.dylib 0x00007fff70db993e raise + 26
3 libsystem_platform.dylib 0x00007fff70f535fd _sigtramp + 29
4 ??? 000000000000000000 0 + 0
5 libatomsearch.dylib 0x000000014b4f8c74 _Node::_Node(std::__1::vector > const&, bool, double) + 116
6 libatomsearch.dylib 0x000000014b4f972f _Node::_Node(std::__1::vector > const&, bool, double) + 2863
7 libatomsearch.dylib 0x000000014b4f97c7 _Node::_Node(std::__1::vector > const&, bool, double) + 3015
8 libatomsearch.dylib 0x000000014b4f972f _Node::_Node(std::__1::vector > const&, bool, double) + 2863
9 libatomsearch.dylib 0x000000014b4f972f _Node::_Node(std::__1::vector > const&, bool, double) + 2863
10 libatomsearch.dylib 0x000000014b4f97c7 _Node::_Node(std::__1::vector > const&, bool, double) + 3015
11 libatomsearch.dylib 0x000000014b4f972f _Node::_Node(std::__1::vector > const&, bool, double) + 2863
12 libatomsearch.dylib 0x000000014b4f97c7 _Node::_Node(std::__1::vector > const&, bool, double) + 3015
13 libatomsearch.dylib 0x000000014b4f97c7 _Node::_Node(std::__1::vector > const&, bool, double) + 3015
14 libatomsearch.dylib 0x000000014b4f972f _Node::_Node(std::__1::vector > const&, bool, double) + 2863
15 libatomsearch.dylib 0x000000014b4f97c7 _Node::_Node(std::__1::vector > const&, bool, double) + 3015
16 libatomsearch.dylib 0x000000014b4f972f _Node::_Node(std::__1::vector > const&, bool, double) + 2863
17 libatomsearch.dylib 0x000000014b4f97c7 _Node::_Node(std::__1::vector > const&, bool, double) + 3015
18 libatomsearch.dylib 0x000000014b4f97c7 _Node::_Node(std::__1::vector > const&, bool, double) + 3015
19 libatomsearch.dylib 0x000000014b4f972f _Node::_Node(std::__1::vector > const&, bool, double) + 2863
20 libatomsearch.dylib 0x000000014b4f7f67 AtomSearchTree::AtomSearchTree(std::__1::vector > const&, bool, double) + 455
21 ast.cpython-38-darwin.so 0x000000014b839f0a __pyx_tp_new_8chimerax_11atom_search_3ast_CyAtomSearchTree(_typeobject*, _object*, _object*) + 2826
22 org.python.python 0x000000010d71a702 type_call + 50
23 org.python.python 0x000000010d6c7a85 _PyObject_MakeTpCall + 373
24 org.python.python 0x000000010d796665 call_function + 533
25 org.python.python 0x000000010d793598 _PyEval_EvalFrameDefault + 25976
26 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
27 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
28 org.python.python 0x000000010d79660c call_function + 444
29 org.python.python 0x000000010d793598 _PyEval_EvalFrameDefault + 25976
30 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
31 org.python.python 0x000000010d79660c call_function + 444
32 org.python.python 0x000000010d793505 _PyEval_EvalFrameDefault + 25829
33 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
34 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
35 org.python.python 0x000000010d6c7dad PyVectorcall_Call + 109
36 org.python.python 0x000000010d793978 _PyEval_EvalFrameDefault + 26968
37 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
38 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
39 org.python.python 0x000000010d6c7dad PyVectorcall_Call + 109
40 org.python.python 0x000000010d793978 _PyEval_EvalFrameDefault + 26968
41 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
42 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
43 org.python.python 0x000000010d6c7dad PyVectorcall_Call + 109
44 org.python.python 0x000000010d793978 _PyEval_EvalFrameDefault + 26968
45 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
46 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
47 org.python.python 0x000000010d6caa9a method_vectorcall + 170
48 org.python.python 0x000000010d79660c call_function + 444
49 org.python.python 0x000000010d793598 _PyEval_EvalFrameDefault + 25976
50 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
51 org.python.python 0x000000010d79660c call_function + 444
52 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
53 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
54 org.python.python 0x000000010d79660c call_function + 444
55 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
56 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
57 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
58 org.python.python 0x000000010d6c7dad PyVectorcall_Call + 109
59 org.python.python 0x000000010d793978 _PyEval_EvalFrameDefault + 26968
60 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
61 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
62 org.python.python 0x000000010d6caa9a method_vectorcall + 170
63 org.python.python 0x000000010d79660c call_function + 444
64 org.python.python 0x000000010d793598 _PyEval_EvalFrameDefault + 25976
65 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
66 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
67 org.python.python 0x000000010d79660c call_function + 444
68 org.python.python 0x000000010d793505 _PyEval_EvalFrameDefault + 25829
69 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
70 org.python.python 0x000000010d79660c call_function + 444
71 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
72 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
73 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
74 org.python.python 0x000000010d6c7dad PyVectorcall_Call + 109
75 QtCore.abi3.so 0x00000001169b0957 PyQtSlot::call(_object*, _object*) const + 39
76 QtCore.abi3.so 0x00000001169b0866 PyQtSlot::invoke(void**, _object*, void*, bool) const + 374
77 QtCore.abi3.so 0x00000001169b1455 PyQtSlotProxy::unislot(void**) + 85
78 QtCore.abi3.so 0x00000001169b13ca PyQtSlotProxy::qt_metacall(QMetaObject::Call, int, void**) + 58
79 QtCore 0x0000000116d94f6e void doActivate(QObject*, int, void**) + 1118
80 QtWidgets 0x00000001179291df QAbstractButtonPrivate::emitClicked() + 111
81 QtWidgets 0x0000000117929059 QAbstractButtonPrivate::click() + 233
82 QtWidgets 0x000000011792a20f QAbstractButton::mouseReleaseEvent(QMouseEvent*) + 271
83 QtWidgets.abi3.so 0x00000001173d5729 sipQPushButton::mouseReleaseEvent(QMouseEvent*) + 121
84 QtWidgets 0x0000000117879dfd QWidget::event(QEvent*) + 445
85 QtWidgets.abi3.so 0x00000001173d603f sipQPushButton::event(QEvent*) + 191
86 QtWidgets 0x000000011783f9ea QApplicationPrivate::notify_helper(QObject*, QEvent*) + 266
87 QtWidgets 0x0000000117842755 QApplication::notify(QObject*, QEvent*) + 6965
88 QtWidgets.abi3.so 0x00000001173f2db9 sipQApplication::notify(QObject*, QEvent*) + 233
89 QtCore 0x0000000116d61a34 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212
90 QtWidgets 0x0000000117840310 QApplicationPrivate::sendMouseEvent(QWidget*, QMouseEvent*, QWidget*, QWidget*, QWidget**, QPointer&, bool, bool) + 896
91 QtWidgets 0x0000000117899022 QWidgetWindow::handleMouseEvent(QMouseEvent*) + 3266
92 QtWidgets 0x00000001178976e9 QWidgetWindow::event(QEvent*) + 233
93 QtWidgets 0x000000011783f9ea QApplicationPrivate::notify_helper(QObject*, QEvent*) + 266
94 QtWidgets 0x0000000117840e11 QApplication::notify(QObject*, QEvent*) + 497
95 QtWidgets.abi3.so 0x00000001173f2db9 sipQApplication::notify(QObject*, QEvent*) + 233
96 QtCore 0x0000000116d61a34 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212
97 QtGui 0x0000000121bb7e2e QGuiApplicationPrivate::processMouseEvent(QWindowSystemInterfacePrivate::MouseEvent*) + 3534
98 QtGui 0x0000000121b9cd7b QWindowSystemInterface::sendWindowSystemEvents(QFlags) + 219
99 libqcocoa.dylib 0x000000012f85f260 QCocoaEventDispatcherPrivate::processPostedEvents() + 320
100 libqcocoa.dylib 0x000000012f85f9c8 QCocoaEventDispatcherPrivate::postedEventsSourceCallback(void*) + 40
101 com.apple.CoreFoundation 0x00007fff36e85d52 __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE0_PERFORM_FUNCTION__ + 17
102 com.apple.CoreFoundation 0x00007fff36e85cf1 __CFRunLoopDoSource0 + 103
103 com.apple.CoreFoundation 0x00007fff36e85b0b __CFRunLoopDoSources0 + 209
104 com.apple.CoreFoundation 0x00007fff36e8483a __CFRunLoopRun + 927
105 com.apple.CoreFoundation 0x00007fff36e83e3e CFRunLoopRunSpecific + 462
106 com.apple.HIToolbox 0x00007fff35ab0abd RunCurrentEventLoopInMode + 292
107 com.apple.HIToolbox 0x00007fff35ab06f4 ReceiveNextEventCommon + 359
108 com.apple.HIToolbox 0x00007fff35ab0579 _BlockUntilNextEventMatchingListInModeWithFilter + 64
109 com.apple.AppKit 0x00007fff340f6039 _DPSNextEvent + 883
110 com.apple.AppKit 0x00007fff340f4880 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1352
111 com.apple.AppKit 0x00007fff340e658e -[NSApplication run] + 658
112 libqcocoa.dylib 0x000000012f85e62f QCocoaEventDispatcher::processEvents(QFlags) + 2495
113 QtCore 0x0000000116d5dacf QEventLoop::exec(QFlags) + 431
114 QtCore 0x0000000116d62042 QCoreApplication::exec() + 130
115 QtWidgets.abi3.so 0x00000001174e4702 meth_QApplication_exec_(_object*, _object*) + 82
116 org.python.python 0x000000010d6c80c2 cfunction_call_varargs + 290
117 org.python.python 0x000000010d6c7a85 _PyObject_MakeTpCall + 373
118 org.python.python 0x000000010d796665 call_function + 533
119 org.python.python 0x000000010d79346e _PyEval_EvalFrameDefault + 25678
120 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
121 org.python.python 0x000000010d6caa9a method_vectorcall + 170
122 org.python.python 0x000000010d79660c call_function + 444
123 org.python.python 0x000000010d79346e _PyEval_EvalFrameDefault + 25678
124 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
125 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
126 org.python.python 0x000000010d79660c call_function + 444
127 org.python.python 0x000000010d793505 _PyEval_EvalFrameDefault + 25829
128 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
129 org.python.python 0x000000010d78cf44 PyEval_EvalCode + 100
130 org.python.python 0x000000010d78a332 builtin_exec + 626
131 org.python.python 0x000000010d7045ff cfunction_vectorcall_FASTCALL + 175
132 org.python.python 0x000000010d79660c call_function + 444
133 org.python.python 0x000000010d793505 _PyEval_EvalFrameDefault + 25829
134 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
135 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
136 org.python.python 0x000000010d79660c call_function + 444
137 org.python.python 0x000000010d793505 _PyEval_EvalFrameDefault + 25829
138 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
139 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
140 org.python.python 0x000000010d6c7dad PyVectorcall_Call + 109
141 org.python.python 0x000000010d7f9eb3 pymain_run_module + 195
142 org.python.python 0x000000010d7f9585 Py_RunMain + 1413
143 org.python.python 0x000000010d7f9bdf pymain_main + 223
144 org.python.python 0x000000010d7f9aeb Py_Main + 43
145 edu.ucsf.cgl.ChimeraX 0x000000010d69cdc8 main + 120
146 libdyld.dylib 0x00007fff70d5acc9 start + 1
Thread 1:: ThreadPoolServiceThread
0 libsystem_kernel.dylib 0x00007fff70ea4b96 kevent64 + 10
1 QtWebEngineCore 0x000000012505be6a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x000000012505bcc7 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
4 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
5 QtWebEngineCore 0x0000000124fefa94 base::internal::ServiceThread::Run(base::RunLoop*) + 20
6 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 2:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000124ff9778 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x0000000124ffa150 base::internal::WorkerThread::RunWorker() + 1024
5 QtWebEngineCore 0x0000000124ff9c44 base::internal::WorkerThread::RunBackgroundPooledWorker() + 20
6 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 3:: Chrome_IOThread
0 libsystem_kernel.dylib 0x00007fff70ea4b96 kevent64 + 10
1 QtWebEngineCore 0x000000012505be6a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x000000012505bcc7 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
4 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
5 QtWebEngineCore 0x0000000128f28f06 content::BrowserProcessSubThread::IOThreadRun(base::RunLoop*) + 102
6 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 4:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124f791db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 5:: CompositorTileWorker1
0 libsystem_kernel.dylib 0x00007fff70e9e882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff70f5f425 _pthread_cond_wait + 698
2 QtWebEngineCore 0x0000000125048e18 base::ConditionVariable::Wait() + 104
3 QtWebEngineCore 0x00000001263005f8 non-virtual thunk to cc::SingleThreadTaskGraphRunner::Run() + 56
4 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
5 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
6 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 6:: Chrome_InProcGpuThread
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000124f7920f base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 223
4 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
5 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
6 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 7:: Chrome_ChildIOThread
0 libsystem_kernel.dylib 0x00007fff70ea4b96 kevent64 + 10
1 QtWebEngineCore 0x000000012505be6a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x000000012505bcc7 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
4 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
5 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
6 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 8:: VizCompositorThread
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124f791db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 9:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124f791db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 10:: ThreadPoolSingleThreadForegroundBlocking0
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124ff976a base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 42
5 QtWebEngineCore 0x0000000124ffa150 base::internal::WorkerThread::RunWorker() + 1024
6 QtWebEngineCore 0x0000000124ff9d34 base::internal::WorkerThread::RunDedicatedWorker() + 20
7 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 11:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124f791db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 12:: MemoryInfra
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124f791db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 13:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124f791db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 14:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff36e85ef5 __CFRunLoopServiceMachPort + 247
3 com.apple.CoreFoundation 0x00007fff36e849c2 __CFRunLoopRun + 1319
4 com.apple.CoreFoundation 0x00007fff36e83e3e CFRunLoopRunSpecific + 462
5 com.apple.AppKit 0x00007fff34297954 _NSEventThread + 132
6 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
7 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 15:: ThreadPoolSingleThreadSharedBackgroundBlocking1
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124ff976a base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 42
5 QtWebEngineCore 0x0000000124ff9e3d base::internal::WorkerThread::RunWorker() + 237
6 QtWebEngineCore 0x0000000124ff9c74 base::internal::WorkerThread::RunBackgroundSharedWorker() + 20
7 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 16:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x00000001250512cf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000124f791db base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x0000000124fe462b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 139
6 QtWebEngineCore 0x0000000124fa87cb base::RunLoop::Run() + 395
7 QtWebEngineCore 0x0000000125003a7d base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 17:
0 libsystem_kernel.dylib 0x00007fff70e9e882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff70f5f425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010e7c027b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 18:
0 libsystem_kernel.dylib 0x00007fff70e9e882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff70f5f425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010e7c027b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 19:
0 libsystem_kernel.dylib 0x00007fff70e9e882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff70f5f425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010e7c027b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 20:
0 libsystem_kernel.dylib 0x00007fff70e9e882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff70f5f425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010e7c027b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 21:
0 libsystem_kernel.dylib 0x00007fff70e9e882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff70f5f425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010e7c027b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 22:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff70e9bdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff70e9c170 mach_msg + 60
2 QtWebEngineCore 0x0000000125051492 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 434
3 QtWebEngineCore 0x0000000124ff9778 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x0000000124ffa150 base::internal::WorkerThread::RunWorker() + 1024
5 QtWebEngineCore 0x0000000124ff9cd4 base::internal::WorkerThread::RunPooledWorker() + 20
6 QtWebEngineCore 0x000000012504ce07 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 23:
0 libsystem_pthread.dylib 0x00007fff70f5ab68 start_wqthread + 0
Thread 24:
0 libsystem_pthread.dylib 0x00007fff70f5ab68 start_wqthread + 0
Thread 25:
0 libsystem_pthread.dylib 0x00007fff70f5ab68 start_wqthread + 0
Thread 26:
0 libsystem_pthread.dylib 0x00007fff70f5ab68 start_wqthread + 0
Thread 27:
0 libsystem_pthread.dylib 0x00007fff70f5ab68 start_wqthread + 0
Thread 28:
0 libsystem_kernel.dylib 0x00007fff70e9e882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff70f5f425 _pthread_cond_wait + 698
2 org.python.python 0x000000010d7e9b2c PyThread_acquire_lock_timed + 700
3 org.python.python 0x000000010d836c4f acquire_timed + 111
4 org.python.python 0x000000010d836d60 lock_PyThread_acquire_lock + 48
5 org.python.python 0x000000010d6d0ef5 method_vectorcall_VARARGS_KEYWORDS + 373
6 org.python.python 0x000000010d79660c call_function + 444
7 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
8 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
9 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
10 org.python.python 0x000000010d79660c call_function + 444
11 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
12 org.python.python 0x000000010d797454 _PyEval_EvalCodeWithName + 2804
13 org.python.python 0x000000010d6c856e _PyFunction_Vectorcall + 270
14 org.python.python 0x000000010d79660c call_function + 444
15 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
16 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
17 org.python.python 0x000000010d79660c call_function + 444
18 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
19 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
20 org.python.python 0x000000010d79660c call_function + 444
21 org.python.python 0x000000010d79344a _PyEval_EvalFrameDefault + 25642
22 org.python.python 0x000000010d6c83d0 function_code_fastcall + 128
23 org.python.python 0x000000010d6caadb method_vectorcall + 235
24 org.python.python 0x000000010d6c7dad PyVectorcall_Call + 109
25 org.python.python 0x000000010d83664a t_bootstrap + 74
26 org.python.python 0x000000010d7e9619 pythread_wrapper + 25
27 libsystem_pthread.dylib 0x00007fff70f5f109 _pthread_start + 148
28 libsystem_pthread.dylib 0x00007fff70f5ab8b thread_start + 15
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x0000000117ff6dc0 rcx: 0x00007f8087355a58 rdx: 0x0000000000000000
rdi: 0x0000000000000307 rsi: 0x000000000000000b rbp: 0x00007f8087355a80 rsp: 0x00007f8087355a58
r8: 0x00007f8087355f48 r9: 0x0c50a48981c3af4f r10: 0x0000000117ff6dc0 r11: 0x0000000000000246
r12: 0x0000000000000307 r13: 0x0000000000000000 r14: 0x000000000000000b r15: 0x0000000000000016
rip: 0x00007fff70ea233a rfl: 0x0000000000000246 cr2: 0x000000014b8b1000
Logical CPU: 0
Error Code: 0x02000148
Trap Number: 133
Binary Images:
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0x7fff5c52b000 - 0x7fff5c530ff7 com.apple.LoginUICore (4.0 - 4.0) /System/Library/PrivateFrameworks/LoginUIKit.framework/Versions/A/Frameworks/LoginUICore.framework/Versions/A/LoginUICore
0x7fff5cd20000 - 0x7fff5cd23fff com.apple.Mangrove (1.0 - 25) /System/Library/PrivateFrameworks/Mangrove.framework/Versions/A/Mangrove
0x7fff5cee1000 - 0x7fff5cf07ffc com.apple.MarkupUI (1.0 - 325.9) /System/Library/PrivateFrameworks/MarkupUI.framework/Versions/A/MarkupUI
0x7fff5cf8c000 - 0x7fff5d016ff8 com.apple.MediaExperience (1.0 - 1) /System/Library/PrivateFrameworks/MediaExperience.framework/Versions/A/MediaExperience
0x7fff5d017000 - 0x7fff5d04afff com.apple.MediaKit (16 - 923) /System/Library/PrivateFrameworks/MediaKit.framework/Versions/A/MediaKit
0x7fff5d10f000 - 0x7fff5d4a5ff9 com.apple.MediaRemote (1.0 - 1) /System/Library/PrivateFrameworks/MediaRemote.framework/Versions/A/MediaRemote
0x7fff5d4a6000 - 0x7fff5d4e2ffc com.apple.MediaServices (1.0 - 1) /System/Library/PrivateFrameworks/MediaServices.framework/Versions/A/MediaServices
0x7fff5d7f0000 - 0x7fff5d83cfff com.apple.spotlight.metadata.utilities (1.0 - 2076.7) /System/Library/PrivateFrameworks/MetadataUtilities.framework/Versions/A/MetadataUtilities
0x7fff5d83d000 - 0x7fff5d90effa com.apple.gpusw.MetalTools (1.0 - 1) /System/Library/PrivateFrameworks/MetalTools.framework/Versions/A/MetalTools
0x7fff5d96c000 - 0x7fff5d985ff4 com.apple.MobileAssets (1.0 - 619.120.1) /System/Library/PrivateFrameworks/MobileAsset.framework/Versions/A/MobileAsset
0x7fff5db42000 - 0x7fff5db60fff com.apple.MobileKeyBag (2.0 - 1.0) /System/Library/PrivateFrameworks/MobileKeyBag.framework/Versions/A/MobileKeyBag
0x7fff5dc2c000 - 0x7fff5ddc2ffd com.apple.Montreal (1.0 - 121.1) /System/Library/PrivateFrameworks/Montreal.framework/Versions/A/Montreal
0x7fff5ddc3000 - 0x7fff5ddf3ff7 com.apple.MultitouchSupport.framework (3440.1 - 3440.1) /System/Library/PrivateFrameworks/MultitouchSupport.framework/Versions/A/MultitouchSupport
0x7fff5e2f3000 - 0x7fff5e2fdfff com.apple.NetAuth (6.2 - 6.2) /System/Library/PrivateFrameworks/NetAuth.framework/Versions/A/NetAuth
0x7fff5e3bf000 - 0x7fff5e3dbff0 com.apple.network.statistics.framework (1.2 - 1) /System/Library/PrivateFrameworks/NetworkStatistics.framework/Versions/A/NetworkStatistics
0x7fff5ed13000 - 0x7fff5ed5effb com.apple.OTSVG (1.0 - 643.1.5.1) /System/Library/PrivateFrameworks/OTSVG.framework/Versions/A/OTSVG
0x7fff5ff7b000 - 0x7fff5ff86ff2 com.apple.PerformanceAnalysis (1.243.2 - 243.2) /System/Library/PrivateFrameworks/PerformanceAnalysis.framework/Versions/A/PerformanceAnalysis
0x7fff5ff87000 - 0x7fff5ffafffb com.apple.persistentconnection (1.0 - 1.0) /System/Library/PrivateFrameworks/PersistentConnection.framework/Versions/A/PersistentConnection
0x7fff61a2a000 - 0x7fff61a5aff7 com.apple.pluginkit.framework (1.0 - 1) /System/Library/PrivateFrameworks/PlugInKit.framework/Versions/A/PlugInKit
0x7fff61a85000 - 0x7fff61a98ffc com.apple.PowerLog (1.0 - 1) /System/Library/PrivateFrameworks/PowerLog.framework/Versions/A/PowerLog
0x7fff62914000 - 0x7fff6296eff6 com.apple.ProtectedCloudStorage (1.0 - 1) /System/Library/PrivateFrameworks/ProtectedCloudStorage.framework/Versions/A/ProtectedCloudStorage
0x7fff6296f000 - 0x7fff62988ffb com.apple.ProtocolBuffer (1 - 274.24.9.16.3) /System/Library/PrivateFrameworks/ProtocolBuffer.framework/Versions/A/ProtocolBuffer
0x7fff62a9a000 - 0x7fff62a9dff4 com.apple.QuickLookNonBaseSystem (1.0 - 1) /System/Library/PrivateFrameworks/QuickLookNonBaseSystem.framework/Versions/A/QuickLookNonBaseSystem
0x7fff62a9e000 - 0x7fff62ac1ff0 com.apple.quicklook.QuickLookSupport (1.0 - 1) /System/Library/PrivateFrameworks/QuickLookSupport.framework/Versions/A/QuickLookSupport
0x7fff62b08000 - 0x7fff62b81ff3 com.apple.Rapport (1.9.5 - 195.2) /System/Library/PrivateFrameworks/Rapport.framework/Versions/A/Rapport
0x7fff62de8000 - 0x7fff62e11ff1 com.apple.RemoteViewServices (2.0 - 148) /System/Library/PrivateFrameworks/RemoteViewServices.framework/Versions/A/RemoteViewServices
0x7fff62f76000 - 0x7fff62fb1ff0 com.apple.RunningBoardServices (1.0 - 223.140.2) /System/Library/PrivateFrameworks/RunningBoardServices.framework/Versions/A/RunningBoardServices
0x7fff64892000 - 0x7fff64895ff5 com.apple.SecCodeWrapper (4.0 - 448.100.6) /System/Library/PrivateFrameworks/SecCodeWrapper.framework/Versions/A/SecCodeWrapper
0x7fff64a08000 - 0x7fff64b2ffff com.apple.Sharing (1526.37 - 1526.37) /System/Library/PrivateFrameworks/Sharing.framework/Versions/A/Sharing
0x7fff64b88000 - 0x7fff64ba6ff2 com.apple.shortcut (2.16 - 106) /System/Library/PrivateFrameworks/Shortcut.framework/Versions/A/Shortcut
0x7fff64ba7000 - 0x7fff64bc7ff5 com.apple.sidecar-core (1.0 - 209.40.4) /System/Library/PrivateFrameworks/SidecarCore.framework/Versions/A/SidecarCore
0x7fff64bc8000 - 0x7fff64bdaff0 com.apple.sidecar-ui (1.0 - 209.40.4) /System/Library/PrivateFrameworks/SidecarUI.framework/Versions/A/SidecarUI
0x7fff65f44000 - 0x7fff6623aff7 com.apple.SkyLight (1.600.0 - 451.4) /System/Library/PrivateFrameworks/SkyLight.framework/Versions/A/SkyLight
0x7fff66a87000 - 0x7fff66a95ffb com.apple.SpeechRecognitionCore (6.0.91.2 - 6.0.91.2) /System/Library/PrivateFrameworks/SpeechRecognitionCore.framework/Versions/A/SpeechRecognitionCore
0x7fff67171000 - 0x7fff671b2ff9 com.apple.StreamingZip (1.0 - 1) /System/Library/PrivateFrameworks/StreamingZip.framework/Versions/A/StreamingZip
0x7fff672c9000 - 0x7fff672d2ff7 com.apple.SymptomDiagnosticReporter (1.0 - 1238.120.1) /System/Library/PrivateFrameworks/SymptomDiagnosticReporter.framework/Versions/A/SymptomDiagnosticReporter
0x7fff67343000 - 0x7fff6736dffe com.apple.framework.SystemAdministration (1.0 - 1.0) /System/Library/PrivateFrameworks/SystemAdministration.framework/Versions/A/SystemAdministration
0x7fff67589000 - 0x7fff67599ff3 com.apple.TCC (1.0 - 1) /System/Library/PrivateFrameworks/TCC.framework/Versions/A/TCC
0x7fff67abe000 - 0x7fff67b84ff0 com.apple.TextureIO (3.10.9 - 3.10.9) /System/Library/PrivateFrameworks/TextureIO.framework/Versions/A/TextureIO
0x7fff67d1b000 - 0x7fff67d1cfff com.apple.TrustEvaluationAgent (2.0 - 33) /System/Library/PrivateFrameworks/TrustEvaluationAgent.framework/Versions/A/TrustEvaluationAgent
0x7fff67d54000 - 0x7fff67facff0 com.apple.UIFoundation (1.0 - 662) /System/Library/PrivateFrameworks/UIFoundation.framework/Versions/A/UIFoundation
0x7fff68043000 - 0x7fff68049ffe com.apple.URLFormatting (119 - 119.18) /System/Library/PrivateFrameworks/URLFormatting.framework/Versions/A/URLFormatting
0x7fff68c22000 - 0x7fff68c42ffc com.apple.UserManagement (1.0 - 1) /System/Library/PrivateFrameworks/UserManagement.framework/Versions/A/UserManagement
0x7fff699ee000 - 0x7fff69ad8ff8 com.apple.ViewBridge (464.1 - 464.1) /System/Library/PrivateFrameworks/ViewBridge.framework/Versions/A/ViewBridge
0x7fff69c7e000 - 0x7fff69c7ffff com.apple.WatchdogClient.framework (1.0 - 67.120.2) /System/Library/PrivateFrameworks/WatchdogClient.framework/Versions/A/WatchdogClient
0x7fff6a8af000 - 0x7fff6a8b2ffa com.apple.dt.XCTTargetBootstrap (1.0 - 16091) /System/Library/PrivateFrameworks/XCTTargetBootstrap.framework/Versions/A/XCTTargetBootstrap
0x7fff6a92c000 - 0x7fff6a93aff5 com.apple.audio.caulk (1.0 - 32.3) /System/Library/PrivateFrameworks/caulk.framework/Versions/A/caulk
0x7fff6ac7c000 - 0x7fff6ac7eff3 com.apple.loginsupport (1.0 - 1) /System/Library/PrivateFrameworks/login.framework/Versions/A/Frameworks/loginsupport.framework/Versions/A/loginsupport
0x7fff6ac7f000 - 0x7fff6ac92ffd com.apple.login (3.0 - 3.0) /System/Library/PrivateFrameworks/login.framework/Versions/A/login
0x7fff6acc4000 - 0x7fff6acd0ffd com.apple.perfdata (1.0 - 51.100.6) /System/Library/PrivateFrameworks/perfdata.framework/Versions/A/perfdata
0x7fff6d755000 - 0x7fff6d761ff9 libAudioStatistics.dylib (1104.93) /usr/lib/libAudioStatistics.dylib
0x7fff6d762000 - 0x7fff6d795ffa libAudioToolboxUtility.dylib (1104.93) /usr/lib/libAudioToolboxUtility.dylib
0x7fff6d79c000 - 0x7fff6d7d0fff libCRFSuite.dylib (48) /usr/lib/libCRFSuite.dylib
0x7fff6d7d3000 - 0x7fff6d7ddfff libChineseTokenizer.dylib (34) /usr/lib/libChineseTokenizer.dylib
0x7fff6d7de000 - 0x7fff6d866fff libCoreStorage.dylib (551) /usr/lib/libCoreStorage.dylib
0x7fff6d869000 - 0x7fff6d86bff7 libDiagnosticMessagesClient.dylib (112) /usr/lib/libDiagnosticMessagesClient.dylib
0x7fff6d8b1000 - 0x7fff6da68ffb libFosl_dynamic.dylib (100.4) /usr/lib/libFosl_dynamic.dylib
0x7fff6da8f000 - 0x7fff6da95ff3 libIOReport.dylib (54) /usr/lib/libIOReport.dylib
0x7fff6db77000 - 0x7fff6db7efff libMatch.1.dylib (36) /usr/lib/libMatch.1.dylib
0x7fff6dbad000 - 0x7fff6dbcdff7 libMobileGestalt.dylib (826.140.5) /usr/lib/libMobileGestalt.dylib
0x7fff6dc4d000 - 0x7fff6dd2aff7 libSMC.dylib (20) /usr/lib/libSMC.dylib
0x7fff6dd3f000 - 0x7fff6dd40fff libSystem.B.dylib (1281.100.1) /usr/lib/libSystem.B.dylib
0x7fff6dd41000 - 0x7fff6ddccff7 libTelephonyUtilDynamic.dylib (5017.1) /usr/lib/libTelephonyUtilDynamic.dylib
0x7fff6ddcd000 - 0x7fff6ddcefff libThaiTokenizer.dylib (3) /usr/lib/libThaiTokenizer.dylib
0x7fff6dde6000 - 0x7fff6ddfcfff libapple_nghttp2.dylib (1.39.2) /usr/lib/libapple_nghttp2.dylib
0x7fff6de31000 - 0x7fff6dea3ff7 libarchive.2.dylib (72.140.1) /usr/lib/libarchive.2.dylib
0x7fff6dea4000 - 0x7fff6df3dfe5 libate.dylib (3.0.1) /usr/lib/libate.dylib
0x7fff6df41000 - 0x7fff6df41ff3 libauto.dylib (187) /usr/lib/libauto.dylib
0x7fff6df42000 - 0x7fff6e006ffe libboringssl.dylib (283.120.1) /usr/lib/libboringssl.dylib
0x7fff6e007000 - 0x7fff6e017ffb libbsm.0.dylib (60.100.1) /usr/lib/libbsm.0.dylib
0x7fff6e018000 - 0x7fff6e024fff libbz2.1.0.dylib (44) /usr/lib/libbz2.1.0.dylib
0x7fff6e025000 - 0x7fff6e077fff libc++.1.dylib (902.1) /usr/lib/libc++.1.dylib
0x7fff6e078000 - 0x7fff6e08dffb libc++abi.dylib (902) /usr/lib/libc++abi.dylib
0x7fff6e08e000 - 0x7fff6e08efff libcharset.1.dylib (59) /usr/lib/libcharset.1.dylib
0x7fff6e08f000 - 0x7fff6e0a0fff libcmph.dylib (8) /usr/lib/libcmph.dylib
0x7fff6e0a1000 - 0x7fff6e0b8fd7 libcompression.dylib (87) /usr/lib/libcompression.dylib
0x7fff6e392000 - 0x7fff6e3a8ff7 libcoretls.dylib (167) /usr/lib/libcoretls.dylib
0x7fff6e3a9000 - 0x7fff6e3aafff libcoretls_cfhelpers.dylib (167) /usr/lib/libcoretls_cfhelpers.dylib
0x7fff6e84d000 - 0x7fff6e951fef libcrypto.44.dylib (47.140.1) /usr/lib/libcrypto.44.dylib
0x7fff6e954000 - 0x7fff6e95ffff libcsfde.dylib (551) /usr/lib/libcsfde.dylib
0x7fff6e967000 - 0x7fff6e9c6ff7 libcups.2.dylib (483.6) /usr/lib/libcups.2.dylib
0x7fff6e9c8000 - 0x7fff6ea2dff7 libcurl.4.dylib (118.120.2) /usr/lib/libcurl.4.dylib
0x7fff6ead0000 - 0x7fff6ead0fff libenergytrace.dylib (21) /usr/lib/libenergytrace.dylib
0x7fff6ead1000 - 0x7fff6eae9fff libexpat.1.dylib (19.60.2) /usr/lib/libexpat.1.dylib
0x7fff6eaf7000 - 0x7fff6eaf9fff libfakelink.dylib (149.1) /usr/lib/libfakelink.dylib
0x7fff6eb08000 - 0x7fff6eb0dfff libgermantok.dylib (24) /usr/lib/libgermantok.dylib
0x7fff6eb0e000 - 0x7fff6eb17ff7 libheimdal-asn1.dylib (564.140.1) /usr/lib/libheimdal-asn1.dylib
0x7fff6eb18000 - 0x7fff6ec08fff libiconv.2.dylib (59) /usr/lib/libiconv.2.dylib
0x7fff6ec09000 - 0x7fff6ee60fff libicucore.A.dylib (64260.0.1) /usr/lib/libicucore.A.dylib
0x7fff6ee7a000 - 0x7fff6ee7bfff liblangid.dylib (133) /usr/lib/liblangid.dylib
0x7fff6ee7c000 - 0x7fff6ee94ff3 liblzma.5.dylib (16) /usr/lib/liblzma.5.dylib
0x7fff6eeac000 - 0x7fff6ef53ff7 libmecab.dylib (883.11) /usr/lib/libmecab.dylib
0x7fff6ef54000 - 0x7fff6f1b6ff1 libmecabra.dylib (883.11) /usr/lib/libmecabra.dylib
0x7fff6f523000 - 0x7fff6f552fff libncurses.5.4.dylib (57) /usr/lib/libncurses.5.4.dylib
0x7fff6f682000 - 0x7fff6fafeff5 libnetwork.dylib (1880.120.4) /usr/lib/libnetwork.dylib
0x7fff6faff000 - 0x7fff6fb16fff libnetworkextension.dylib (1095.140.2) /usr/lib/libnetworkextension.dylib
0x7fff6fb9f000 - 0x7fff6fbd2fde libobjc.A.dylib (787.1) /usr/lib/libobjc.A.dylib
0x7fff6fbd3000 - 0x7fff6fbd4ff7 libodfde.dylib (26) /usr/lib/libodfde.dylib
0x7fff6fbe5000 - 0x7fff6fbe9fff libpam.2.dylib (25.100.1) /usr/lib/libpam.2.dylib
0x7fff6fbec000 - 0x7fff6fc22ff7 libpcap.A.dylib (89.120.1) /usr/lib/libpcap.A.dylib
0x7fff6fc62000 - 0x7fff6fc70ff9 libperfcheck.dylib (37.100.2) /usr/lib/libperfcheck.dylib
0x7fff6fc71000 - 0x7fff6fc74ff3 libpmenergy.dylib (214.120.1) /usr/lib/libpmenergy.dylib
0x7fff6fc75000 - 0x7fff6fc77fff libpmsample.dylib (214.120.1) /usr/lib/libpmsample.dylib
0x7fff6fca6000 - 0x7fff6fcbefff libresolv.9.dylib (67.40.1) /usr/lib/libresolv.9.dylib
0x7fff6fcc0000 - 0x7fff6fd04ff7 libsandbox.1.dylib (1217.141.2) /usr/lib/libsandbox.1.dylib
0x7fff6fd05000 - 0x7fff6fd17ff7 libsasl2.2.dylib (213.120.1) /usr/lib/libsasl2.2.dylib
0x7fff6fd18000 - 0x7fff6fd19ff7 libspindump.dylib (281.3) /usr/lib/libspindump.dylib
0x7fff6fd1a000 - 0x7fff6ff04ff7 libsqlite3.dylib (308.5) /usr/lib/libsqlite3.dylib
0x7fff6fff8000 - 0x7fff70025ffb libssl.46.dylib (47.140.1) /usr/lib/libssl.46.dylib
0x7fff700fa000 - 0x7fff70154ff8 libusrtcp.dylib (1880.120.4) /usr/lib/libusrtcp.dylib
0x7fff70155000 - 0x7fff70158ffb libutil.dylib (57) /usr/lib/libutil.dylib
0x7fff70159000 - 0x7fff70166ff7 libxar.1.dylib (425.2) /usr/lib/libxar.1.dylib
0x7fff7016c000 - 0x7fff7024efff libxml2.2.dylib (33.5) /usr/lib/libxml2.2.dylib
0x7fff70252000 - 0x7fff7027afff libxslt.1.dylib (16.9) /usr/lib/libxslt.1.dylib
0x7fff7027b000 - 0x7fff7028dff3 libz.1.dylib (76) /usr/lib/libz.1.dylib
0x7fff70b3c000 - 0x7fff70b41ff3 libcache.dylib (83) /usr/lib/system/libcache.dylib
0x7fff70b42000 - 0x7fff70b4dfff libcommonCrypto.dylib (60165.120.1) /usr/lib/system/libcommonCrypto.dylib
0x7fff70b4e000 - 0x7fff70b55fff libcompiler_rt.dylib (101.2) /usr/lib/system/libcompiler_rt.dylib
0x7fff70b56000 - 0x7fff70b5fff7 libcopyfile.dylib (166.40.1) /usr/lib/system/libcopyfile.dylib
0x7fff70b60000 - 0x7fff70bf2fdb libcorecrypto.dylib (866.140.1) /usr/lib/system/libcorecrypto.dylib
0x7fff70cff000 - 0x7fff70d3fff0 libdispatch.dylib (1173.100.2) /usr/lib/system/libdispatch.dylib
0x7fff70d40000 - 0x7fff70d76fff libdyld.dylib (750.6) /usr/lib/system/libdyld.dylib
0x7fff70d77000 - 0x7fff70d77ffb libkeymgr.dylib (30) /usr/lib/system/libkeymgr.dylib
0x7fff70d78000 - 0x7fff70d84ff3 libkxld.dylib (6153.141.2) /usr/lib/system/libkxld.dylib
0x7fff70d85000 - 0x7fff70d85ff7 liblaunch.dylib (1738.140.1) /usr/lib/system/liblaunch.dylib
0x7fff70d86000 - 0x7fff70d8bff7 libmacho.dylib (959.0.1) /usr/lib/system/libmacho.dylib
0x7fff70d8c000 - 0x7fff70d8eff3 libquarantine.dylib (110.40.3) /usr/lib/system/libquarantine.dylib
0x7fff70d8f000 - 0x7fff70d90ff7 libremovefile.dylib (48) /usr/lib/system/libremovefile.dylib
0x7fff70d91000 - 0x7fff70da8ff3 libsystem_asl.dylib (377.60.2) /usr/lib/system/libsystem_asl.dylib
0x7fff70da9000 - 0x7fff70da9ff7 libsystem_blocks.dylib (74) /usr/lib/system/libsystem_blocks.dylib
0x7fff70daa000 - 0x7fff70e31fff libsystem_c.dylib (1353.100.2) /usr/lib/system/libsystem_c.dylib
0x7fff70e32000 - 0x7fff70e35ffb libsystem_configuration.dylib (1061.141.1) /usr/lib/system/libsystem_configuration.dylib
0x7fff70e36000 - 0x7fff70e39fff libsystem_coreservices.dylib (114) /usr/lib/system/libsystem_coreservices.dylib
0x7fff70e3a000 - 0x7fff70e42fff libsystem_darwin.dylib (1353.100.2) /usr/lib/system/libsystem_darwin.dylib
0x7fff70e43000 - 0x7fff70e4afff libsystem_dnssd.dylib (1096.100.3) /usr/lib/system/libsystem_dnssd.dylib
0x7fff70e4b000 - 0x7fff70e4cffb libsystem_featureflags.dylib (17) /usr/lib/system/libsystem_featureflags.dylib
0x7fff70e4d000 - 0x7fff70e9aff7 libsystem_info.dylib (538) /usr/lib/system/libsystem_info.dylib
0x7fff70e9b000 - 0x7fff70ec7ff7 libsystem_kernel.dylib (6153.141.2) /usr/lib/system/libsystem_kernel.dylib
0x7fff70ec8000 - 0x7fff70f0ffff libsystem_m.dylib (3178) /usr/lib/system/libsystem_m.dylib
0x7fff70f10000 - 0x7fff70f37fff libsystem_malloc.dylib (283.100.6) /usr/lib/system/libsystem_malloc.dylib
0x7fff70f38000 - 0x7fff70f45ffb libsystem_networkextension.dylib (1095.140.2) /usr/lib/system/libsystem_networkextension.dylib
0x7fff70f46000 - 0x7fff70f4fff7 libsystem_notify.dylib (241.100.2) /usr/lib/system/libsystem_notify.dylib
0x7fff70f50000 - 0x7fff70f58fef libsystem_platform.dylib (220.100.1) /usr/lib/system/libsystem_platform.dylib
0x7fff70f59000 - 0x7fff70f63fff libsystem_pthread.dylib (416.100.3) /usr/lib/system/libsystem_pthread.dylib
0x7fff70f64000 - 0x7fff70f68ff3 libsystem_sandbox.dylib (1217.141.2) /usr/lib/system/libsystem_sandbox.dylib
0x7fff70f69000 - 0x7fff70f6bfff libsystem_secinit.dylib (62.100.2) /usr/lib/system/libsystem_secinit.dylib
0x7fff70f6c000 - 0x7fff70f73ffb libsystem_symptoms.dylib (1238.120.1) /usr/lib/system/libsystem_symptoms.dylib
0x7fff70f74000 - 0x7fff70f8aff2 libsystem_trace.dylib (1147.120) /usr/lib/system/libsystem_trace.dylib
0x7fff70f8c000 - 0x7fff70f91ff7 libunwind.dylib (35.4) /usr/lib/system/libunwind.dylib
0x7fff70f92000 - 0x7fff70fc7ffe libxpc.dylib (1738.140.1) /usr/lib/system/libxpc.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 11
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: 50115
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=1.0G resident=0K(0%) swapped_out_or_unallocated=1.0G(100%)
Writable regions: Total=2.0G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=2.0G(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 640K 5
Activity Tracing 256K 1
CG backing stores 1232K 2
CG image 460K 35
CoreAnimation 788K 25
CoreGraphics 8K 1
CoreImage 32K 4
CoreUI image data 3592K 29
Foundation 24K 2
Kernel Alloc Once 8K 1
MALLOC 1.3G 1483
MALLOC guard page 32K 7
MALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)
MALLOC_NANO (reserved) 256.0M 1 reserved VM address space (unallocated)
Mach message 40K 7
OpenGL GLSL 384K 5
STACK GUARD 112K 28
Stack 157.7M 29
Stack Guard 56.0M 1
VM_ALLOCATE 226.9M 315
VM_ALLOCATE (reserved) 64.0M 1 reserved VM address space (unallocated)
__DATA 66.5M 564
__DATA_CONST 132K 6
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 481.4M 148
__OBJC_RO 32.3M 1
__OBJC_RW 1904K 1
__TEXT 574.9M 528
__UNICODE 564K 1
mapped file 428.7M 81
shared memory 2980K 29
=========== ======= =======
TOTAL 3.6G 3344
TOTAL, minus reserved VM space 3.3G 3344
System Profile:
Network Service: Wi-Fi, AirPort, en0
bridge_os_version: Bridge OS 4.6 (17P6610)
Boot Volume File System Type: apfs
bridge_model: iBridge2,14
Memory Module: BANK 0/ChannelA-DIMM0, 8 GB, DDR4, 2667 MHz, Micron, 8ATF1G64HZ-2G6E1
Memory Module: BANK 2/ChannelB-DIMM0, 8 GB, DDR4, 2667 MHz, Micron, 8ATF1G64HZ-2G6E1
USB Device: USB 3.1 Bus
USB Device: Apple T2 Bus
USB Device: Composite Device
USB Device: Touch Bar Backlight
USB Device: Touch Bar Display
USB Device: Apple Internal Keyboard / Trackpad
USB Device: Headset
USB Device: Ambient Light Sensor
USB Device: FaceTime HD Camera (Built-in)
USB Device: Apple T2 Controller
Thunderbolt Bus: MacBook Pro, Apple Inc., 55.3
Thunderbolt Bus: MacBook Pro, Apple Inc., 55.3
Model: MacBookPro16,1, BootROM 1037.147.4.0.0 (iBridge: 17.16.16610.0.0,0), 6 processors, 6-Core Intel Core i7, 2.6 GHz, 16 GB, SMC
Graphics: kHW_IntelUHDGraphics630Item, Intel UHD Graphics 630, spdisplays_builtin
Graphics: kHW_AMDRadeonPro5300MItem, AMD Radeon Pro 5300M, spdisplays_pcie_device, 4 GB
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x7BF), wl0: Apr 7 2020 13:09:12 version 9.30.357.41.32.5.49 FWID 01-617711e7
Bluetooth: Version 7.0.6f7, 3 services, 27 devices, 1 incoming serial ports
Log:
UCSF ChimeraX version: 1.3.dev202109251824 (2021-09-25)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/premisatheesan/Downloads/1bf2cb2b7fc127c8 5/c3jclC_.5.pdb"
Chain information for c3jclC_.5.pdb #1
---
Chain | Description
? | No description available
OpenGL version: 4.1 ATI-3.10.18
OpenGL renderer: AMD Radeon Pro 5300M OpenGL Engine
OpenGL vendor: ATI Technologies Inc.Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro16,1
Processor Name: 6-Core Intel Core i7
Processor Speed: 2.6 GHz
Number of Processors: 1
Total Number of Cores: 6
L2 Cache (per Core): 256 KB
L3 Cache: 12 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
Boot ROM Version: 1037.147.4.0.0 (iBridge: 17.16.16610.0.0,0)
Software:
System Software Overview:
System Version: macOS 10.15.7 (19H2)
Kernel Version: Darwin 19.6.0
Time since boot: 4 days 14:38
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: 0x0000
Automatic Graphics Switching: Supported
gMux Version: 5.0.0
Metal: Supported, feature set macOS GPUFamily2 v1
AMD Radeon Pro 5300M:
Chipset Model: AMD Radeon Pro 5300M
Type: GPU
Bus: PCIe
PCIe Lane Width: x8
VRAM (Total): 4 GB
Vendor: AMD (0x1002)
Device ID: 0x7340
Revision ID: 0x0043
ROM Revision: 113-D3220E-190
VBIOS Version: 113-D32207P1-019
Option ROM Version: 113-D32207P1-019
EFI Driver Version: 01.01.190
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: 3072 x 1920 Retina
Framebuffer Depth: 24-Bit Color (ARGB8888)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: No
Connection Type: Internal
Locale: (None, 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.2
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.5.30
cftime: 1.5.1
charset-normalizer: 2.0.6
ChimeraX-AddCharge: 1.1.4
ChimeraX-AddH: 2.1.10
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.2
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.30.1
ChimeraX-AtomicLibrary: 4.1.4
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6
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: 2.1
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3.dev202109251824
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.1
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.1
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.1
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2
ChimeraX-ModelPanel: 1.2
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: 1.7
ChimeraX-PDB: 2.6.3
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.4
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.1
cycler: 0.10.0
Cython: 0.29.24
decorator: 5.1.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.4.0
html2text: 2020.1.16
idna: 3.2
ihm: 0.20
imagecodecs: 2021.4.28
imagesize: 1.2.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.8.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.7.3
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.0
ParmEd: 3.2.0
parso: 0.8.2
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.20
psutil: 5.8.0
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.1
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.2
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.1.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.0
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
Change History (9)
comment:1 by , 4 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Structure Analysis |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in AtomSearchTree implementation |
comment:2 by , 4 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
comment:3 by , 4 years ago
I don't see any Python stack trace in this ticket. If you mean the Python log where the user opens a PDB -- that is for the session after the crash, the one when they reported the crash. The log for when the crash happened would have lines above and below it indicating it was the log for the crash, and that does not appear in this report. (I am perplexed why there is no Python stack trace or Python log.)
The C++ stack trace shows a mouse button release happened, then all Python code, then AtomSearchTree constructor is called. It looks like that happens with addh, build_structure, clashes, hbond.
comment:4 by , 4 years ago
You are right. Since this is a 1.3 report I went looking for the "Python part" of the bug report and just glommed onto the log instead of realizing that the Python stack trace was mysteriously missing. Yes, there are various things that call AtomSearchTree, and without the Python trace we have little idea which one was in use.
comment:5 by , 4 years ago
The _Node constructor is a couple of pages of code and is recursive, so this will be hard to debug without an example.
follow-up: 6 comment:6 by , 4 years ago
Then _Node constructor only takes a vector of Atom* and bool and double and the code it seems only uses Atom.scene_coord() or Atom.coord() so it doesn't seem too many special cases could arise. Maybe it is called with a zero length vector, maybe an atom in the vector has been deleted, maybe the coordinates are special, like exactly equal for a few atoms. If an atom was deleted then the problem is elsewhere. But might be worth scanning the _Node code to see if it would handle a zero length vector or identical atom coordinates without a crash. Was reported once before #4820.
comment:7 by , 4 years ago
Since the log from the report clearly shows the user opening what looks to be a modeled structure (1bf2cb2b7fc127c8 5/c3jclC_.5.pdb), I'm going to guess that that's what he was using when the crash occurred -- and there's a good chance there are atoms on top of one another in the "structure". I will make up a structure with atoms on top of one another and see what happens.
follow-up: 9 comment:9 by , 4 years ago
If this user is loading flakey modeled structures, I saw several months ago an error from NaN coordinates which I traced back to literally "nan" appearing in the coordinate columns of the pdb which our reader read without complaints as nan and subsequently caused havoc. What would AtomSearchTree do given NaN coordinates? Not saying this is worth testing, although making the PDB reader report an error on NaN coordinates might be worthwhile.
Note:
See TracTickets
for help on using tickets.
If the Python stack trace is to be believed, the user was opening a PDB file. The C++ stack trace has no PDB code in it, so it would have to be in some kind of structure post processing. AFAICT, AtomSearchTree is not called in any standard structure post processing (though closepoints is).