![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 5 years ago
Closed 5 years ago
#3818 closed defect (fixed)
Crash changing chain ID
| Reported by: | Elaine Meng | Owned by: | pett |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | ||
| 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: 1.2.dev202010060011 (2020-10-06 00:11:32 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
I started Chimera, opened 4hhb, and used command:
setattr /A residue chain_id F
Process: ChimeraX [2611]
Path: /Users/USER/Desktop/ChimeraX_Daily.app/Contents/MacOS/ChimeraX
Identifier: edu.ucsf.cgl.ChimeraX
Version: 1.2.0 (1.2.0.0)
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: ChimeraX [2611]
User ID: 504
Date/Time: 2020-10-12 08:40:18.675 -0700
OS Version: Mac OS X 10.15.7 (19H2)
Report Version: 12
Anonymous UUID: 2E059A98-7BEC-0474-05F4-65B7CBAB8B4F
Time Awake Since Boot: 1400 seconds
System Integrity Protection: enabled
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 00000001037bf000-00000001037c0000 [ 4K] r-x/r-x SM=COW /Users/USER/Desktop/ChimeraX_Daily.app/Contents/MacOS/ChimeraX
Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff694d933a __pthread_kill + 10
1 libsystem_pthread.dylib 0x00007fff69595e60 pthread_kill + 430
2 libsystem_c.dylib 0x00007fff693f093e raise + 26
3 libsystem_platform.dylib 0x00007fff6958a5fd _sigtramp + 29
4 ??? 000000000000000000 0 + 0
5 libmolc.dylib 0x000000013a06f6e3 set_residue_chain_id + 99
6 _ctypes.cpython-38-darwin.so 0x0000000105183c57 ffi_call_unix64 + 79
7 _ctypes.cpython-38-darwin.so 0x00000001051844e5 ffi_call + 901
8 _ctypes.cpython-38-darwin.so 0x000000010517eb72 _ctypes_callproc + 882
9 _ctypes.cpython-38-darwin.so 0x00000001051780d5 PyCFuncPtr_call + 1333
10 org.python.python 0x00000001037e9956 _PyObject_MakeTpCall + 374
11 org.python.python 0x00000001038d0274 call_function + 660
12 org.python.python 0x00000001038ccf4c _PyEval_EvalFrameDefault + 28892
13 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
14 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
15 org.python.python 0x00000001037ebee4 object_vacall + 628
16 org.python.python 0x00000001037ec1b8 PyObject_CallFunctionObjArgs + 152
17 org.python.python 0x00000001037f4686 property_descr_set + 38
18 org.python.python 0x000000010382e9b2 _PyObject_GenericSetAttrWithDict + 162
19 org.python.python 0x000000010382ddcc PyObject_SetAttr + 108
20 org.python.python 0x00000001038c456f builtin_setattr + 63
21 org.python.python 0x0000000103829e21 cfunction_vectorcall_FASTCALL + 177
22 org.python.python 0x00000001038d0142 call_function + 354
23 org.python.python 0x00000001038ccf4c _PyEval_EvalFrameDefault + 28892
24 org.python.python 0x00000001037ea2e1 function_code_fastcall + 177
25 org.python.python 0x00000001038d0142 call_function + 354
26 org.python.python 0x00000001038ccf4c _PyEval_EvalFrameDefault + 28892
27 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
28 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
29 org.python.python 0x00000001037e9c9c PyVectorcall_Call + 108
30 org.python.python 0x00000001038cd197 _PyEval_EvalFrameDefault + 29479
31 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
32 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
33 org.python.python 0x00000001038d0142 call_function + 354
34 org.python.python 0x00000001038cce96 _PyEval_EvalFrameDefault + 28710
35 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
36 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
37 org.python.python 0x00000001037ecebf method_vectorcall + 319
38 org.python.python 0x00000001037e9c9c PyVectorcall_Call + 108
39 QtCore.abi3.so 0x0000000106aab987 PyQtSlot::call(_object*, _object*) const + 39
40 QtCore.abi3.so 0x0000000106aab896 PyQtSlot::invoke(void**, _object*, void*, bool) const + 374
41 QtCore.abi3.so 0x0000000106aac485 PyQtSlotProxy::unislot(void**) + 85
42 QtCore.abi3.so 0x0000000106aac3fa PyQtSlotProxy::qt_metacall(QMetaObject::Call, int, void**) + 58
43 QtCore 0x0000000113b59d8e void doActivate(QObject*, int, void**) + 1118
44 QtCore 0x0000000113b59ef5 void doActivate(QObject*, int, void**) + 1477
45 QtWidgets 0x0000000112dabf74 QWidgetLineControl::processKeyEvent(QKeyEvent*) + 548
46 QtWidgets 0x0000000112da2b92 QLineEdit::keyPressEvent(QKeyEvent*) + 34
47 QtWidgets 0x0000000112c9b42f QWidget::event(QEvent*) + 527
48 QtWidgets 0x0000000112da1f47 QLineEdit::event(QEvent*) + 727
49 QtWidgets 0x0000000112d66130 QComboBox::keyPressEvent(QKeyEvent*) + 784
50 QtWidgets.abi3.so 0x00000001065a0e5b meth_QComboBox_keyPressEvent(_object*, _object*) + 139
51 org.python.python 0x00000001037e9fe3 cfunction_call_varargs + 323
52 org.python.python 0x00000001037e9956 _PyObject_MakeTpCall + 374
53 org.python.python 0x00000001038d0274 call_function + 660
54 org.python.python 0x00000001038cceb6 _PyEval_EvalFrameDefault + 28742
55 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
56 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
57 org.python.python 0x00000001037ecf33 method_vectorcall + 435
58 org.python.python 0x00000001037e9c9c PyVectorcall_Call + 108
59 sip.cpython-38-darwin.so 0x00000001069509d7 sip_api_call_procedure_method + 199
60 QtWidgets.abi3.so 0x00000001064a1f18 sipQComboBox::keyPressEvent(QKeyEvent*) + 104
61 QtWidgets 0x0000000112c9b42f QWidget::event(QEvent*) + 527
62 QtWidgets 0x0000000112d65a94 QComboBox::event(QEvent*) + 372
63 QtWidgets.abi3.so 0x00000001064a141f sipQComboBox::event(QEvent*) + 191
64 QtWidgets 0x0000000112c60fca QApplicationPrivate::notify_helper(QObject*, QEvent*) + 266
65 QtWidgets 0x0000000112c625b3 QApplication::notify(QObject*, QEvent*) + 947
66 QtWidgets.abi3.so 0x00000001064bcdb9 sipQApplication::notify(QObject*, QEvent*) + 233
67 QtCore 0x0000000113b26854 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212
68 QtWidgets 0x0000000112cb9931 QWidgetWindow::handleKeyEvent(QKeyEvent*) + 145
69 QtWidgets 0x0000000112cb8d07 QWidgetWindow::event(QEvent*) + 295
70 QtWidgets 0x0000000112c60fca QApplicationPrivate::notify_helper(QObject*, QEvent*) + 266
71 QtWidgets 0x0000000112c623f1 QApplication::notify(QObject*, QEvent*) + 497
72 QtWidgets.abi3.so 0x00000001064bcdb9 sipQApplication::notify(QObject*, QEvent*) + 233
73 QtCore 0x0000000113b26854 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212
74 QtGui 0x00000001132ce2a8 QGuiApplicationPrivate::processKeyEvent(QWindowSystemInterfacePrivate::KeyEvent*) + 152
75 QtGui 0x00000001132b26ab QWindowSystemInterface::sendWindowSystemEvents(QFlags) + 219
76 QtGui 0x00000001132ad4a2 QWindowSystemInterface::flushWindowSystemEvents(QFlags) + 594
77 libqcocoa.dylib 0x0000000122d778b8 -[QNSView(Keys) handleKeyEvent:eventType:] + 1144
78 libqcocoa.dylib 0x0000000122d77a88 -[QNSView(Keys) keyDown:] + 88
79 com.apple.AppKit 0x00007fff2c738d5d -[NSWindow(NSEventRouting) _reallySendEvent:isDelayedEvent:] + 6512
80 com.apple.AppKit 0x00007fff2c7371c9 -[NSWindow(NSEventRouting) sendEvent:] + 349
81 libqcocoa.dylib 0x0000000122d7adf5 -[QNSWindow sendEvent:] + 549
82 com.apple.AppKit 0x00007fff2c735efe -[NSApplication(NSEvent) sendEvent:] + 2826
83 libqcocoa.dylib 0x0000000122d8214a -[QNSApplication sendEvent:] + 74
84 com.apple.AppKit 0x00007fff2c5825bf -[NSApplication run] + 707
85 libqcocoa.dylib 0x0000000122d7e64f QCocoaEventDispatcher::processEvents(QFlags) + 2495
86 QtCore 0x0000000113b228ef QEventLoop::exec(QFlags) + 431
87 QtCore 0x0000000113b26e62 QCoreApplication::exec() + 130
88 QtWidgets.abi3.so 0x00000001065ae702 meth_QApplication_exec_(_object*, _object*) + 82
89 org.python.python 0x00000001037e9fe3 cfunction_call_varargs + 323
90 org.python.python 0x00000001037e9956 _PyObject_MakeTpCall + 374
91 org.python.python 0x00000001038d0274 call_function + 660
92 org.python.python 0x00000001038cceb6 _PyEval_EvalFrameDefault + 28742
93 org.python.python 0x00000001037ea2e1 function_code_fastcall + 177
94 org.python.python 0x00000001037ece2b method_vectorcall + 171
95 org.python.python 0x00000001038d0142 call_function + 354
96 org.python.python 0x00000001038cceb6 _PyEval_EvalFrameDefault + 28742
97 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
98 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
99 org.python.python 0x00000001038d0142 call_function + 354
100 org.python.python 0x00000001038ccf4c _PyEval_EvalFrameDefault + 28892
101 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
102 org.python.python 0x00000001038c5dd0 PyEval_EvalCode + 48
103 org.python.python 0x00000001038c3125 builtin_exec + 661
104 org.python.python 0x0000000103829e21 cfunction_vectorcall_FASTCALL + 177
105 org.python.python 0x00000001038d0142 call_function + 354
106 org.python.python 0x00000001038ccf4c _PyEval_EvalFrameDefault + 28892
107 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
108 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
109 org.python.python 0x00000001038d0142 call_function + 354
110 org.python.python 0x00000001038ccf4c _PyEval_EvalFrameDefault + 28892
111 org.python.python 0x00000001038d13af _PyEval_EvalCodeWithName + 3711
112 org.python.python 0x00000001037ea453 _PyFunction_Vectorcall + 243
113 org.python.python 0x00000001037e9c9c PyVectorcall_Call + 108
114 org.python.python 0x0000000103938fa3 pymain_run_module + 179
115 org.python.python 0x000000010393854d Py_RunMain + 1373
116 org.python.python 0x0000000103938e7b pymain_main + 411
117 org.python.python 0x0000000103938ccb Py_Main + 43
118 edu.ucsf.cgl.ChimeraX 0x00000001037bfdc8 main + 120
119 libdyld.dylib 0x00007fff69391cc9 start + 1
Thread 1:
0 libsystem_kernel.dylib 0x00007fff694d5882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff69596425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010723d27b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 2:
0 libsystem_kernel.dylib 0x00007fff694d5882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff69596425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010723d27b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 3:
0 libsystem_kernel.dylib 0x00007fff694d5882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff69596425 _pthread_cond_wait + 698
2 libopenblas.0.dylib 0x000000010723d27b blas_thread_server + 507
3 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 4:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff2f321ef5 __CFRunLoopServiceMachPort + 247
3 com.apple.CoreFoundation 0x00007fff2f3209c2 __CFRunLoopRun + 1319
4 com.apple.CoreFoundation 0x00007fff2f31fe3e CFRunLoopRunSpecific + 462
5 com.apple.AppKit 0x00007fff2c733954 _NSEventThread + 132
6 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
7 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 5:: ThreadPoolServiceThread
0 libsystem_kernel.dylib 0x00007fff694dbb96 kevent64 + 10
1 QtWebEngineCore 0x000000011862173a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x0000000118621597 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
4 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
5 QtWebEngineCore 0x00000001185b4224 base::internal::ServiceThread::Run(base::RunLoop*) + 20
6 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 6:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x00000001185bfbe8 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x00000001185c0444 base::internal::WorkerThread::RunWorker() + 644
5 QtWebEngineCore 0x00000001185c0144 base::internal::WorkerThread::RunPooledWorker() + 20
6 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 7:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x00000001185bfbe8 base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 56
4 QtWebEngineCore 0x00000001185c0444 base::internal::WorkerThread::RunWorker() + 644
5 QtWebEngineCore 0x00000001185c00b4 base::internal::WorkerThread::RunBackgroundPooledWorker() + 20
6 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 8:: Chrome_IOThread
0 libsystem_kernel.dylib 0x00007fff694dbb96 kevent64 + 10
1 QtWebEngineCore 0x000000011862173a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x0000000118621597 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
4 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
5 QtWebEngineCore 0x000000011c51c3c4 content::BrowserProcessSubThread::IOThreadRun(base::RunLoop*) + 20
6 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 9:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118616cbf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000118544e4b base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
6 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
7 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 10:: CompositorTileWorker1
0 libsystem_kernel.dylib 0x00007fff694d5882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff69596425 _pthread_cond_wait + 698
2 QtWebEngineCore 0x000000011860e555 base::ConditionVariable::Wait() + 53
3 QtWebEngineCore 0x0000000119943f38 non-virtual thunk to cc::SingleThreadTaskGraphRunner::Run() + 56
4 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
5 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
6 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 11:: Chrome_InProcGpuThread
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118544e7f base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 223
4 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
5 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
6 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
7 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 12:: Chrome_ChildIOThread
0 libsystem_kernel.dylib 0x00007fff694dbb96 kevent64 + 10
1 QtWebEngineCore 0x000000011862173a base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*) + 330
2 QtWebEngineCore 0x0000000118621597 base::MessagePumpKqueue::Run(base::MessagePump::Delegate*) + 167
3 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
4 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
5 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
6 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
7 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 13:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118616cbf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000118544e4b base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
6 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
7 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 14:: VizCompositorThread
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118616cbf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000118544e4b base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
6 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
7 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 15:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118616cbf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000118544e4b base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
6 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
7 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 16:: ThreadPoolSingleThreadForegroundBlocking0
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118616cbf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x00000001185bfbda base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 42
5 QtWebEngineCore 0x00000001185c0444 base::internal::WorkerThread::RunWorker() + 644
6 QtWebEngineCore 0x00000001185c01a4 base::internal::WorkerThread::RunDedicatedWorker() + 20
7 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 17:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118616cbf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x0000000118544e4b base::MessagePumpDefault::Run(base::MessagePump::Delegate*) + 171
5 QtWebEngineCore 0x00000001185ab2af non-virtual thunk to base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta) + 143
6 QtWebEngineCore 0x000000011856eb6f base::RunLoop::Run() + 399
7 QtWebEngineCore 0x00000001185c80dd base::Thread::ThreadMain() + 413
8 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
9 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 18:: ThreadPoolSingleThreadSharedBackgroundBlocking1
0 libsystem_kernel.dylib 0x00007fff694d2dfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff694d3170 mach_msg + 60
2 QtWebEngineCore 0x0000000118616e65 base::WaitableEvent::TimedWait(base::TimeDelta const&) + 405
3 QtWebEngineCore 0x0000000118616cbf base::WaitableEvent::Wait() + 31
4 QtWebEngineCore 0x00000001185bfbda base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*) + 42
5 QtWebEngineCore 0x00000001185c022e base::internal::WorkerThread::RunWorker() + 110
6 QtWebEngineCore 0x00000001185c00e4 base::internal::WorkerThread::RunBackgroundSharedWorker() + 20
7 QtWebEngineCore 0x000000011860f4c7 base::(anonymous namespace)::ThreadFunc(void*) + 87
8 libsystem_pthread.dylib 0x00007fff69596109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff69591b8b thread_start + 15
Thread 19:
0 libsystem_pthread.dylib 0x00007fff69591b68 start_wqthread + 0
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x0000000106ec9dc0 rcx: 0x00007f9aac58da58 rdx: 0x0000000000000000
rdi: 0x0000000000000307 rsi: 0x000000000000000b rbp: 0x00007f9aac58da80 rsp: 0x00007f9aac58da58
r8: 0x00007f9aac58df48 r9: 0xef229a974d5ed076 r10: 0x0000000106ec9dc0 r11: 0x0000000000000246
r12: 0x0000000000000307 r13: 0x0000000000000008 r14: 0x000000000000000b r15: 0x0000000000000016
rip: 0x00007fff694d933a rfl: 0x0000000000000246 cr2: 0x00007f9aac58df48
Logical CPU: 0
Error Code: 0x02000148
Trap Number: 133
Binary Images:
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0x7fff6833c000 - 0x7fff6834eff7 libsasl2.2.dylib (213.120.1) /usr/lib/libsasl2.2.dylib
0x7fff6834f000 - 0x7fff68350ff7 libspindump.dylib (281.3) /usr/lib/libspindump.dylib
0x7fff68351000 - 0x7fff6853bff7 libsqlite3.dylib (308.5) /usr/lib/libsqlite3.dylib
0x7fff6862f000 - 0x7fff6865cffb libssl.46.dylib (47.140.1) /usr/lib/libssl.46.dylib
0x7fff68731000 - 0x7fff6878bff8 libusrtcp.dylib (1880.120.4) /usr/lib/libusrtcp.dylib
0x7fff6878c000 - 0x7fff6878fffb libutil.dylib (57) /usr/lib/libutil.dylib
0x7fff68790000 - 0x7fff6879dff7 libxar.1.dylib (425.2) /usr/lib/libxar.1.dylib
0x7fff687a3000 - 0x7fff68885fff libxml2.2.dylib (33.5) /usr/lib/libxml2.2.dylib
0x7fff68889000 - 0x7fff688b1fff libxslt.1.dylib (16.9) /usr/lib/libxslt.1.dylib
0x7fff688b2000 - 0x7fff688c4ff3 libz.1.dylib (76) /usr/lib/libz.1.dylib
0x7fff69173000 - 0x7fff69178ff3 libcache.dylib (83) /usr/lib/system/libcache.dylib
0x7fff69179000 - 0x7fff69184fff libcommonCrypto.dylib (60165.120.1) /usr/lib/system/libcommonCrypto.dylib
0x7fff69185000 - 0x7fff6918cfff libcompiler_rt.dylib (101.2) /usr/lib/system/libcompiler_rt.dylib
0x7fff6918d000 - 0x7fff69196ff7 libcopyfile.dylib (166.40.1) /usr/lib/system/libcopyfile.dylib
0x7fff69197000 - 0x7fff69229fdb libcorecrypto.dylib (866.140.1) /usr/lib/system/libcorecrypto.dylib
0x7fff69336000 - 0x7fff69376ff0 libdispatch.dylib (1173.100.2) /usr/lib/system/libdispatch.dylib
0x7fff69377000 - 0x7fff693adfff libdyld.dylib (750.6) /usr/lib/system/libdyld.dylib
0x7fff693ae000 - 0x7fff693aeffb libkeymgr.dylib (30) /usr/lib/system/libkeymgr.dylib
0x7fff693af000 - 0x7fff693bbff3 libkxld.dylib (6153.141.2) /usr/lib/system/libkxld.dylib
0x7fff693bc000 - 0x7fff693bcff7 liblaunch.dylib (1738.140.1) /usr/lib/system/liblaunch.dylib
0x7fff693bd000 - 0x7fff693c2ff7 libmacho.dylib (959.0.1) /usr/lib/system/libmacho.dylib
0x7fff693c3000 - 0x7fff693c5ff3 libquarantine.dylib (110.40.3) /usr/lib/system/libquarantine.dylib
0x7fff693c6000 - 0x7fff693c7ff7 libremovefile.dylib (48) /usr/lib/system/libremovefile.dylib
0x7fff693c8000 - 0x7fff693dfff3 libsystem_asl.dylib (377.60.2) /usr/lib/system/libsystem_asl.dylib
0x7fff693e0000 - 0x7fff693e0ff7 libsystem_blocks.dylib (74) /usr/lib/system/libsystem_blocks.dylib
0x7fff693e1000 - 0x7fff69468fff libsystem_c.dylib (1353.100.2) /usr/lib/system/libsystem_c.dylib
0x7fff69469000 - 0x7fff6946cffb libsystem_configuration.dylib (1061.141.1) /usr/lib/system/libsystem_configuration.dylib
0x7fff6946d000 - 0x7fff69470fff libsystem_coreservices.dylib (114) /usr/lib/system/libsystem_coreservices.dylib
0x7fff69471000 - 0x7fff69479fff libsystem_darwin.dylib (1353.100.2) /usr/lib/system/libsystem_darwin.dylib
0x7fff6947a000 - 0x7fff69481fff libsystem_dnssd.dylib (1096.100.3) /usr/lib/system/libsystem_dnssd.dylib
0x7fff69482000 - 0x7fff69483ffb libsystem_featureflags.dylib (17) /usr/lib/system/libsystem_featureflags.dylib
0x7fff69484000 - 0x7fff694d1ff7 libsystem_info.dylib (538) /usr/lib/system/libsystem_info.dylib
0x7fff694d2000 - 0x7fff694feff7 libsystem_kernel.dylib (6153.141.2) /usr/lib/system/libsystem_kernel.dylib
0x7fff694ff000 - 0x7fff69546fff libsystem_m.dylib (3178) /usr/lib/system/libsystem_m.dylib
0x7fff69547000 - 0x7fff6956efff libsystem_malloc.dylib (283.100.6) /usr/lib/system/libsystem_malloc.dylib
0x7fff6956f000 - 0x7fff6957cffb libsystem_networkextension.dylib (1095.140.2) /usr/lib/system/libsystem_networkextension.dylib
0x7fff6957d000 - 0x7fff69586ff7 libsystem_notify.dylib (241.100.2) /usr/lib/system/libsystem_notify.dylib
0x7fff69587000 - 0x7fff6958ffef libsystem_platform.dylib (220.100.1) /usr/lib/system/libsystem_platform.dylib
0x7fff69590000 - 0x7fff6959afff libsystem_pthread.dylib (416.100.3) /usr/lib/system/libsystem_pthread.dylib
0x7fff6959b000 - 0x7fff6959fff3 libsystem_sandbox.dylib (1217.141.2) /usr/lib/system/libsystem_sandbox.dylib
0x7fff695a0000 - 0x7fff695a2fff libsystem_secinit.dylib (62.100.2) /usr/lib/system/libsystem_secinit.dylib
0x7fff695a3000 - 0x7fff695aaffb libsystem_symptoms.dylib (1238.120.1) /usr/lib/system/libsystem_symptoms.dylib
0x7fff695ab000 - 0x7fff695c1ff2 libsystem_trace.dylib (1147.120) /usr/lib/system/libsystem_trace.dylib
0x7fff695c3000 - 0x7fff695c8ff7 libunwind.dylib (35.4) /usr/lib/system/libunwind.dylib
0x7fff695c9000 - 0x7fff695feffe libxpc.dylib (1738.140.1) /usr/lib/system/libxpc.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 4
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: 5473
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=996.9M resident=0K(0%) swapped_out_or_unallocated=996.9M(100%)
Writable regions: Total=980.9M written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=980.9M(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 384K 3
Activity Tracing 256K 1
CG backing stores 992K 2
CG image 44K 5
CoreAnimation 80K 10
CoreGraphics 8K 1
CoreImage 24K 2
CoreServices 132K 2
CoreUI image data 1656K 13
Foundation 4K 1
Kernel Alloc Once 1432K 4
MALLOC 287.8M 319
MALLOC guard page 32K 8
MALLOC_LARGE (reserved) 256K 1 reserved VM address space (unallocated)
MALLOC_NANO (reserved) 384.0M 1 reserved VM address space (unallocated)
Mach message 24K 3
OpenGL GLSL 384K 5
STACK GUARD 76K 19
Stack 122.6M 20
Stack Guard 56.0M 1
VM_ALLOCATE 148.6M 263
VM_ALLOCATE (reserved) 32.0M 1 reserved VM address space (unallocated)
__DATA 52.1M 551
__DATA_CONST 40K 4
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 479.3M 141
__OBJC_RO 32.3M 1
__OBJC_RW 1908K 2
__TEXT 517.6M 516
__UNICODE 564K 1
mapped file 393.2M 48
shared memory 2836K 25
=========== ======= =======
TOTAL 2.5G 1976
TOTAL, minus reserved VM space 2.1G 1976
Log:
> open /Users/meng/Desktop/startup.cxc
> alias reset view orient; view initial
> alias start tool show $1
> alias whereprefs info path user unversioned config
> alias captut open help:user/tutorials/binding-sites.html#cap-example
> alias previewts toolshed url https://cxtoolshed-
> preview.rbvi.ucsf.edu;toolshed reload available
> alias normalts toolshed url https://cxtoolshed.rbvi.ucsf.edu;toolshed reload
> available
executed startup.cxc
UCSF ChimeraX version: 1.2.dev202010060011 (2020-10-06)
© 2016-2020 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 INTEL-14.7.8
OpenGL renderer: Intel Iris Pro OpenGL Engine
OpenGL vendor: Intel Inc.Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro11,4
Processor Name: Quad-Core Intel Core i7
Processor Speed: 2.2 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
Boot ROM Version: 199.0.0.0.0
SMC Version (system): 2.29f24
Software:
System Software Overview:
System Version: macOS 10.15.7 (19H2)
Kernel Version: Darwin 19.6.0
Time since boot: 25 minutes
Graphics/Displays:
Intel Iris Pro:
Chipset Model: Intel Iris Pro
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x0d26
Revision ID: 0x0008
Metal: Supported, feature set macOS GPUFamily1 v4
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2880 x 1800 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')
PyQt version: 5.15.1
Compiled Qt version: 5.15.1
Runtime Qt version: 5.15.1
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.0
Babel: 2.8.0
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2020.6.20
cftime: 1.2.1
chardet: 3.0.4
ChimeraX-AddH: 2.1.1
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.1
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.8.2
ChimeraX-AtomicLibrary: 1.1
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.2
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.0
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.1
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-CommandLine: 1.1.3
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.2.dev202010060011
ChimeraX-CoreFormats: 1.0
ChimeraX-coulombic: 1.0.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-DataFormats: 1.0
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1
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: 1.0
ChimeraX-Hbonds: 2.1
ChimeraX-Help: 1.0
ChimeraX-HKCage: 1.0
ChimeraX-IHM: 1.0
ChimeraX-ImageFormats: 1.0
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0
ChimeraX-Label: 1.0
ChimeraX-ListInfo: 1.0
ChimeraX-Log: 1.1.1
ChimeraX-LookingGlass: 1.1
ChimeraX-Map: 1.0.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.0
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 1.1
ChimeraX-MDcrds: 2.1
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.0
ChimeraX-mmCIF: 2.2
ChimeraX-MMTF: 2.0
ChimeraX-Modeller: 1.0
ChimeraX-ModelPanel: 1.0
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.0
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0
ChimeraX-OpenCommand: 1.3
ChimeraX-PDB: 2.2
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0
ChimeraX-PubChem: 2.0.1
ChimeraX-Read-Pbonds: 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: 1.2
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SeqView: 2.2.1
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.0
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.0.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.0
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.0
ChimeraX-ToolshedUtils: 1.0
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.3.1
ChimeraX-uniprot: 2.0
ChimeraX-ViewDockX: 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: 0.4.3
comtypes: 1.1.7
cxservices: 1.0
cycler: 0.10.0
Cython: 0.29.21
decorator: 4.4.2
distlib: 0.3.1
docutils: 0.16
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 2.10.0
html2text: 2020.1.16
idna: 2.10
ihm: 0.17
imagecodecs: 2020.5.30
imagecodecs-lite: 2020.1.31
imagesize: 1.2.0
ipykernel: 5.3.4
ipython: 7.18.1
ipython-genutils: 0.2.0
jedi: 0.17.2
Jinja2: 2.11.2
jupyter-client: 6.1.7
jupyter-core: 4.6.3
kiwisolver: 1.2.0
line-profiler: 2.1.2
lxml: 4.5.2
MarkupSafe: 1.1.1
matplotlib: 3.3.2
msgpack: 1.0.0
netCDF4: 1.5.4
netifaces: 0.10.9
networkx: 2.5
numexpr: 2.7.1
numpy: 1.19.2
numpydoc: 1.1.0
openvr: 1.14.1501
packaging: 20.4
parso: 0.7.1
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 7.2.0
pip: 20.2.3
pkginfo: 1.5.0.1
prompt-toolkit: 3.0.7
psutil: 5.7.2
ptyprocess: 0.6.0
pycollada: 0.7.1
pydicom: 2.0.0
Pygments: 2.7.1
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.15.1
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.1
python-dateutil: 2.8.1
pytz: 2020.1
pyzmq: 19.0.2
qtconsole: 4.7.7
QtPy: 1.9.0
RandomWords: 0.3.0
requests: 2.24.0
scipy: 1.5.2
setuptools: 50.3.0
sfftk-rw: 0.6.6.dev0
six: 1.15.0
snowballstemmer: 2.0.0
sortedcontainers: 2.2.2
Sphinx: 3.2.1
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 1.0.3
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.4
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2020.9.3
tinyarray: 1.2.3
tornado: 6.0.4
traitlets: 5.0.4
urllib3: 1.25.10
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.34.2
Change History (2)
comment:1 by , 5 years ago
| Component: | Unassigned → Core |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash changing chain ID |
comment:2 by , 5 years ago
| Resolution: | → fixed |
|---|---|
| Status: | accepted → closed |
Note:
See TracTickets
for help on using tickets.
Well, sort of fixed. The problem was that the type-guessing rules were treating 'F' as false, not the string 'F', and setting a chain ID to false caused the crash. Revamping how setattr handles its args makes this a lot less likely to happen accidentally, but you could still crash it now with "setattr /A residue chain_id true". Tom and I are discussing ways to prevent/mitigate that.