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Opened 3 years ago
Closed 3 years ago
#7024 closed defect (can't reproduce)
Crash in Residue::ordered_min_backbone_atom_names()
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Input/Output | 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: 1.4rc202205200050 (2022-05-20 00:50:00 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x0000000111773dc0 (most recent call first):
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 1594 in combine_sym_atoms
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/pdb/pdb.py", line 104 in open_pdb
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/pdb/__init__.py", line 34 in open
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py", line 428 in remember_data_format
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py", line 457 in collated_open
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py", line 193 in provider_open
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2897 in run
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py", line 118 in cmd_open
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2897 in run
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/run.py", line 38 in run
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/dialog.py", line 162 in _qt_safe
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 318 in event_loop
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 870 in init
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1021 in
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main
Process: ChimeraX [42137]
Path: /Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/MacOS/ChimeraX
Identifier: ChimeraX
Version: 1.4.0 (1.4.0.0)
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: ChimeraX [42137]
User ID: 501
Date/Time: 2022-06-04 20:23:20.749 +0800
OS Version: Mac OS X 10.15.7 (19H2)
Report Version: 12
Bridge OS Version: 4.6 (17P6610)
Anonymous UUID: F6301BAB-6066-EEDA-C58B-CA053F400FFA
Time Awake Since Boot: 350000 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 0x00000000000000a8
Exception Note: EXC_CORPSE_NOTIFY
VM Regions Near 0xa8:
-->
__TEXT 0000000101e57000-0000000101e58000 [ 4K] r-x/r-x SM=COW /Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/MacOS/ChimeraX
Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff6ab3133a __pthread_kill + 10
1 libsystem_pthread.dylib 0x00007fff6abede60 pthread_kill + 430
2 libsystem_c.dylib 0x00007fff6aa4893e raise + 26
3 libsystem_platform.dylib 0x00007fff6abe25fd _sigtramp + 29
4 ??? 000000000000000000 0 + 0
5 libatomstruct.dylib 0x00000001208b29dc atomstruct::Residue::ordered_min_backbone_atom_names() const + 220
6 libatomstruct.dylib 0x000000012090fef1 atomstruct::_find_attachment_atom(atomstruct::Residue*, std::__1::set, std::__1::allocator > const&, std::__1::set, std::__1::allocator >&, std::__1::set, std::__1::allocator >&, std::__1::set, std::__1::allocator >&, bool) + 721
7 libatomstruct.dylib 0x000000012090e9d8 atomstruct::Structure::_delete_atoms(std::__1::set, std::__1::allocator > const&, bool) + 6840
8 libatomstruct.dylib 0x000000012090c228 atomstruct::Structure::delete_atoms(std::__1::vector > const&) + 72
9 libatomstruct.dylib 0x000000012090bb47 atomstruct::Structure::combine_sym_atoms() + 871
10 libmolc.dylib 0x000000012001c76b structure_combine_sym_atoms + 11
11 libffi.dylib 0x00007fff6878b905 ffi_call_unix64 + 85
12 libffi.dylib 0x00007fff6878b244 ffi_call_int + 694
13 _ctypes.cpython-39-darwin.so 0x000000010aabcd0d _ctypes_callproc + 1037
14 _ctypes.cpython-39-darwin.so 0x000000010aab6a96 PyCFuncPtr_call + 1206
15 org.python.python 0x0000000101e9d5b7 _PyObject_MakeTpCall + 359
16 org.python.python 0x0000000101f75e9c call_function + 876
17 org.python.python 0x0000000101f7334b _PyEval_EvalFrameDefault + 25723
18 org.python.python 0x0000000101e9dd28 function_code_fastcall + 104
19 org.python.python 0x0000000101f75e0c call_function + 732
20 org.python.python 0x0000000101f7327e _PyEval_EvalFrameDefault + 25518
21 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
22 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
23 org.python.python 0x0000000101f73989 _PyEval_EvalFrameDefault + 27321
24 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
25 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
26 org.python.python 0x0000000101e9fe59 method_vectorcall + 441
27 org.python.python 0x0000000101f73989 _PyEval_EvalFrameDefault + 27321
28 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
29 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
30 org.python.python 0x0000000101f75e0c call_function + 732
31 org.python.python 0x0000000101f7334b _PyEval_EvalFrameDefault + 25723
32 org.python.python 0x0000000101e9dd28 function_code_fastcall + 104
33 org.python.python 0x0000000101f75e0c call_function + 732
34 org.python.python 0x0000000101f7334b _PyEval_EvalFrameDefault + 25723
35 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
36 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
37 org.python.python 0x0000000101e9d982 PyVectorcall_Call + 162
38 org.python.python 0x0000000101f73989 _PyEval_EvalFrameDefault + 27321
39 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
40 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
41 org.python.python 0x0000000101e9fd6a method_vectorcall + 202
42 org.python.python 0x0000000101f75e0c call_function + 732
43 org.python.python 0x0000000101f733e8 _PyEval_EvalFrameDefault + 25880
44 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
45 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
46 org.python.python 0x0000000101e9d982 PyVectorcall_Call + 162
47 org.python.python 0x0000000101f73989 _PyEval_EvalFrameDefault + 27321
48 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
49 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
50 org.python.python 0x0000000101e9fd6a method_vectorcall + 202
51 org.python.python 0x0000000101f75e0c call_function + 732
52 org.python.python 0x0000000101f733e8 _PyEval_EvalFrameDefault + 25880
53 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
54 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
55 org.python.python 0x0000000101f75e0c call_function + 732
56 org.python.python 0x0000000101f7334b _PyEval_EvalFrameDefault + 25723
57 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
58 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
59 QtCore.abi3.so 0x000000010f472607 PyQtSlot::call(_object*, _object*) const + 39
60 QtCore.abi3.so 0x000000010f472516 PyQtSlot::invoke(void**, _object*, void*, bool) const + 358
61 QtCore.abi3.so 0x000000010f473445 PyQtSlotProxy::unislot(void**) + 85
62 QtCore.abi3.so 0x000000010f4733ba PyQtSlotProxy::qt_metacall(QMetaObject::Call, int, void**) + 58
63 QtCore 0x000000010f77ce19 QObject::event(QEvent*) + 729
64 QtWidgets 0x0000000111e5d067 QApplicationPrivate::notify_helper(QObject*, QEvent*) + 247
65 QtWidgets 0x0000000111e5e023 QApplication::notify(QObject*, QEvent*) + 499
66 QtWidgets.abi3.so 0x000000011197f829 sipQApplication::notify(QObject*, QEvent*) + 233
67 QtCore 0x000000010f733dca QCoreApplication::notifyInternal2(QObject*, QEvent*) + 170
68 QtCore 0x000000010f734f00 QCoreApplicationPrivate::sendPostedEvents(QObject*, int, QThreadData*) + 800
69 libqcocoa.dylib 0x000000011eb53f6b 0x11eb3a000 + 106347
70 libqcocoa.dylib 0x000000011eb5467b 0x11eb3a000 + 108155
71 com.apple.CoreFoundation 0x00007fff30b14d52 __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE0_PERFORM_FUNCTION__ + 17
72 com.apple.CoreFoundation 0x00007fff30b14cf1 __CFRunLoopDoSource0 + 103
73 com.apple.CoreFoundation 0x00007fff30b14b0b __CFRunLoopDoSources0 + 209
74 com.apple.CoreFoundation 0x00007fff30b1383a __CFRunLoopRun + 927
75 com.apple.CoreFoundation 0x00007fff30b12e3e CFRunLoopRunSpecific + 462
76 com.apple.HIToolbox 0x00007fff2f73fabd RunCurrentEventLoopInMode + 292
77 com.apple.HIToolbox 0x00007fff2f73f7d5 ReceiveNextEventCommon + 584
78 com.apple.HIToolbox 0x00007fff2f73f579 _BlockUntilNextEventMatchingListInModeWithFilter + 64
79 com.apple.AppKit 0x00007fff2dd85039 _DPSNextEvent + 883
80 com.apple.AppKit 0x00007fff2dd83880 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1352
81 com.apple.AppKit 0x00007fff2dd7558e -[NSApplication run] + 658
82 libqcocoa.dylib 0x000000011eb5348c 0x11eb3a000 + 103564
83 QtCore 0x000000010f73d516 QEventLoop::exec(QFlags) + 486
84 QtCore 0x000000010f7343e5 QCoreApplication::exec() + 133
85 QtWidgets.abi3.so 0x0000000111a6c90a meth_QApplication_exec(_object*, _object*) + 90
86 org.python.python 0x0000000101edc71d cfunction_call + 125
87 org.python.python 0x0000000101e9d5b7 _PyObject_MakeTpCall + 359
88 org.python.python 0x0000000101f75e9c call_function + 876
89 org.python.python 0x0000000101f732a2 _PyEval_EvalFrameDefault + 25554
90 org.python.python 0x0000000101e9dd28 function_code_fastcall + 104
91 org.python.python 0x0000000101e9fd6a method_vectorcall + 202
92 org.python.python 0x0000000101f75e0c call_function + 732
93 org.python.python 0x0000000101f732a2 _PyEval_EvalFrameDefault + 25554
94 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
95 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
96 org.python.python 0x0000000101f75e0c call_function + 732
97 org.python.python 0x0000000101f7334b _PyEval_EvalFrameDefault + 25723
98 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
99 org.python.python 0x0000000101f6cdab PyEval_EvalCode + 139
100 org.python.python 0x0000000101f69c12 builtin_exec + 626
101 org.python.python 0x0000000101edc023 cfunction_vectorcall_FASTCALL + 195
102 org.python.python 0x0000000101f75e0c call_function + 732
103 org.python.python 0x0000000101f7334b _PyEval_EvalFrameDefault + 25723
104 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
105 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
106 org.python.python 0x0000000101f75e0c call_function + 732
107 org.python.python 0x0000000101f7334b _PyEval_EvalFrameDefault + 25723
108 org.python.python 0x0000000101f76b03 _PyEval_EvalCode + 2611
109 org.python.python 0x0000000101e9dcb1 _PyFunction_Vectorcall + 289
110 org.python.python 0x0000000101fdc870 pymain_run_module + 208
111 org.python.python 0x0000000101fdbf87 Py_RunMain + 1431
112 org.python.python 0x0000000101fdc58f pymain_main + 223
113 org.python.python 0x0000000101fdc49b Py_Main + 43
114 edu.ucsf.cgl.ChimeraX 0x0000000101e57dc8 main + 120
115 libdyld.dylib 0x00007fff6a9e9cc9 start + 1
Thread 1:
0 libsystem_kernel.dylib 0x00007fff6ab2d882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abee425 _pthread_cond_wait + 698
2 libopenblas64_.0.dylib 0x0000000102c1749f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 2:
0 libsystem_kernel.dylib 0x00007fff6ab2d882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abee425 _pthread_cond_wait + 698
2 libopenblas64_.0.dylib 0x0000000102c1749f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 3:
0 libsystem_kernel.dylib 0x00007fff6ab2d882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abee425 _pthread_cond_wait + 698
2 libopenblas64_.0.dylib 0x0000000102c1749f blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
4 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 4:: ThreadPoolServiceThread
0 libsystem_kernel.dylib 0x00007fff6ab33b96 kevent64 + 10
1 QtWebEngineCore 0x000000011702f5ca 0x1130cd000 + 66463178
2 QtWebEngineCore 0x000000011702f4c7 0x1130cd000 + 66462919
3 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
4 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
5 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
6 QtWebEngineCore 0x0000000116fb584d 0x1130cd000 + 65964109
7 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
8 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
9 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 5:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116fc1d5f 0x1130cd000 + 66014559
4 QtWebEngineCore 0x0000000116fc280c 0x1130cd000 + 66017292
5 QtWebEngineCore 0x0000000116fc240d 0x1130cd000 + 66016269
6 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 6:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116fc1d5f 0x1130cd000 + 66014559
4 QtWebEngineCore 0x0000000116fc280c 0x1130cd000 + 66017292
5 QtWebEngineCore 0x0000000116fc237d 0x1130cd000 + 66016125
6 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 7:: Chrome_IOThread
0 libsystem_kernel.dylib 0x00007fff6ab33b96 kevent64 + 10
1 QtWebEngineCore 0x000000011702f5ca 0x1130cd000 + 66463178
2 QtWebEngineCore 0x000000011702f4c7 0x1130cd000 + 66462919
3 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
4 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
5 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
6 QtWebEngineCore 0x0000000115ef4e32 0x1130cd000 + 48397874
7 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
8 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
9 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 8:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116ffd78f 0x1130cd000 + 66258831
4 QtWebEngineCore 0x0000000116f33089 0x1130cd000 + 65429641
5 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
6 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
7 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
8 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
9 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
11 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 9:: CompositorTileWorker1
0 libsystem_kernel.dylib 0x00007fff6ab2d882 __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff6abee425 _pthread_cond_wait + 698
2 QtWebEngineCore 0x0000000116ff58bb 0x1130cd000 + 66226363
3 QtWebEngineCore 0x00000001190c655d 0x1130cd000 + 100635997
4 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
5 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
6 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 10:: Chrome_InProcGpuThread
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116ffd78f 0x1130cd000 + 66258831
4 QtWebEngineCore 0x0000000116f33089 0x1130cd000 + 65429641
5 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
6 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
7 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
8 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
9 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
11 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 11:: Chrome_ChildIOThread
0 libsystem_kernel.dylib 0x00007fff6ab33b96 kevent64 + 10
1 QtWebEngineCore 0x000000011702f5ca 0x1130cd000 + 66463178
2 QtWebEngineCore 0x000000011702f4c7 0x1130cd000 + 66462919
3 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
4 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
5 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
6 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
7 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
8 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 12:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116ffd78f 0x1130cd000 + 66258831
4 QtWebEngineCore 0x0000000116f33089 0x1130cd000 + 65429641
5 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
6 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
7 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
8 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
9 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
11 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 13:: VizCompositorThread
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116ffd78f 0x1130cd000 + 66258831
4 QtWebEngineCore 0x0000000116f33089 0x1130cd000 + 65429641
5 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
6 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
7 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
8 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
9 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
11 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 14:: NetworkService
0 libsystem_kernel.dylib 0x00007fff6ab33b96 kevent64 + 10
1 QtWebEngineCore 0x000000011702f5ca 0x1130cd000 + 66463178
2 QtWebEngineCore 0x000000011702f4c7 0x1130cd000 + 66462919
3 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
4 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
5 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
6 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
7 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
8 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
9 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 15:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116ffd78f 0x1130cd000 + 66258831
4 QtWebEngineCore 0x0000000116f33089 0x1130cd000 + 65429641
5 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
6 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
7 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
8 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
9 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
11 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 16:: ThreadPoolSingleThreadForegroundBlocking0
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116fc1d5f 0x1130cd000 + 66014559
4 QtWebEngineCore 0x0000000116fc280c 0x1130cd000 + 66017292
5 QtWebEngineCore 0x0000000116fc246d 0x1130cd000 + 66016365
6 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 17:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116ffd78f 0x1130cd000 + 66258831
4 QtWebEngineCore 0x0000000116f33089 0x1130cd000 + 65429641
5 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
6 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
7 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
8 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
9 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
11 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 18:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116fc1d5f 0x1130cd000 + 66014559
4 QtWebEngineCore 0x0000000116fc280c 0x1130cd000 + 66017292
5 QtWebEngineCore 0x0000000116fc237d 0x1130cd000 + 66016125
6 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 19:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff30b14ef5 __CFRunLoopServiceMachPort + 247
3 com.apple.CoreFoundation 0x00007fff30b139c2 __CFRunLoopRun + 1319
4 com.apple.CoreFoundation 0x00007fff30b12e3e CFRunLoopRunSpecific + 462
5 com.apple.AppKit 0x00007fff2df26954 _NSEventThread + 132
6 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
7 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 20:: MemoryInfra
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116ffd78f 0x1130cd000 + 66258831
4 QtWebEngineCore 0x0000000116f33089 0x1130cd000 + 65429641
5 QtWebEngineCore 0x0000000116fac19c 0x1130cd000 + 65925532
6 QtWebEngineCore 0x0000000116f63ff8 0x1130cd000 + 65630200
7 QtWebEngineCore 0x0000000116fce458 0x1130cd000 + 66065496
8 QtWebEngineCore 0x0000000116fce5ea 0x1130cd000 + 66065898
9 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
10 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
11 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 21:: ThreadPoolSingleThreadSharedBackgroundBlocking1
0 libsystem_kernel.dylib 0x00007fff6ab2adfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6ab2b170 mach_msg + 60
2 QtWebEngineCore 0x0000000116ffd9c6 0x1130cd000 + 66259398
3 QtWebEngineCore 0x0000000116fc1d5f 0x1130cd000 + 66014559
4 QtWebEngineCore 0x0000000116fc253a 0x1130cd000 + 66016570
5 QtWebEngineCore 0x0000000116fc23ad 0x1130cd000 + 66016173
6 QtWebEngineCore 0x0000000116ff64a8 0x1130cd000 + 66229416
7 libsystem_pthread.dylib 0x00007fff6abee109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6abe9b8b thread_start + 15
Thread 22:
0 libsystem_pthread.dylib 0x00007fff6abe9b68 start_wqthread + 0
Thread 23:
0 libsystem_pthread.dylib 0x00007fff6abe9b68 start_wqthread + 0
Thread 24:
0 libsystem_pthread.dylib 0x00007fff6abe9b68 start_wqthread + 0
Thread 25:
0 libsystem_pthread.dylib 0x00007fff6abe9b68 start_wqthread + 0
Thread 26:
0 libsystem_pthread.dylib 0x00007fff6abe9b68 start_wqthread + 0
Thread 27:
0 libsystem_pthread.dylib 0x00007fff6abe9b68 start_wqthread + 0
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x000000010ac52dc0 rcx: 0x00007fc69a855a58 rdx: 0x0000000000000000
rdi: 0x0000000000000307 rsi: 0x000000000000000b rbp: 0x00007fc69a855a80 rsp: 0x00007fc69a855a58
r8: 0x00007fc69a855f48 r9: 0xb00d54c199438f67 r10: 0x000000010ac52dc0 r11: 0x0000000000000246
r12: 0x0000000000000307 r13: 0x0000600002cc9270 r14: 0x000000000000000b r15: 0x0000000000000016
rip: 0x00007fff6ab3133a rfl: 0x0000000000000246 cr2: 0x00007fc69a855f48
Logical CPU: 0
Error Code: 0x02000148
Trap Number: 133
Binary Images:
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0x1028e6000 - 0x10656fb47 +libopenblas64_.0.dylib (0) /Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/.dylibs/libopenblas64_.0.dylib
0x10682b000 - 0x106942ff7 +libgfortran.3.dylib (0) /Applications/ChimeraX-1.4-rc2022.05.20.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/.dylibs/libgfortran.3.dylib
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0x7fff6aad2000 - 0x7fff6aad9fff libsystem_dnssd.dylib (1096.100.3) /usr/lib/system/libsystem_dnssd.dylib
0x7fff6aada000 - 0x7fff6aadbffb libsystem_featureflags.dylib (17) /usr/lib/system/libsystem_featureflags.dylib
0x7fff6aadc000 - 0x7fff6ab29ff7 libsystem_info.dylib (538) /usr/lib/system/libsystem_info.dylib
0x7fff6ab2a000 - 0x7fff6ab56ff7 libsystem_kernel.dylib (6153.141.2) /usr/lib/system/libsystem_kernel.dylib
0x7fff6ab57000 - 0x7fff6ab9efff libsystem_m.dylib (3178) /usr/lib/system/libsystem_m.dylib
0x7fff6ab9f000 - 0x7fff6abc6fff libsystem_malloc.dylib (283.100.6) /usr/lib/system/libsystem_malloc.dylib
0x7fff6abc7000 - 0x7fff6abd4ffb libsystem_networkextension.dylib (1095.140.2) /usr/lib/system/libsystem_networkextension.dylib
0x7fff6abd5000 - 0x7fff6abdeff7 libsystem_notify.dylib (241.100.2) /usr/lib/system/libsystem_notify.dylib
0x7fff6abdf000 - 0x7fff6abe7fef libsystem_platform.dylib (220.100.1) /usr/lib/system/libsystem_platform.dylib
0x7fff6abe8000 - 0x7fff6abf2fff libsystem_pthread.dylib (416.100.3) /usr/lib/system/libsystem_pthread.dylib
0x7fff6abf3000 - 0x7fff6abf7ff3 libsystem_sandbox.dylib (1217.141.2) /usr/lib/system/libsystem_sandbox.dylib
0x7fff6abf8000 - 0x7fff6abfafff libsystem_secinit.dylib (62.100.2) /usr/lib/system/libsystem_secinit.dylib
0x7fff6abfb000 - 0x7fff6ac02ffb libsystem_symptoms.dylib (1238.120.1) /usr/lib/system/libsystem_symptoms.dylib
0x7fff6ac03000 - 0x7fff6ac19ff2 libsystem_trace.dylib (1147.120) /usr/lib/system/libsystem_trace.dylib
0x7fff6ac1b000 - 0x7fff6ac20ff7 libunwind.dylib (35.4) /usr/lib/system/libunwind.dylib
0x7fff6ac21000 - 0x7fff6ac56ffe libxpc.dylib (1738.140.1) /usr/lib/system/libxpc.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 1
thread_create: 0
thread_set_state: 0
Calls made by this process:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
Calls made by all processes on this machine:
task_for_pid: 489264
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=1.9G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.9G(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 384K 3
Activity Tracing 256K 1
CG backing stores 992K 2
CG image 236K 15
CoreAnimation 228K 20
CoreGraphics 8K 1
CoreImage 24K 2
CoreUI image data 2668K 23
Foundation 4K 1
Kernel Alloc Once 8K 1
MALLOC 1.1G 642
MALLOC guard page 32K 8
MALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)
MALLOC_NANO (reserved) 384.0M 1 reserved VM address space (unallocated)
Mach message 16K 2
OpenGL GLSL 384K 4
STACK GUARD 108K 27
Stack 149.2M 28
Stack Guard 56.0M 1
VM_ALLOCATE 211.4M 94
VM_ALLOCATE (reserved) 32.0M 1 reserved VM address space (unallocated)
__DATA 63.7M 592
__DATA_CONST 92K 7
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 419.2M 177
__OBJC_RO 32.3M 1
__OBJC_RW 1908K 2
__TEXT 630.7M 562
__UNICODE 564K 1
mapped file 95.4M 48
shared memory 2856K 25
=========== ======= =======
TOTAL 3.2G 2295
TOTAL, minus reserved VM space 2.8G 2295
===== Log before crash start =====
UCSF ChimeraX version: 1.4rc202205200050 (2022-05-20)
© 2016-2022 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/duanjingze/Documents/Mechanosensitive_Ion_Channels/YWang_rotation_result/LH44/gmx_FDA/graph_LHA_sca0_100.pdb
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.4rc202205200050 (2022-05-20)
© 2016-2022 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(R) Iris(TM) Plus Graphics 655
OpenGL vendor: Intel Inc.
Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.3.0, Qt 6.3.0
Qt runtime version: 6.3.0
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro15,2
Processor Name: Quad-Core Intel Core i5
Processor Speed: 2.4 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: 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 3:37
Graphics/Displays:
Intel Iris Plus Graphics 655:
Chipset Model: Intel Iris Plus Graphics 655
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x3ea5
Revision ID: 0x0001
Metal: Supported, feature set macOS GPUFamily2 v1
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Framebuffer Depth: 24-Bit Color (ARGB8888)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: No
Connection Type: Internal
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.3
Babel: 2.10.1
backcall: 0.2.0
blockdiag: 3.0.0
certifi: 2021.10.8
cftime: 1.6.0
charset-normalizer: 2.0.12
ChimeraX-AddCharge: 1.2.3
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2.1
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.4.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.39.1
ChimeraX-AtomicLibrary: 7.0
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.1
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.7
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.1
ChimeraX-CommandLine: 1.2.3
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.4rc202205200050
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.1
ChimeraX-DistMonitor: 1.1.5
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.2
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.6
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.7
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.5.5
ChimeraX-ModelPanel: 1.3.2
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.9
ChimeraX-PDB: 2.6.6
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.8
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.0.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.1
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.18.2
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.1.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.2
cycler: 0.11.0
Cython: 0.29.26
debugpy: 1.6.0
decorator: 5.1.1
docutils: 0.17.1
entrypoints: 0.4
filelock: 3.4.2
fonttools: 4.33.3
funcparserlib: 1.0.0
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.27
imagecodecs: 2021.11.20
imagesize: 1.3.0
ipykernel: 6.6.1
ipython: 7.31.1
ipython-genutils: 0.2.0
jedi: 0.18.1
Jinja2: 3.0.3
jupyter-client: 7.1.0
jupyter-core: 4.10.0
kiwisolver: 1.4.2
line-profiler: 3.4.0
lxml: 4.7.1
lz4: 3.1.10
MarkupSafe: 2.1.1
matplotlib: 3.5.1
matplotlib-inline: 0.1.3
msgpack: 1.0.3
nest-asyncio: 1.5.5
netCDF4: 1.5.8
networkx: 2.6.3
numexpr: 2.8.1
numpy: 1.22.1
openvr: 1.16.802
packaging: 21.0
ParmEd: 3.4.3
parso: 0.8.3
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.0.1
pip: 21.3.1
pkginfo: 1.8.2
prompt-toolkit: 3.0.29
psutil: 5.9.0
ptyprocess: 0.7.0
pycollada: 0.7.2
pydicom: 2.2.2
Pygments: 2.11.2
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
PyQt6-commercial: 6.3.0
PyQt6-Qt6: 6.3.0
PyQt6-sip: 13.3.1
PyQt6-WebEngine-commercial: 6.3.0
PyQt6-WebEngine-Qt6: 6.3.0
python-dateutil: 2.8.2
pytz: 2022.1
pyzmq: 23.0.0
qtconsole: 5.3.0
QtPy: 2.1.0
RandomWords: 0.3.0
requests: 2.27.1
scipy: 1.7.3
setuptools: 59.8.0
sfftk-rw: 0.7.2
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.3.2
sphinx-autodoc-typehints: 1.15.2
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-community: 1.0.0
tables: 3.7.0
tifffile: 2021.11.2
tinyarray: 1.2.4
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.9
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.1
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 3 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Input/Output |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in Residue::ordered_min_backbone_atom_names() |
comment:2 by , 3 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
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Would really need the PDB file in order to track this down.