Crash deleting global pseudobond group

[Tom Goddard]

open 1bna
open 1bna.pb (file attached)
close

crashes in DestructionCoordinator::finalizing_destruction() with the following crash dump.

Process: ChimeraX [90699]
Path: /Users/USER/*/ChimeraX.app/Contents/MacOS/ChimeraX
Identifier: edu.ucsf.cgl.ChimeraX
Version: 0.1.0 (0.1.0.0)
Code Type: X86-64 (Native)
Parent Process: bash [82793]
Responsible: Emacs-10.7 [82783]
User ID: 501

Date/Time: 2016-01-25 16:44:41.019 -0800
OS Version: Mac OS X 10.10.5 (14F1509)
Report Version: 11
Anonymous UUID: ADCA02F2-9A59-6574-CF8F-380125498A20

Sleep/Wake UUID: 9D74069F-6F6A-4ECF-9C27-50D3C58B4DDF

Time Awake Since Boot: 3600000 seconds

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

Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000000

VM Regions Near 0:
-->

TEXT 0000000101e5e000-0000000101e5f000 [ 4K] r-x/rwx SM=COW /Users/USER/*/ChimeraX.app/Contents/MacOS/ChimeraX

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff87e74c82 kill + 10
1 ??? 000000000000000000 0 + 0
2 libatomstruct.dylib 0x0000000103ed53a4 basegeom::DestructionCoordinator::finalizing_destruction(void*) + 724
3 libatomstruct.dylib 0x0000000103f107b4 atomstruct::Proxy_PBGroup::~Proxy_PBGroup() + 84
4 libatomstruct.dylib 0x0000000103f1006e atomstruct::Proxy_PBGroup::~Proxy_PBGroup() + 14
5 libatomstruct.dylib 0x0000000103f0f1ee atomstruct::PBManager::delete_group(atomstruct::Proxy_PBGroup*) + 222
6 libmolc.dylib 0x0000000103eb0f6b pseudobond_global_manager_delete_group + 11
7 _ctypes.cpython-35m-darwin.so 0x0000000102c01637 ffi_call_unix64 + 79 (darwin64.S:79)
8 _ctypes.cpython-35m-darwin.so 0x0000000102c01ed1 ffi_call + 929 (x86-ffi64.c:581)
9 _ctypes.cpython-35m-darwin.so 0x0000000102bfcf0e _ctypes_callproc + 670 (callproc.c:811)
10 _ctypes.cpython-35m-darwin.so 0x0000000102bf7293 PyCFuncPtr_call + 1091 (_ctypes.c:3849)
11 org.python.python 0x0000000101e74eb1 PyObject_Call + 97 (abstract.c:2144)
12 org.python.python 0x0000000101f328a7 PyEval_EvalFrameEx + 22583 (ceval.c:4883)
13 org.python.python 0x0000000101f373a7 fast_function + 295 (ceval.c:4750)
14 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
15 org.python.python 0x0000000101f373a7 fast_function + 295 (ceval.c:4750)
16 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
17 org.python.python 0x0000000101f373a7 fast_function + 295 (ceval.c:4750)
18 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
19 org.python.python 0x0000000101f36b29 _PyEval_EvalCodeWithName + 2985 (ceval.c:3962)
20 org.python.python 0x0000000101f2d04e PyEval_EvalCodeEx + 78 (ceval.c:3983)
21 org.python.python 0x0000000101e9c400 function_call + 384 (funcobject.c:632)
22 org.python.python 0x0000000101e74eb1 PyObject_Call + 97 (abstract.c:2144)
23 org.python.python 0x0000000101f3335b PyEval_EvalFrameEx + 25323 (ceval.c:4979)
24 org.python.python 0x0000000101f36b29 _PyEval_EvalCodeWithName + 2985 (ceval.c:3962)
25 org.python.python 0x0000000101f3741b fast_function + 411 (ceval.c:4765)
26 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
27 org.python.python 0x0000000101f373a7 fast_function + 295 (ceval.c:4750)
28 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
29 org.python.python 0x0000000101f373a7 fast_function + 295 (ceval.c:4750)
30 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
31 org.python.python 0x0000000101f36b29 _PyEval_EvalCodeWithName + 2985 (ceval.c:3962)
32 org.python.python 0x0000000101f2d04e PyEval_EvalCodeEx + 78 (ceval.c:3983)
33 org.python.python 0x0000000101e9c400 function_call + 384 (funcobject.c:632)
34 org.python.python 0x0000000101e74eb1 PyObject_Call + 97 (abstract.c:2144)
35 org.python.python 0x0000000101e892bd method_call + 141 (classobject.c:330)
36 org.python.python 0x0000000101e74eb1 PyObject_Call + 97 (abstract.c:2144)
37 org.python.python 0x0000000101f35f55 PyEval_CallObjectWithKeywords + 165 (ceval.c:4526)
38 _core.cpython-35m-darwin.so 0x00000001043ac74c wxPyCallback::EventThunker(wxEvent&) + 284 (sip_corewxEvtHandler.cpp:70)
39 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001053bbc39 wxEvtHandler::SearchDynamicEventTable(wxEvent&) + 185
40 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001053bb9ab wxEvtHandler::ProcessEventLocally(wxEvent&) + 59
41 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001053bb8bb wxEvtHandler::ProcessEvent(wxEvent&) + 187
42 _glcanvas.cpython-35m-darwin.so 0x000000010db874b2 sipwxGLCanvas::ProcessEvent(wxEvent&) + 146 (sip_glcanvaswxGLCanvas.cpp:465)
43 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001053bbcdf wxEvtHandler::SafelyProcessEvent(wxEvent&) + 15
44 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001053f760d wxWindow::OSXHandleKeyEvent(wxKeyEvent&) + 285
45 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001054c1062 wxWidgetCocoaImpl::doCommandBySelector(void*, NSView*, void*) + 242
46 com.apple.AppKit 0x00007fff8eed7e01 -[NSTextInputContext(NSInputContext_WithCompletion) doCommandBySelector:completionHandler:] + 118
47 com.apple.AppKit 0x00007fff8eebdc23 -[NSKeyBindingManager(NSKeyBindingManager_MultiClients) interpretEventAsCommand:forClient:] + 1899
48 com.apple.AppKit 0x00007fff8f484272 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke972 + 335
49 com.apple.AppKit 0x00007fff8eebfbff -[NSTextInputContext(NSInputContext_WithCompletion) hasMarkedTextWithCompletionHandler:] + 76
50 com.apple.AppKit 0x00007fff8eed7d03 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke_3 + 95
51 com.apple.AppKit 0x00007fff8eed0ed8 -[NSTextInputContext tryHandleEvent_HasMarkedText_withDispatchCondition:dispatchWork:continuation:] + 101
52 com.apple.AppKit 0x00007fff8f484074 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke960 + 321
53 com.apple.HIToolbox 0x00007fff86ce1d4f TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_5 + 70
54 com.apple.HIToolbox 0x00007fff86ce0c45 _ZL23DispatchEventToHandlersP14EventTargetRecP14OpaqueEventRefP14HandlerCallRec_block_invoke + 108
55 com.apple.AppKit 0x00007fff8eec0606 55-[NSTextInputContext handleTSMEvent:completionHandler:]_block_invoke174 + 2387
56 com.apple.AppKit 0x00007fff8eebfbff -[NSTextInputContext(NSInputContext_WithCompletion) hasMarkedTextWithCompletionHandler:] + 76
57 com.apple.AppKit 0x00007fff8eebfba0 55-[NSTextInputContext handleTSMEvent:completionHandler:]_block_invoke_2 + 95
58 com.apple.AppKit 0x00007fff8eebfb18 -[NSTextInputContext tryHandleTSMEvent_HasMarkedText_withDispatchCondition:dispatchWork:continuation:] + 101
59 com.apple.AppKit 0x00007fff8eebf7d5 -[NSTextInputContext handleTSMEvent:completionHandler:] + 3122
60 com.apple.AppKit 0x00007fff8eebeb2e _NSTSMEventHandler + 324
61 com.apple.HIToolbox 0x00007fff86c7ab6c DispatchEventToHandlers(EventTargetRec*, OpaqueEventRef*, HandlerCallRec*) + 1260
62 com.apple.HIToolbox 0x00007fff86c79fae SendEventToEventTargetInternal(OpaqueEventRef*, OpaqueEventTargetRef*, HandlerCallRec*) + 386
63 com.apple.HIToolbox 0x00007fff86c79e22 SendEventToEventTargetWithOptions + 43
64 com.apple.HIToolbox 0x00007fff86cde26c SendTSMEvent_WithCompletionHandler + 417
65 com.apple.HIToolbox 0x00007fff86cde76c SendUnicodeTextAEToUnicodeDoc_WithCompletionHandler_block_invoke + 400
66 com.apple.HIToolbox 0x00007fff86cde5a6 SendFilterTextEvent_WithCompletionHandler_block_invoke + 189
67 com.apple.HIToolbox 0x00007fff86cde2c0 SendTSMEvent_WithCompletionHandler + 501
68 com.apple.HIToolbox 0x00007fff86cde08f SendFilterTextEvent_WithCompletionHandler + 236
69 com.apple.HIToolbox 0x00007fff86cddd51 SendUnicodeTextAEToUnicodeDoc_WithCompletionHandler + 295
70 com.apple.HIToolbox 0x00007fff86cddae9 utDeliverTSMEvent_WithCompletionHandler_block_invoke_2 + 296
71 com.apple.HIToolbox 0x00007fff86cdd988 utDeliverTSMEvent_WithCompletionHandler_block_invoke + 437
72 com.apple.HIToolbox 0x00007fff86cdd7cd TSMKeyEvent_WithCompletionHandler + 701
73 com.apple.HIToolbox 0x00007fff86cdd4d0 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_4 + 251
74 com.apple.HIToolbox 0x00007fff86cdd386 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_3 + 330
75 com.apple.HIToolbox 0x00007fff86cdd112 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke_2 + 259
76 com.apple.HIToolbox 0x00007fff86cdcf25 TSMProcessRawKeyEventWithOptionsAndCompletionHandler_block_invoke + 251
77 com.apple.HIToolbox 0x00007fff86cc176f TSMProcessRawKeyEventWithOptionsAndCompletionHandler + 3068
78 com.apple.AppKit 0x00007fff8f483e86 61-[NSTextInputContext _handleEvent:options:completionHandler:]_block_invoke949 + 131
79 com.apple.AppKit 0x00007fff8eebd352 -[NSTextInputContext tryTSMProcessRawKeyEvent:dispatchCondition:setupForDispatch:furtherCondition:dispatchWork:continuation:] + 127
80 com.apple.AppKit 0x00007fff8eebd085 -[NSTextInputContext _handleEvent:options:completionHandler:] + 1266
81 com.apple.AppKit 0x00007fff8eebcb4e -[NSTextInputContext handleEvent:] + 109
82 com.apple.AppKit 0x00007fff8eebca54 -[NSView interpretKeyEvents:] + 207
83 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001054c47e4 wxWidgetCocoaImpl::DoHandleKeyEvent(NSEvent*) + 500
84 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001054c0c3f wxWidgetCocoaImpl::keyEvent(NSEvent*, NSView*, void*) + 159
85 com.apple.AppKit 0x00007fff8f3ac0fb -[NSWindow _reallySendEvent:isDelayedEvent:] + 5452
86 com.apple.AppKit 0x00007fff8ed3dc86 -[NSWindow sendEvent:] + 470
87 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001054aeb36 -[wxNSWindow sendEvent:] + 118
88 com.apple.AppKit 0x00007fff8ed3a8b1 -[NSApplication sendEvent:] + 4199
89 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001053c9801 -[wxNSApplication sendEvent:] + 97
90 com.apple.AppKit 0x00007fff8ec63b68 -[NSApplication run] + 711
91 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001054a37c3 wxGUIEventLoop::OSXDoRun() + 115
92 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000105389414 wxCFEventLoop::DoRun() + 52
93 libwx_osx_cocoau-3.0.0.3.0.dylib 0x00000001052bebd5 wxEventLoopBase::Run() + 165
94 libwx_osx_cocoau-3.0.0.3.0.dylib 0x0000000105285643 wxAppConsoleBase::MainLoop() + 211
95 _core.cpython-35m-darwin.so 0x0000000104617875 wxPyApp::MainLoop() + 181 (sip_corewxPyApp.cpp:316)
96 _core.cpython-35m-darwin.so 0x000000010461ae2d meth_wxPyApp_MainLoop(_object*, _object*) + 205 (sip_corewxPyApp.cpp:1794)
97 org.python.python 0x0000000101eb9c6c PyCFunction_Call + 220 (methodobject.c:121)
98 org.python.python 0x0000000101f32bac PyEval_EvalFrameEx + 23356 (ceval.c:4651)
99 org.python.python 0x0000000101f373a7 fast_function + 295 (ceval.c:4750)
100 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
101 org.python.python 0x0000000101f373a7 fast_function + 295 (ceval.c:4750)
102 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
103 org.python.python 0x0000000101f36b29 _PyEval_EvalCodeWithName + 2985 (ceval.c:3962)
104 org.python.python 0x0000000101f3741b fast_function + 411 (ceval.c:4765)
105 org.python.python 0x0000000101f32a1a PyEval_EvalFrameEx + 22954 (ceval.c:4677)
106 org.python.python 0x0000000101f36b29 _PyEval_EvalCodeWithName + 2985 (ceval.c:3962)
107 org.python.python 0x0000000101f2cff1 PyEval_EvalCode + 81 (ceval.c:777)
108 org.python.python 0x0000000101f4fdae PyImport_ImportFrozenModuleObject + 526 (import.c:824)
109 org.python.python 0x0000000101f4fea2 PyImport_ImportFrozenModule + 34 (import.c:1241)
110 org.python.python 0x0000000101f49ce8 Py_FrozenMain + 504 (frozenmain.c:87)
111 libdyld.dylib 0x00007fff8aabf5c9 start + 1

Thread 1:: Dispatch queue: com.apple.libdispatch-manager
0 libsystem_kernel.dylib 0x00007fff87e76232 kevent64 + 10
1 libdispatch.dylib 0x00007fff8d4b126e _dispatch_mgr_thread + 52

Thread 2:
0 libsystem_kernel.dylib 0x00007fff87e7594a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8ae7e3dd start_wqthread + 13

Thread 3:
0 libsystem_kernel.dylib 0x00007fff87e704de mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff87e6f64f mach_msg + 55
2 com.apple.CoreFoundation 0x00007fff85154eb4 CFRunLoopServiceMachPort + 212
3 com.apple.CoreFoundation 0x00007fff8515437b CFRunLoopRun + 1371
4 com.apple.CoreFoundation 0x00007fff85153bd8 CFRunLoopRunSpecific + 296
5 com.apple.AppKit 0x00007fff8ed3656b _NSEventThread + 137
6 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
7 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
8 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 4:
0 libsystem_kernel.dylib 0x00007fff87e7594a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8ae7e3dd start_wqthread + 13

Thread 5:
0 libsystem_kernel.dylib 0x00007fff87e7594a workq_kernreturn + 10
1 libsystem_pthread.dylib 0x00007fff8ae7e3dd start_wqthread + 13

Thread 6:: OGL Profiler
0 libsystem_kernel.dylib 0x00007fff87e704de mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff87e6f64f mach_msg + 55
2 com.apple.opengl 0x00007fff8250ea79 glcDebugListener + 336
3 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
4 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
5 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 7:: JavaScriptCore::BlockFree
0 libsystem_kernel.dylib 0x00007fff87e75136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff8a4d4c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff854b1544 JSC::BlockAllocator::blockFreeingThreadMain() + 228
3 com.apple.JavaScriptCore 0x00007fff854a6cff WTF::wtfThreadEntryPoint(void*) + 15
4 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
5 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
6 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 8:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff87e75136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff8a4d4c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff854b1adb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff854b1938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff854a6cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 9:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff87e75136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff8a4d4c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff854b1adb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff854b1938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff854a6cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 10:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff87e75136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff8a4d4c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff854b1adb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff854b1938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff854a6cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 11:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff87e75136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff8a4d4c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff854b1adb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff854b1938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff854a6cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 12:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff87e75136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff8a4d4c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff854b1adb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff854b1938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff854a6cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 13:: JavaScriptCore::Marking
0 libsystem_kernel.dylib 0x00007fff87e75136 psynch_cvwait + 10
1 libc++.1.dylib 0x00007fff8a4d4c95 std::1::condition_variable::wait(std::1::unique_lock<std::__1::mutex>&) + 47
2 com.apple.JavaScriptCore 0x00007fff854b1adb JSC::GCThread::waitForNextPhase() + 171
3 com.apple.JavaScriptCore 0x00007fff854b1938 JSC::GCThread::gcThreadMain() + 88
4 com.apple.JavaScriptCore 0x00007fff854a6cff WTF::wtfThreadEntryPoint(void*) + 15
5 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
6 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
7 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

Thread 14:: com.apple.NSURLConnectionLoader
0 libsystem_kernel.dylib 0x00007fff87e704de mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff87e6f64f mach_msg + 55
2 com.apple.CoreFoundation 0x00007fff85154eb4 CFRunLoopServiceMachPort + 212
3 com.apple.CoreFoundation 0x00007fff8515437b CFRunLoopRun + 1371
4 com.apple.CoreFoundation 0x00007fff85153bd8 CFRunLoopRunSpecific + 296
5 com.apple.CFNetwork 0x00007fff8e5ab420 +[NSURLConnection(Loader) _resourceLoadLoop:] + 434
6 com.apple.Foundation 0x00007fff89ea0e92 NSThreadmain + 1345
7 libsystem_pthread.dylib 0x00007fff8ae8105a _pthread_body + 131
8 libsystem_pthread.dylib 0x00007fff8ae80fd7 _pthread_start + 176
9 libsystem_pthread.dylib 0x00007fff8ae7e3ed thread_start + 13

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

rax: 0x0000000000000000 rbx: 0x0000000102255f48 rcx: 0x0000000102255aa8 rdx: 0x0000000000000000
rdi: 0x000000000001624b rsi: 0x000000000000000b rbp: 0x0000000102255ab0 rsp: 0x0000000102255aa8

r8: 0x0000000102255f48 r9: 0x0000000103f39240 r10: 0x00007fff87e76c22 r11: 0x0000000000000202

r12: 0x00007fff5dd9cda8 r13: 0x0000000103f39240 r14: 0x00007fff5dd9cdc0 r15: 0x0000000103f39238
rip: 0x00007fff87e74c82 rfl: 0x0000000000000202 cr2: 0x0000000101607000

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

Binary Images:

0x101e5e000 - 0x101e5eff7 +edu.ucsf.cgl.ChimeraX (0.1.0 - 0.1.0.0) <75BD0A16-9D83-366C-A0E0-2171AC674C75> /Users/USER/*/ChimeraX.app/Contents/MacOS/ChimeraX
0x101e67000 - 0x10200cff7 +org.python.python (3.5.0, [c] 2001-2015 Python Software Foundation. - 3.5.0) <A96E8607-FA9E-3FEF-8E60-CE328B6D496D> /Users/USER/*/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/Python
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0x7fff909b6000 - 0x7fff909c7ff7 libz.1.dylib (55) <88C7C7DE-04B8-316F-8B74-ACD9F3DE1AA1> /usr/lib/libz.1.dylib
0x7fff909c8000 - 0x7fff909c8fff com.apple.Carbon (154 - 157) <9BF51672-1684-3FDE-A561-FC59A2864EF8> /System/Library/Frameworks/Carbon.framework/Versions/A/Carbon
0x7fff909f2000 - 0x7fff90a0eff7 libsystem_malloc.dylib (53.30.1) <DDA8928B-CC0D-3255-BD8A-3FEA0982B890> /usr/lib/system/libsystem_malloc.dylib
0x7fff90ab4000 - 0x7fff90ab5ff3 libSystem.B.dylib (1213) <1866C519-C5F3-3D09-8C17-A8F703664521> /usr/lib/libSystem.B.dylib
0x7fff90ab6000 - 0x7fff90abafff com.apple.IOAccelerator (156.16 - 156.16) <12DE1474-4B2A-3D7D-ACF9-DDAF66A6936A> /System/Library/PrivateFrameworks/IOAccelerator.framework/Versions/A/IOAccelerator
0x7fff90abb000 - 0x7fff90abefff com.apple.IOSurface (97.4 - 97.4) <AE11CFBC-4D46-30F3-BEEC-4C8131079391> /System/Library/Frameworks/IOSurface.framework/Versions/A/IOSurface
0x7fff90abf000 - 0x7fff90d04ff7 com.apple.AddressBook.framework (9.0 - 1579) <A31956C5-AA13-35E6-B553-6BDF33F35103> /System/Library/Frameworks/AddressBook.framework/Versions/A/AddressBook
0x7fff90d05000 - 0x7fff90d05fff com.apple.Accelerate (1.10 - Accelerate 1.10) <F1B96A61-7E4B-31BD-A35B-BA7EF1F16EF4> /System/Library/Frameworks/Accelerate.framework/Versions/A/Accelerate
0x7fff90d1e000 - 0x7fff90d4eff3 com.apple.CoreAVCHD (5.7.5 - 5750.4.1) <3E51287C-E97D-3886-BE88-8F6872400876> /System/Library/PrivateFrameworks/CoreAVCHD.framework/Versions/A/CoreAVCHD
0x7fff90e45000 - 0x7fff90e8bff7 libauto.dylib (186) <A260789B-D4D8-316A-9490-254767B8A5F1> /usr/lib/libauto.dylib
0x7fff90e8c000 - 0x7fff90ebbff7 com.apple.CoreServicesInternal (221.7.2 - 221.7.2) <B93D4775-149C-3698-B38C-9C50673D455C> /System/Library/PrivateFrameworks/CoreServicesInternal.framework/Versions/A/CoreServicesInternal
0x7fff90ebc000 - 0x7fff9117fff7 com.apple.WebKit (10600 - 10600.8.9) <8EE5A9F9-DE98-3202-92C0-23F6E6E5E274> /System/Library/Frameworks/WebKit.framework/Versions/A/WebKit
0x7fff91180000 - 0x7fff91183ff7 com.apple.Mangrove (1.0 - 1) <6326024D-5C8D-3F59-9468-ACA1E01BC70C> /System/Library/PrivateFrameworks/Mangrove.framework/Versions/A/Mangrove

External Modification Summary:

Calls made by other processes targeting this process:

task_for_pid: 2
thread_create: 0
thread_set_state: 0

Calls made by this process:

task_for_pid: 0
thread_create: 0
thread_set_state: 0

Calls made by all processes on this machine:

task_for_pid: 3999064
thread_create: 0
thread_set_state: 0

VM Region Summary:
ReadOnly portion of Libraries: Total=313.6M resident=268.6M(86%) swapped_out_or_unallocated=45.0M(14%)
Writable regions: Total=1.2G written=51.5M(4%) resident=94.0M(7%) swapped_out=0K(0%) unallocated=1.1G(93%)

REGION TYPE VIRTUAL
=========== =======
CG backing stores 8628K
CG image 640K
CG raster data 1376K
CG shared images 400K
CoreAnimation 20K
CoreImage 8K
CoreUI image data 120K
Dispatch continuations 16.0M
Foundation 4K
IOKit 10.4M
Image IO 192K
JS JIT generated code 128.0M
JS JIT generated code (reserved) 896.0M reserved VM address space (unallocated)
JS garbage collector 1472K
Kernel Alloc Once 8K
MALLOC 133.3M
MALLOC (admin) 32K
MALLOC_LARGE (reserved) 384K reserved VM address space (unallocated)
Memory Tag 242 12K
Memory Tag 251 60K
OpenCL 16K
OpenGL GLSL 256K
STACK GUARD 56K
Stack 70.7M
VM_ALLOCATE 46.2M
WebKit Malloc 2352K
DATA 39.5M
GLSLBUILTINS 2588K
IMAGE 528K
LINKEDIT 87.5M
TEXT 226.1M
UNICODE 552K
mapped file 76.8M
shared memory 4K
=========== =======
TOTAL 1.7G
TOTAL, minus reserved VM space 853.4M

Model: iMac13,2, BootROM IM131.010A.B09, 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 4.3.6f3 16238, 3 services, 27 devices, 1 incoming serial ports
Network Service: Ethernet, Ethernet, en0
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

[Tom Goddard]

This requires the PBManager delete_group() method that I wrapped today.