Crash in num_chains for 4v6w.cif

[Tom Goddard]

open mmcif:4v6w
sym #1 assembly 1

Produces a crash (segmentation violation) in the make_chains() code in contrained_match(). It is at line 204 of seq_assoc.cpp but the next level lower level of the crash dump is unknown.

Opening 4v6w (mmcif only) in Chimera 1 and displaying a sequence works without errors.

Here's the Python stack dumped to the shell, and following that the Mac crash dump.

$ ~/ucsf/chimera2/Chimera2.app/Contents/MacOS/Chimera2
Using 24-bit OpenGL depth buffer
Stereo mode is not supported by OpenGL driver
Fatal Python error: Segmentation fault

Current thread 0x00007fff7393f300 (most recent call first):

File "/Users/goddard/ucsf/chimera2/Chimera2.app/Contents/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/chimera/core/molecule/molc.py", line 24 in get_prop
File "/Users/goddard/ucsf/chimera2/Chimera2.app/Contents/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/chimera/core/sym.py", line 29 in sym
File "/Users/goddard/ucsf/chimera2/Chimera2.app/Contents/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/chimera/core/cli.py", line 1345 in execute
File "/Users/goddard/ucsf/chimera2/Chimera2.app/Contents/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/chimera/cmd_line/gui.py", line 113 in on_enter
File "/Users/goddard/ucsf/chimera2/Chimera2.app/Contents/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/wx/core.py", line 1893 in MainLoop
File "/Users/goddard/ucsf/chimera2/Chimera2.app/Contents/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/chimera/core/gui.py", line 97 in event_loop
File "/Users/goddard/ucsf/chimera2/Chimera2.app/Contents/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/Chimera2_main.py", line 419 in init
File "main.py", line 3 in <module>

Segmentation fault: 11

Mac crash dump:

Process: Chimera2 [75459]
Path: /Users/USER/*/Chimera2.app/Contents/MacOS/Chimera2
Identifier: edu.ucsf.cgl.Chimera2
Version: 2.0.0 (2.0.0.0)
Code Type: X86-64 (Native)
Parent Process: bash [66178]
Responsible: Emacs-10.7 [66169]
User ID: 501

Date/Time: 2015-08-05 13:38:42.914 -0700
OS Version: Mac OS X 10.10.4 (14E46)
Report Version: 11
Anonymous UUID: ADCA02F2-9A59-6574-CF8F-380125498A20

Time Awake Since Boot: 1900000 seconds

Crashed Thread: 0 Dispatch queue: com.apple.main-thread

Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000020

VM Regions Near 0x20:
-->

TEXT 000000010e2a5000-000000010e2a6000 [ 4K] r-x/rwx SM=COW /Users/USER/*/Chimera2.app/Contents/bin/Chimera2

Application Specific Information:
Performing @selector(controlAction:) from sender wxNSComboBox 0x7fd0820de420

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff89016c82 kill + 10
1 ??? 000000000000000000 0 + 0
2 libatomstruct.dylib 0x0000000110455a74 atomstruct::_constrained(std::1::vector<char, std::1::allocator<char> > const&, atomstruct::AssocParams&, std::1::vector<int, std::1::allocator<int> >&, unsigned int) + 7828 (seq_assoc.cpp:204)
3 libatomstruct.dylib 0x000000011045364e atomstruct::constrained_match(std::1::vector<char, std::1::allocator<char> > const&, atomstruct::Chain const&, atomstruct::AssocParams const&, unsigned int) + 1086 (seq_assoc.cpp:286)
4 libatomstruct.dylib 0x0000000110458cae atomstruct::try_assoc(atomstruct::Sequence const&, atomstruct::Chain const&, atomstruct::AssocParams const&, unsigned int) + 1934 (seq_assoc.cpp:404)
5 libatomstruct.dylib 0x00000001103bc32c atomstruct::AtomicStructure::make_chains() const + 13564 (AtomicStructure.cpp:425)
6 libmolc.dylib 0x000000011031c265 structure_num_chains + 53
7 _ctypes.so 0x000000010f111697 ffi_call_unix64 + 79 (darwin64.S:79)
8 _ctypes.so 0x000000010f111ef8 ffi_call + 872 (x86-ffi64.c:581)
9 _ctypes.so 0x000000010f10d05b _ctypes_callproc + 891 (callproc.c:811)
10 _ctypes.so 0x000000010f1072f1 PyCFuncPtr_call + 1057 (_ctypes.c:3848)
11 org.python.python 0x000000010e2b8bc7 PyObject_Call + 103 (abstract.c:2040)
12 org.python.python 0x000000010e36e5ae PyEval_EvalFrameEx + 20958 (ceval.c:4466)
13 org.python.python 0x000000010e369267 PyEval_EvalCodeEx + 2567 (ceval.c:3588)
14 org.python.python 0x000000010e2de13d function_call + 381 (funcobject.c:632)
15 org.python.python 0x000000010e2b8bc7 PyObject_Call + 103 (abstract.c:2040)
16 org.python.python 0x000000010e2b4367 PyObject_CallFunctionObjArgs + 359 (abstract.c:2332)
17 org.python.python 0x000000010e2fb2fe _PyObject_GenericGetAttrWithDict + 142 (object.c:1043)
18 org.python.python 0x000000010e36cade PyEval_EvalFrameEx + 14094 (ceval.c:2420)
19 org.python.python 0x000000010e369267 PyEval_EvalCodeEx + 2567 (ceval.c:3588)
20 org.python.python 0x000000010e2de13d function_call + 381 (funcobject.c:632)
21 org.python.python 0x000000010e2b8bc7 PyObject_Call + 103 (abstract.c:2040)
22 org.python.python 0x000000010e36f01f PyEval_EvalFrameEx + 23631 (ceval.c:4561)
23 org.python.python 0x000000010e369267 PyEval_EvalCodeEx + 2567 (ceval.c:3588)
24 org.python.python 0x000000010e37202c fast_function + 316 (ceval.c:4348)
25 org.python.python 0x000000010e36e314 PyEval_EvalFrameEx + 20292 (ceval.c:4262)
26 org.python.python 0x000000010e369267 PyEval_EvalCodeEx + 2567 (ceval.c:3588)
27 org.python.python 0x000000010e2de13d function_call + 381 (funcobject.c:632)
28 org.python.python 0x000000010e2b8bc7 PyObject_Call + 103 (abstract.c:2040)
29 org.python.python 0x000000010e2cc1bd method_call + 141 (classobject.c:347)
30 org.python.python 0x000000010e2b8bc7 PyObject_Call + 103 (abstract.c:2040)
31 org.python.python 0x000000010e37165d PyEval_CallObjectWithKeywords + 93 (ceval.c:4114)
32 _core.so 0x0000000110a521fc wxPyCallback::EventThunker(wxEvent&) + 284 (sip_corewxEvtHandler.cpp:70)
33 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111a91dba wxEvtHandler::SearchDynamicEventTable(wxEvent&) + 186
34 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111a91b2b wxEvtHandler::ProcessEventLocally(wxEvent&) + 59
35 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111a91a3e wxEvtHandler::ProcessEvent(wxEvent&) + 190
36 _core.so 0x00000001109a57ea sipwxComboBox::ProcessEvent(wxEvent&) + 154 (sip_corewxComboBox.cpp:439)
37 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111a91e5f wxEvtHandler::SafelyProcessEvent(wxEvent&) + 15
38 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111b94f86 wxNSTextFieldControl::controlAction(NSView*, void*, void*) + 166
39 libsystem_trace.dylib 0x00007fff8c1aecd7 _os_activity_initiate + 75
40 com.apple.AppKit 0x00007fff895fdeb1 -[NSApplication sendAction:to:from:] + 452
41 com.apple.AppKit 0x00007fff89613946 -[NSControl sendAction:to:] + 86
42 com.apple.AppKit 0x00007fff896505df -[NSTextField textDidEndEditing:] + 853
43 com.apple.CoreFoundation 0x00007fff8ec6745c CFNOTIFICATIONCENTER_IS_CALLING_OUT_TO_AN_OBSERVER + 12
44 com.apple.CoreFoundation 0x00007fff8eb57634 _CFXNotificationPost + 3140
45 com.apple.Foundation 0x00007fff8f59f9d1 -[NSNotificationCenter postNotificationName:object:userInfo:] + 66
46 com.apple.AppKit 0x00007fff8975b847 -[NSTextView(NSPrivate) _giveUpFirstResponder:] + 423
47 com.apple.AppKit 0x00007fff897d7812 -[NSTextView(NSKeyBindingCommands) insertNewline:] + 239
48 com.apple.AppKit 0x00007fff896a3ef1 -[NSTextView doCommandBySelector:] + 195
49 com.apple.AppKit 0x00007fff896a3e01 -[NSTextInputContext(NSInputContext_WithCompletion) doCommandBySelector:completionHandler:] + 118
50 com.apple.AppKit 0x00007fff89689c23 -[NSKeyBindingManager(NSKeyBindingManager_MultiClients) interpretEventAsCommand:forClient:] + 1899
51 com.apple.AppKit 0x00007fff89c50272 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke972 + 335
52 com.apple.AppKit 0x00007fff8968bbff -[NSTextInputContext(NSInputContext_WithCompletion) hasMarkedTextWithCompletionHandler:] + 76
53 com.apple.AppKit 0x00007fff896a3d03 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke_3 + 95
54 com.apple.AppKit 0x00007fff8969ced8 -[NSTextInputContext tryHandleEvent_HasMarkedText_withDispatchCondition:dispatchWork:continuation:] + 101
55 com.apple.AppKit 0x00007fff89c50074 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke960 + 321
56 com.apple.HIToolbox 0x00007fff88a6fd4f TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_5 + 70
57 com.apple.HIToolbox 0x00007fff88a6ec45 _ZL23DispatchEventToHandlersP14EventTargetRecP14OpaqueEventRefP14HandlerCallRec_block_invoke + 108
58 com.apple.AppKit 0x00007fff8968c606 55-[NSTextInputContext handleTSMEvent:completionHandler:]_block_invoke174 + 2387
59 com.apple.AppKit 0x00007fff8968bbff -[NSTextInputContext(NSInputContext_WithCompletion) hasMarkedTextWithCompletionHandler:] + 76
60 com.apple.AppKit 0x00007fff8968bba0 55-[NSTextInputContext handleTSMEvent:completionHandler:]_block_invoke_2 + 95
61 com.apple.AppKit 0x00007fff8968bb18 -[NSTextInputContext tryHandleTSMEvent_HasMarkedText_withDispatchCondition:dispatchWork:continuation:] + 101
62 com.apple.AppKit 0x00007fff8968b7d5 -[NSTextInputContext handleTSMEvent:completionHandler:] + 3122
63 com.apple.AppKit 0x00007fff8968ab2e _NSTSMEventHandler + 324
64 com.apple.HIToolbox 0x00007fff88a08b6c DispatchEventToHandlers(EventTargetRec*, OpaqueEventRef*, HandlerCallRec*) + 1260
65 com.apple.HIToolbox 0x00007fff88a07fae SendEventToEventTargetInternal(OpaqueEventRef*, OpaqueEventTargetRef*, HandlerCallRec*) + 386
66 com.apple.HIToolbox 0x00007fff88a07e22 SendEventToEventTargetWithOptions + 43
67 com.apple.HIToolbox 0x00007fff88a6c26c SendTSMEvent_WithCompletionHandler + 417
68 com.apple.HIToolbox 0x00007fff88a6c76c SendUnicodeTextAEToUnicodeDoc_WithCompletionHandler_block_invoke + 400
69 com.apple.HIToolbox 0x00007fff88a6c5a6 SendFilterTextEvent_WithCompletionHandler_block_invoke + 189
70 com.apple.HIToolbox 0x00007fff88a6c2c0 SendTSMEvent_WithCompletionHandler + 501
71 com.apple.HIToolbox 0x00007fff88a6c08f SendFilterTextEvent_WithCompletionHandler + 236
72 com.apple.HIToolbox 0x00007fff88a6bd51 SendUnicodeTextAEToUnicodeDoc_WithCompletionHandler + 295
73 com.apple.HIToolbox 0x00007fff88a6bae9 utDeliverTSMEvent_WithCompletionHandler_block_invoke_2 + 296
74 com.apple.HIToolbox 0x00007fff88a6b988 utDeliverTSMEvent_WithCompletionHandler_block_invoke + 437
75 com.apple.HIToolbox 0x00007fff88a6b7cd TSMKeyEvent_WithCompletionHandler + 701
76 com.apple.HIToolbox 0x00007fff88a6b4d0 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_4 + 251
77 com.apple.HIToolbox 0x00007fff88a6b386 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_3 + 330
78 com.apple.HIToolbox 0x00007fff88a6b112 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_2 + 259
79 com.apple.HIToolbox 0x00007fff88a6af25 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke + 251
80 com.apple.HIToolbox 0x00007fff88a4f76f TSMProcessRawKeyEventWithOptionsAndCompletionHandler + 3068
81 com.apple.AppKit 0x00007fff89c4fe86 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke949 + 131
82 com.apple.AppKit 0x00007fff89689352 -[NSTextInputContext tryTSMProcessRawKeyEvent:dispatchCondition:setupForDispatch:furtherCondition:dispatchWork:continuation:] + 127
83 com.apple.AppKit 0x00007fff89689085 -[NSTextInputContext _handleEvent:options:completionHandler:] + 1266
84 com.apple.AppKit 0x00007fff89688b4e -[NSTextInputContext handleEvent:] + 109
85 com.apple.AppKit 0x00007fff89688a54 -[NSView interpretKeyEvents:] + 207
86 com.apple.AppKit 0x00007fff8968886a -[NSTextView keyDown:] + 695
87 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111b91eee -[wxNSTextFieldEditor keyDown:] + 110
88 com.apple.AppKit 0x00007fff89b780fb -[NSWindow _reallySendEvent:isDelayedEvent:] + 5452
89 com.apple.AppKit 0x00007fff89509c86 -[NSWindow sendEvent:] + 470
90 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111b8a7c6 -[wxNSWindow sendEvent:] + 118
91 com.apple.AppKit 0x00007fff895068b1 -[NSApplication sendEvent:] + 4199
92 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111a9ff36 -[wxNSApplication sendEvent:] + 134
93 com.apple.AppKit 0x00007fff8942fb68 -[NSApplication run] + 711
94 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111b7eec3 wxGUIEventLoop::OSXDoRun() + 115
95 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111a5cc14 wxCFEventLoop::DoRun() + 52
96 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000111987b45 wxEventLoopBase::Run() + 165
97 libwx_osx_cocoau-3.0.0.3.0.dylib 0x000000011194bee1 wxAppConsoleBase::MainLoop() + 209
98 _core.so 0x0000000110cceee5 wxPyApp::MainLoop() + 181 (sip_corewxPyApp.cpp:316)
99 _core.so 0x0000000110cd265d meth_wxPyApp_MainLoop(_object*, _object*) + 205 (sip_corewxPyApp.cpp:1794)
100 org.python.python 0x000000010e36e913 PyEval_EvalFrameEx + 21827 (ceval.c:4237)
101 org.python.python 0x000000010e371fc2 fast_function + 210 (ceval.c:4334)
102 org.python.python 0x000000010e36e314 PyEval_EvalFrameEx + 20292 (ceval.c:4262)
103 org.python.python 0x000000010e371fc2 fast_function + 210 (ceval.c:4334)
104 org.python.python 0x000000010e36e314 PyEval_EvalFrameEx + 20292 (ceval.c:4262)
105 org.python.python 0x000000010e369267 PyEval_EvalCodeEx + 2567 (ceval.c:3588)
106 org.python.python 0x000000010e37202c fast_function + 316 (ceval.c:4348)
107 org.python.python 0x000000010e36e314 PyEval_EvalFrameEx + 20292 (ceval.c:4262)
108 org.python.python 0x000000010e369267 PyEval_EvalCodeEx + 2567 (ceval.c:3588)
109 org.python.python 0x000000010e36884f PyEval_EvalCode + 63 (ceval.c:775)
110 org.python.python 0x000000010e388ab5 PyImport_ImportFrozenModuleObject + 469 (import.c:869)
111 org.python.python 0x000000010e388ba2 PyImport_ImportFrozenModule + 34 (import.c:1291)
112 org.python.python 0x000000010e38245e Py_FrozenMain + 430 (frozenmain.c:84)
113 libdyld.dylib 0x00007fff831795c9 start + 1

Thread 1:: Dispatch queue: com.apple.libdispatch-manager
0 libsystem_kernel.dylib 0x00007fff89018232 kevent64 + 10
1 libdispatch.dylib 0x00007fff87692a6a _dispatch_mgr_thread + 52

Thread 2:
0 libsystem_kernel.dylib 0x00007fff8901794a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8b89840d start_wqthread + 13

Thread 3:
0 libsystem_kernel.dylib 0x00007fff8901794a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8b89840d start_wqthread + 13

Thread 4:
0 libsystem_kernel.dylib 0x00007fff8901794a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8b89840d start_wqthread + 13

Thread 5:
0 libsystem_kernel.dylib 0x00007fff890124de mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff8901164f mach_msg + 55
2 com.apple.CoreFoundation 0x00007fff8ebb9eb4 CFRunLoopServiceMachPort + 212
3 com.apple.CoreFoundation 0x00007fff8ebb937b CFRunLoopRun + 1371
4 com.apple.CoreFoundation 0x00007fff8ebb8bd8 CFRunLoopRunSpecific + 296
5 com.apple.AppKit 0x00007fff8950256b _NSEventThread + 137
6 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
7 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
8 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 6:
0 libsystem_kernel.dylib 0x00007fff8901794a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8b89840d start_wqthread + 13

Thread 7:
0 libsystem_kernel.dylib 0x00007fff8901794a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8b89840d start_wqthread + 13

Thread 8:: OGL Profiler
0 libsystem_kernel.dylib 0x00007fff890124de mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff8901164f mach_msg + 55
2 com.apple.opengl 0x00007fff912a0a79 glcDebugListener + 336
3 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
4 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
5 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 9:: JavaScriptCore::BlockFree
0 libsystem_kernel.dylib 0x00007fff89017136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff91715c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff8d64d544 JSC::BlockAllocator::blockFreeingThreadMain() + 228
3 com.apple.JavaScriptCore 0x00007fff8d642cff WTF::wtfThreadEntryPoint(void*) + 15
4 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
5 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
6 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 10:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff89017136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff91715c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff8d64dadb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff8d64d938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff8d642cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 11:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff89017136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff91715c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff8d64dadb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff8d64d938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff8d642cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 12:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff89017136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff91715c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff8d64dadb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff8d64d938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff8d642cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 13:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff89017136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff91715c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff8d64dadb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff8d64d938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff8d642cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 14:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff89017136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff91715c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff8d64dadb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff8d64d938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff8d642cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 15:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff89017136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff91715c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff8d64dadb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff8d64d938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff8d642cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 16:: com.apple.NSURLConnectionLoader
0 libsystem_kernel.dylib 0x00007fff890124de mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff8901164f mach_msg + 55
2 com.apple.CoreFoundation 0x00007fff8ebb9eb4 CFRunLoopServiceMachPort + 212
3 com.apple.CoreFoundation 0x00007fff8ebb937b CFRunLoopRun + 1371
4 com.apple.CoreFoundation 0x00007fff8ebb8bd8 CFRunLoopRunSpecific + 296
5 com.apple.CFNetwork 0x00007fff84ef3220 +[NSURLConnection(Loader) _resourceLoadLoop:] + 434
6 com.apple.Foundation 0x00007fff8f5d6dc2 NSThreadmain + 1345
7 libsystem_pthread.dylib 0x00007fff8b89a268 _pthread_body + 131
8 libsystem_pthread.dylib 0x00007fff8b89a1e5 _pthread_start + 176
9 libsystem_pthread.dylib 0x00007fff8b89841d thread_start + 13

Thread 0 crashed with X86 Thread State (64-bit):

rax: 0x0000000000000000 rbx: 0x000000010e659f48 rcx: 0x000000010e659aa8 rdx: 0x0000000000000000
rdi: 0x00000000000126c3 rsi: 0x000000000000000b rbp: 0x000000010e659ab0 rsp: 0x000000010e659aa8

r8: 0x000000010e659f48 r9: 0x0000000000000000 r10: 0x00007fff89018c22 r11: 0x0000000000000202

r12: 0x0000000000000001 r13: 0x00007fd0869ed8a0 r14: 0x0000000110307f78 r15: 0x000000011b131230
rip: 0x00007fff89016c82 rfl: 0x0000000000000202 cr2: 0x000000010e3a19b0

Logical CPU: 0
Error Code: 0x02000025
Trap Number: 133

Binary Images:

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0x7fff8d3fb000 - 0x7fff8d462ffb com.apple.datadetectorscore (6.0 - 396.1.1) <2127914D-0F8B-3032-9E25-E4209531D948> /System/Library/PrivateFrameworks/DataDetectorsCore.framework/Versions/A/DataDetectorsCore
0x7fff8d463000 - 0x7fff8d474ff7 libz.1.dylib (55) <88C7C7DE-04B8-316F-8B74-ACD9F3DE1AA1> /usr/lib/libz.1.dylib
0x7fff8d475000 - 0x7fff8d58effb com.apple.CoreText (352.0 - 454.9) <BBAB8852-40E5-3B76-A7AA-8098B69EF348> /System/Library/Frameworks/CoreText.framework/Versions/A/CoreText
0x7fff8d58f000 - 0x7fff8d591fff libquarantine.dylib (76.20.1) <7AF90041-2768-378A-925A-D83161863642> /usr/lib/system/libquarantine.dylib
0x7fff8d5fe000 - 0x7fff8d637fff com.apple.AirPlaySupport (2.0 - 215.18) <A7730005-A538-30E8-815B-727957D74C89> /System/Library/PrivateFrameworks/AirPlaySupport.framework/Versions/A/AirPlaySupport
0x7fff8d638000 - 0x7fff8db4dffb com.apple.JavaScriptCore (10600 - 10600.7.12) <AB93CD01-8F15-3727-9507-E0ED34A1D3B5> /System/Library/Frameworks/JavaScriptCore.framework/Versions/A/JavaScriptCore
0x7fff8db4e000 - 0x7fff8db9dff7 com.apple.opencl (2.4.2 - 2.4.2) <EB365E68-9965-3596-A40A-D1E372F3A9B3> /System/Library/Frameworks/OpenCL.framework/Versions/A/OpenCL
0x7fff8e74e000 - 0x7fff8e752fff libCoreVMClient.dylib (79.1) <201EF6DF-5074-3CB7-A361-398CF957A264> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreVMClient.dylib
0x7fff8e753000 - 0x7fff8e755ff7 libsystem_coreservices.dylib (9) <41B7C578-5A53-31C8-A96F-C73E030B0938> /usr/lib/system/libsystem_coreservices.dylib
0x7fff8e756000 - 0x7fff8e7c4ffb com.apple.Heimdal (4.0 - 2.0) <E376CB36-6A8E-36A8-88E7-D06948417D58> /System/Library/PrivateFrameworks/Heimdal.framework/Versions/A/Heimdal
0x7fff8e7c5000 - 0x7fff8e7f5fff libsystem_m.dylib (3086.1) <1E12AB45-6D96-36D0-A226-F24D9FB0D9D6> /usr/lib/system/libsystem_m.dylib
0x7fff8e7f6000 - 0x7fff8e821fff libc++abi.dylib (125) <88A22A0F-87C6-3002-BFBA-AC0F2808B8B9> /usr/lib/libc++abi.dylib
0x7fff8e822000 - 0x7fff8e875ffb libAVFAudio.dylib (118.6) <2441D4C1-D8FB-3DA9-9DD7-914E03413882> /System/Library/Frameworks/AVFoundation.framework/Versions/A/Resources/libAVFAudio.dylib
0x7fff8e87e000 - 0x7fff8e912fff com.apple.ink.framework (10.9 - 213) <8E029630-1530-3734-A446-13353F0E7AC5> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/Ink.framework/Versions/A/Ink
0x7fff8e913000 - 0x7fff8e91eff7 libcsfde.dylib (471.30.1) <A62AE3D8-E2A6-314A-BF45-804003BE0AC9> /usr/lib/libcsfde.dylib
0x7fff8ea56000 - 0x7fff8ea62ff7 com.apple.OpenDirectory (10.10 - 187) <2A6F3C10-71EE-3ABE-AD71-0B68F13B9C79> /System/Library/Frameworks/OpenDirectory.framework/Versions/A/OpenDirectory
0x7fff8ea75000 - 0x7fff8eac4ff7 libstdc++.6.dylib (104.1) <803F6AC8-87DC-3E24-9E80-729B551F6FFF> /usr/lib/libstdc++.6.dylib
0x7fff8eaf1000 - 0x7fff8eb11ff7 com.apple.MultitouchSupport.framework (264.6 - 264.6) <B4BDB2C0-5D4E-30F4-8EB0-CC16C91DF418> /System/Library/PrivateFrameworks/MultitouchSupport.framework/Versions/A/MultitouchSupport
0x7fff8eb12000 - 0x7fff8eb16fff libpam.2.dylib (20) <E805398D-9A92-31F8-8005-8DC188BD8B6E> /usr/lib/libpam.2.dylib
0x7fff8eb47000 - 0x7fff8eedfff7 com.apple.CoreFoundation (6.9 - 1153.18) <5C0892B8-9691-341F-9279-CA3A74D59AA0> /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation
0x7fff8eef3000 - 0x7fff8f0d8ff7 libicucore.A.dylib (531.48) <3CD34752-B1F9-31D2-865D-B5B0F0BE3111> /usr/lib/libicucore.A.dylib
0x7fff8f0d9000 - 0x7fff8f0eafff libcmph.dylib (1) <46EC3997-DB5E-38AE-BBBB-A035A54AD3C0> /usr/lib/libcmph.dylib
0x7fff8f0eb000 - 0x7fff8f0ecfff com.apple.TrustEvaluationAgent (2.0 - 25) <2D61A2C3-C83E-3A3F-8EC1-736DBEC250AB> /System/Library/PrivateFrameworks/TrustEvaluationAgent.framework/Versions/A/TrustEvaluationAgent
0x7fff8f0ed000 - 0x7fff8f106ff3 com.apple.openscripting (1.6.4 - 162.2) <BF79207B-C762-346D-8FF0-3DDCECC9E9E2> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/OpenScripting.framework/Versions/A/OpenScripting
0x7fff8f107000 - 0x7fff8f142fff com.apple.Symbolication (1.4 - 56045) <D64571B1-4483-3FE2-BD67-A91360F79727> /System/Library/PrivateFrameworks/Symbolication.framework/Versions/A/Symbolication
0x7fff8f17d000 - 0x7fff8f195ff7 libexpat.1.dylib (12) <C5FE8836-E277-3162-9D15-6735321CB2C6> /usr/lib/libexpat.1.dylib
0x7fff8f211000 - 0x7fff8f4f8ffb com.apple.CoreServices.CarbonCore (1108.6 - 1108.6) <8953580E-7857-33B2-AA64-98296830D3A8> /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/CarbonCore.framework/Versions/A/CarbonCore
0x7fff8f4f9000 - 0x7fff8f4f9ff7 libunc.dylib (29) <5676F7EA-C1DF-329F-B006-D2C3022B7D70> /usr/lib/system/libunc.dylib
0x7fff8f518000 - 0x7fff8f58afff com.apple.framework.IOKit (2.0.2 - 1050.20.2) <09C0518C-90DF-3FC3-96D6-34D35F72C8EF> /System/Library/Frameworks/IOKit.framework/Versions/A/IOKit
0x7fff8f598000 - 0x7fff8f8c9fff com.apple.Foundation (6.9 - 1153.20) <F0FF3A5D-C5B7-34A1-9319-DE1EF928E58E> /System/Library/Frameworks/Foundation.framework/Versions/C/Foundation
0x7fff8f9e9000 - 0x7fff8fa02ff7 com.apple.CFOpenDirectory (10.10 - 187) <2BF2705E-2CC6-37E7-BD49-D4B4E01591E3> /System/Library/Frameworks/OpenDirectory.framework/Versions/A/Frameworks/CFOpenDirectory.framework/Versions/A/CFOpenDirectory
0x7fff8fa28000 - 0x7fff8fcf7ff3 com.apple.CoreImage (10.3.4) <C1AE8252-A95D-3BF4-83B8-BE85E979F2CB> /System/Library/Frameworks/QuartzCore.framework/Versions/A/Frameworks/CoreImage.framework/Versions/A/CoreImage
0x7fff8fd01000 - 0x7fff90cc3ffb com.apple.WebCore (10600 - 10600.7.11) <930FAFBB-C906-3017-A62B-5AE3B404A168> /System/Library/Frameworks/WebKit.framework/Versions/A/Frameworks/WebCore.framework/Versions/A/WebCore
0x7fff90cc4000 - 0x7fff9109bfe7 com.apple.CoreAUC (211.1.0 - 211.1.0) <12645629-E065-388E-A6B5-094A240578CE> /System/Library/PrivateFrameworks/CoreAUC.framework/Versions/A/CoreAUC
0x7fff9109c000 - 0x7fff9118fff7 libJP2.dylib (1238) <008AE93E-FB7F-3217-8220-0C1A6BEBFE0F> /System/Library/Frameworks/ImageIO.framework/Versions/A/Resources/libJP2.dylib
0x7fff91190000 - 0x7fff91282fff libxml2.2.dylib (26) <B834E7C8-EC3E-3382-BC5A-DA38DC4D720C> /usr/lib/libxml2.2.dylib
0x7fff9129f000 - 0x7fff912adff7 com.apple.opengl (11.1.2 - 11.1.2) <5F355713-4637-33CD-9CBA-4B4CA43FB0FE> /System/Library/Frameworks/OpenGL.framework/Versions/A/OpenGL
0x7fff91422000 - 0x7fff9142afff libMatch.1.dylib (24) <C917279D-33C2-38A8-9BDD-18F3B24E6FBD> /usr/lib/libMatch.1.dylib
0x7fff9142b000 - 0x7fff91465ffb com.apple.DebugSymbols (115 - 115) <6F03761D-7C3A-3C80-8031-AA1C1AD7C706> /System/Library/PrivateFrameworks/DebugSymbols.framework/Versions/A/DebugSymbols
0x7fff91466000 - 0x7fff914a7fff libGLU.dylib (11.1.2) <2BA52A8D-ED35-3D86-B2D6-41479969C96D> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLU.dylib
0x7fff914a8000 - 0x7fff914b0fe7 libcldcpuengine.dylib (2.4.5) <6CC680F9-0D13-333B-B151-F0D9C631A1E5> /System/Library/Frameworks/OpenCL.framework/Versions/A/Libraries/libcldcpuengine.dylib
0x7fff914b1000 - 0x7fff914ddfff libsandbox.1.dylib (358.20.5) <931BB6B5-F207-344A-8596-F1D0BB910C9A> /usr/lib/libsandbox.1.dylib
0x7fff9150c000 - 0x7fff91598ff7 libsystem_c.dylib (1044.10.1) <86FBED7A-F2C8-3591-AD6F-486DD57E6B6A> /usr/lib/system/libsystem_c.dylib
0x7fff915c6000 - 0x7fff915ceffb libcopyfile.dylib (118.1.2) <0C68D3A6-ACDD-3EF3-991A-CC82C32AB836> /usr/lib/system/libcopyfile.dylib
0x7fff916ea000 - 0x7fff916efffb libheimdal-asn1.dylib (398.10.1) <D362D79B-CC4F-3E62-9BC7-9B645BEBBF4E> /usr/lib/libheimdal-asn1.dylib
0x7fff916f0000 - 0x7fff9170bff7 libCRFSuite.dylib (34) <D64842BE-7BD4-3D0C-9842-1D202F7C2A51> /usr/lib/libCRFSuite.dylib
0x7fff9170c000 - 0x7fff9170dfff libDiagnosticMessagesClient.dylib (100) <2EE8E436-5CDC-34C5-9959-5BA218D507FB> /usr/lib/libDiagnosticMessagesClient.dylib
0x7fff9170e000 - 0x7fff91762fff libc++.1.dylib (120) <1B9530FD-989B-3174-BB1C-BDC159501710> /usr/lib/libc++.1.dylib
0x7fff9179d000 - 0x7fff917c1ff7 com.apple.Sharing (328.17 - 328.17) <AD5E243A-B79F-3D7B-800B-A2C99A1CFEF1> /System/Library/PrivateFrameworks/Sharing.framework/Versions/A/Sharing
0x7fff917eb000 - 0x7fff91838ff7 com.apple.print.framework.PrintCore (10.3 - 451.1) <DE992474-0841-38A1-B4F6-46D653E454D5> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/PrintCore.framework/Versions/A/PrintCore
0x7fff91839000 - 0x7fff91839fff libOpenScriptingUtil.dylib (162.2) <D6A2216D-ADB2-3F24-AD30-F6D00829F545> /usr/lib/libOpenScriptingUtil.dylib
0x7fff9183a000 - 0x7fff9195eff7 com.apple.LaunchServices (644.56 - 644.56) <20AABB1C-9319-3E4D-A024-51B0DD5FCD3B> /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/LaunchServices.framework/Versions/A/LaunchServices
0x7fff9195f000 - 0x7fff919cbff3 com.apple.MMCS (1.3 - 327.5) <FC998246-ED60-334D-9E94-453F35EF9C78> /System/Library/PrivateFrameworks/MMCS.framework/Versions/A/MMCS
0x7fff919f4000 - 0x7fff91e47fc7 com.apple.vImage (8.0 - 8.0) <33BE7B31-72DB-3364-B37E-C322A32748C5> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vImage.framework/Versions/A/vImage

External Modification Summary:

Calls made by other processes targeting this process:

task_for_pid: 5
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: 866032
thread_create: 0
thread_set_state: 0

VM Region Summary:
ReadOnly portion of Libraries: Total=298.8M resident=207.4M(69%) swapped_out_or_unallocated=91.3M(31%)
Writable regions: Total=1.4G written=194.1M(14%) resident=238.7M(17%) swapped_out=0K(0%) unallocated=1.1G(83%)

REGION TYPE VIRTUAL
=========== =======
Activity Tracing 2048K
CG backing stores 5684K
CG image 236K
CG raster data 1880K
CG shared images 368K
CoreAnimation 20K
CoreImage 8K
CoreServices 1092K
CoreUI image data 104K
Dispatch continuations 16.0M
Foundation 4K
IOKit 11.5M
Image IO 44K
JS JIT generated code 128.0M
JS JIT generated code (reserved) 896.0M reserved VM address space (unallocated)
JS garbage collector 1280K
Kernel Alloc Once 8K
MALLOC 299.4M
MALLOC (admin) 32K
MALLOC_LARGE (reserved) 256K reserved VM address space (unallocated)
Memory Tag 242 12K
Memory Tag 251 60K
OpenCL 16K
OpenGL GLSL 256K
STACK GUARD 64K
Stack 71.7M
VM_ALLOCATE 21.6M
WebKit Malloc 1864K
DATA 34.6M
GLSLBUILTINS 2588K
IMAGE 528K
LINKEDIT 86.9M
TEXT 211.8M
UNICODE 552K
mapped file 76.0M
shared memory 68K
=========== =======
TOTAL 1.8G
TOTAL, minus reserved VM space 975.9M

Model: iMac13,2, BootROM IM131.010A.B08, 4 processors, Intel Core i7, 3.4 GHz, 32 GB, SMC 2.11f16
Graphics: NVIDIA GeForce GTX 680MX, NVIDIA GeForce GTX 680MX, PCIe, 2048 MB
Memory Module: BANK 0/DIMM0, 8 GB, DDR3, 1600 MHz, 0x85F7, 0x483634314755363747313630304700000000
Memory Module: BANK 1/DIMM0, 8 GB, DDR3, 1600 MHz, 0x85F7, 0x483634314755363747313630304700000000
Memory Module: BANK 0/DIMM1, 8 GB, DDR3, 1600 MHz, 0x85F7, 0x483634314755363747313630304700000000
Memory Module: BANK 1/DIMM1, 8 GB, DDR3, 1600 MHz, 0x85F7, 0x483634314755363747313630304700000000
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0xF4), Broadcom BCM43xx 1.0 (7.15.166.24.3)
Bluetooth: Version 4.3.5f8 15969, 3 services, 27 devices, 1 incoming serial ports
Network Service: Ethernet, Ethernet, en0
Network Service: Wi-Fi, AirPort, en1
Serial ATA Device: APPLE HDD ST3000DM001, 3 TB
Serial ATA Device: APPLE SSD SM128E, 121.33 GB
USB Device: Kinesis Keyboard Hub
USB Device: Composite Device
USB Device: Composite Device
USB Device: Hub
USB Device: FaceTime HD Camera (Built-in)
USB Device: Hub
USB Device: Hub
USB Device: BRCM20702 Hub
USB Device: Bluetooth USB Host Controller
Thunderbolt Bus: iMac, Apple Inc., 23.4

[Eric Pettersen]

Slight mis-translation of constrained_match (off by 1 error)