Crashes with unit cell build (various)

[cryos]

Process: avogadro [644]
Path: /Applications/avogadro.app/Contents/MacOS/avogadro
Identifier: net.sourceforge
Version: (0.8.1)
Code Type: X86 (Native)
Parent Process: launchd [59]

Date/Time: 2008-06-19 14:39:11.569 -0400
OS Version: Mac OS X 10.5.2 (9C7010)
Report Version: 6

Exception Type: EXC_BAD_ACCESS (SIGBUS)
Exception Codes: KERN_PROTECTION_FAILURE at 0x000000000000000c
Crashed Thread: 0

Thread 0 Crashed:
0 libopenbabel.2.dylib 0x002dc2d0 OpenBabel::SpaceGroup::Transform(OpenBabel::vector3 const&) const + 32
1 libunitcellextension.so 0x196a915d Avogadro::UnitCellExtension::fillUnitCell() + 495
2 libunitcellextension.so 0x196a9a54 Avogadro::UnitCellExtension::qt_metacall(QMetaObject::Call, int, void**) + 272
3 QtCore 0x0052df60 QMetaObject::activate(QObject*, int, int, void**) + 528
4 libunitcellextension.so 0x196ab313 Avogadro::UnitCellParamDialog::qt_metacall(QMetaObject::Call, int, void**) + 485
5 QtCore 0x0052df60 QMetaObject::activate(QObject*, int, int, void**) + 528
6 QtGui 0x00f8badc QAbstractButton::clicked(bool) + 76
7 QtGui 0x00d02af6 QAbstractButtonPrivate::emitClicked() + 54
8 QtGui 0x00d02beb QAbstractButtonPrivate::click() + 139
9 QtGui 0x00d02e30 QAbstractButton::mouseReleaseEvent(QMouseEvent_) + 128
10 QtGui 0x009ed738 QWidget::event(QEvent_) + 3736
11 QtGui 0x00d03583 QAbstractButton::event(QEvent_) + 83
12 QtGui 0x00da1eea QPushButton::event(QEvent_) + 58
13 QtGui 0x009a5f1f QApplicationPrivate::notify_helper(QObject_, QEvent_) + 191
14 QtGui 0x009acdfd QApplication::notify(QObject_, QEvent_) + 1309
15 QtCore 0x0051c8c1 QCoreApplication::notifyInternal(QObject_, QEvent_) + 145
16 QtGui 0x009fe2e7 QApplicationPrivate::globalEventProcessor(OpaqueEventHandlerCallRef_, OpaqueEventRef_, void_) + 5703
17 com.apple.HIToolbox 0x92c55fc3 DispatchEventToHandlers(EventTargetRec_, OpaqueEventRef_, HandlerCallRec_) + 1181
18 com.apple.HIToolbox 0x92c553fd SendEventToEventTargetInternal(OpaqueEventRef_, OpaqueEventTargetRef_, HandlerCallRec_) + 405
19 com.apple.HIToolbox 0x92c71e0e SendEventToEventTarget + 52
20 com.apple.HIToolbox 0x92c84874 ToolboxEventDispatcherHandler(OpaqueEventHandlerCallRef_, OpaqueEventRef_, void_) + 1208
21 com.apple.HIToolbox 0x92c5637c DispatchEventToHandlers(EventTargetRec_, OpaqueEventRef_, HandlerCallRec_) + 2134
22 com.apple.HIToolbox 0x92c553fd SendEventToEventTargetInternal(OpaqueEventRef_, OpaqueEventTargetRef_, HandlerCallRec_) + 405
23 com.apple.HIToolbox 0x92c71e0e SendEventToEventTarget + 52
24 QtGui 0x009f9111 qt_mac_send_event(QFlagsQEventLoop::ProcessEventsFlag, OpaqueEventRef_, OpaqueWindowPtr_) + 97
25 QtGui 0x00a077b2 QEventDispatcherMac::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 626
26 QtCore 0x0051be81 QEventLoop::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 65
27 QtCore 0x0051bf4d QEventLoop::exec(QFlagsQEventLoop::ProcessEventsFlag) + 157
28 QtCore 0x0051fee1 QCoreApplication::exec() + 161
29 net.sourceforge 0x0000f722 main + 2568
30 net.sourceforge 0x000066a6 _start + 216
31 net.sourceforge 0x000065cd start + 41

Thread 1:
0 libSystem.B.dylib 0x97038bce __semwait_signal + 10
1 libSystem.B.dylib 0x970638cd pthread_cond_wait$UNIX2003 + 73
2 libGLProgrammability.dylib 0x9036f332 glvmDoWork + 162
3 libSystem.B.dylib 0x97062c55 _pthread_start + 321
4 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 2:
0 libSystem.B.dylib 0x970319e6 mach_msg_trap + 10
1 libSystem.B.dylib 0x970391dc mach_msg + 72
2 com.apple.CoreFoundation 0x93fb00de CFRunLoopRunSpecific + 1806
3 com.apple.CoreFoundation 0x93fb0d74 CFRunLoopRun + 84
4 com.apple.DesktopServices 0x9011b46f TSystemNotificationTask::SystemNotificationTaskProc(void*) + 123
5 ...ple.CoreServices.CarbonCore 0x91ae4beb PrivateMPEntryPoint + 56
6 libSystem.B.dylib 0x97062c55 _pthread_start + 321
7 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 3:
0 libSystem.B.dylib 0x970319e6 mach_msg_trap + 10
1 libSystem.B.dylib 0x970391dc mach_msg + 72
2 com.apple.CoreFoundation 0x93fb00de CFRunLoopRunSpecific + 1806
3 com.apple.CoreFoundation 0x93fb0d74 CFRunLoopRun + 84
4 com.apple.DesktopServices 0x9011b5e8 TFSEventsNotificationTask::FSEventsNotificationTaskProc(void*) + 216
5 ...ple.CoreServices.CarbonCore 0x91ae4beb PrivateMPEntryPoint + 56
6 libSystem.B.dylib 0x97062c55 _pthread_start + 321
7 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 4:
0 libSystem.B.dylib 0x97038bce __semwait_signal + 10
1 libSystem.B.dylib 0x970638cd pthread_cond_wait$UNIX2003 + 73
2 ...ple.CoreServices.CarbonCore 0x91ae69d7 TSWaitOnCondition + 126
3 ...ple.CoreServices.CarbonCore 0x91ac58fe TSWaitOnConditionTimedRelative + 202
4 ...ple.CoreServices.CarbonCore 0x91ae6654 MPWaitOnQueue + 208
5 com.apple.DesktopServices 0x90126a7a TNodeSyncTask::SyncTaskProc(void*) + 84
6 ...ple.CoreServices.CarbonCore 0x91ae4beb PrivateMPEntryPoint + 56
7 libSystem.B.dylib 0x97062c55 _pthread_start + 321
8 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 5:
0 libSystem.B.dylib 0x970624c6 kevent + 10
1 libSystem.B.dylib 0x97062c55 _pthread_start + 321
2 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 6:
0 libSystem.B.dylib 0x97081b3a select$DARWIN_EXTSN + 10
1 libSystem.B.dylib 0x97062c55 _pthread_start + 321
2 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 7:
0 libSystem.B.dylib 0x97031a46 semaphore_timedwait_signal_trap + 10
1 libSystem.B.dylib 0x97063daf _pthread_cond_wait + 1244
2 libSystem.B.dylib 0x97065633 pthread_cond_timedwait_relative_np + 47
3 ...ple.CoreServices.CarbonCore 0x91ac592a TSWaitOnConditionTimedRelative + 246
4 ...ple.CoreServices.CarbonCore 0x91ae6654 MPWaitOnQueue + 208
5 com.apple.DesktopServices 0x901289c4 TFolderSizeTask::FolderSizeTaskProc(void*) + 104
6 ...ple.CoreServices.CarbonCore 0x91ae4beb PrivateMPEntryPoint + 56
7 libSystem.B.dylib 0x97062c55 _pthread_start + 321
8 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 8:
0 libSystem.B.dylib 0x97031a46 semaphore_timedwait_signal_trap + 10
1 libSystem.B.dylib 0x97063daf _pthread_cond_wait + 1244
2 libSystem.B.dylib 0x97065633 pthread_cond_timedwait_relative_np + 47
3 com.apple.Foundation 0x91f664fc -[NSCondition waitUntilDate:] + 236
4 com.apple.Foundation 0x91f66310 -[NSConditionLock lockWhenCondition:beforeDate:] + 144
5 com.apple.Foundation 0x91f66275 -[NSConditionLock lockWhenCondition:] + 69
6 com.apple.AppKit 0x930bc7f0 -[NSUIHeartBeat _heartBeatThread:] + 753
7 com.apple.Foundation 0x91f205ad -[NSThread main] + 45
8 com.apple.Foundation 0x91f20154 NSThread__main + 308
9 libSystem.B.dylib 0x97062c55 _pthread_start + 321
10 libSystem.B.dylib 0x97062b12 thread_start + 34

Thread 0 crashed with X86 Thread State (32-bit):
eax: 0x00000000 ebx: 0x002dc2c4 ecx: 0x00000000 edx: 0x0000000c
edi: 0xbfffe6f4 esi: 0xbfffe6f4 ebp: 0xbfffe588 esp: 0xbfffe500
ss: 0x0000001f efl: 0x00010286 eip: 0x002dc2d0 cs: 0x00000017
ds: 0x0000001f es: 0x0000001f fs: 0x00000000 gs: 0x00000037
cr2: 0x0000000c

Binary Images:
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0x6a000 - 0xa9ff7 +libavogadro.0.dylib ??? (???) /usr/local/lib/libavogadro.0.dylib
0xd9000 - 0x137fe1 +QtOpenGL ??? (???) /Library/Frameworks/QtOpenGL.framework/Versions/4/QtOpenGL
0x20f000 - 0x380fef +libopenbabel.2.dylib ??? (???) /usr/local/lib/libopenbabel.2.dylib
0x41e000 - 0x5dbff3 +QtCore ??? (???) <42c69ef0ce782cae7c289152062531ce> /Library/Frameworks/QtCore.framework/Versions/4/QtCore
0x677000 - 0x67efff +libqgif.dylib ??? (???) /Developer/Applications/Qt/plugins/imageformats/libqgif.dylib
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0x711000 - 0x717fff +libqsvg.dylib ??? (???) /Developer/Applications/Qt/plugins/imageformats/libqsvg.dylib
0x994000 - 0x10c9fe7 +QtGui ??? (???) /Library/Frameworks/QtGui.framework/Versions/4/QtGui
0x1328000 - 0x1365ff5 +QtSvg ??? (???) /Library/Frameworks/QtSvg.framework/Versions/4/QtSvg
0x1383000 - 0x13d1fff +QtXml ??? (???) /Library/Frameworks/QtXml.framework/Versions/4/QtXml
0x1600000 - 0x1649fef +libqtiff.dylib ??? (???) /Developer/Applications/Qt/plugins/imageformats/libqtiff.dylib
0x168d000 - 0x169ffff libTraditionalChineseConverter.dylib ??? (???) <086a18ff56a7d80d4446b979a18a4f64> /System/Library/CoreServices/Encodings/libTraditionalChineseConverter.dylib
0x16a3000 - 0x16b1feb libSimplifiedChineseConverter.dylib ??? (???) /System/Library/CoreServices/Encodings/libSimplifiedChineseConverter.dylib
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0x1607f000 - 0x1608cfef +libautoopttool.so ??? (???) /usr/local/lib/avogadro/tools/libautoopttool.so
0x16095000 - 0x1609dfe7 +libautorotatetool.so ??? (???) /usr/local/lib/avogadro/tools/libautorotatetool.so
0x160a3000 - 0x160b4fe8 +libbondcentrictool.so ??? (???) /usr/local/lib/avogadro/tools/libbondcentrictool.so
0x160bd000 - 0x160beff3 +APIInterface.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/APIInterface.so
0x1615a000 - 0x16164ffb +libclickmeasuretool.so ??? (???) /usr/local/lib/avogadro/tools/libclickmeasuretool.so
0x1616a000 - 0x1617efef +libdrawtool.so ??? (???) /usr/local/lib/avogadro/tools/libdrawtool.so
0x1618f000 - 0x1619efe9 +libmanipulatetool.so ??? (???) /usr/local/lib/avogadro/tools/libmanipulatetool.so
0x161a6000 - 0x161b1fe9 +libnavigatetool.so ??? (???) /usr/local/lib/avogadro/tools/libnavigatetool.so
0x161b7000 - 0x161c0fef +libselectrotatetool.so ??? (???) /usr/local/lib/avogadro/tools/libselectrotatetool.so
0x161c7000 - 0x161caff7 +alchemyformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/alchemyformat.so
0x161cf000 - 0x161d0ff7 +copyformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/copyformat.so
0x172b9000 - 0x172d5ff7 GLRendererFloat ??? (???) <6037566c80924603b57b639ff7bbeb14> /System/Library/Frameworks/OpenGL.framework/Versions/A/Resources/GLRendererFloat.bundle/GLRendererFloat
0x17392000 - 0x17394fff +amberformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/amberformat.so
0x18a32000 - 0x18bb4fef GLEngine ??? (???) <1602634608f34ac8b0283b28ee42353f> /System/Library/Frameworks/OpenGL.framework/Resources/GLEngine.bundle/GLEngine
0x18be2000 - 0x18f21fff com.apple.driver.AppleIntelGMAX3100GLDriver 1.5.26 (5.2.6) <1c4dc443dfa419410b4b09a2fdccad57> /System/Library/Extensions/AppleIntelGMAX3100GLDriver.bundle/Contents/MacOS/AppleIntelGMAX3100GLDriver
0x1905b000 - 0x19066ff3 +adfformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/adfformat.so
0x1906e000 - 0x19070fff +balstformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/balstformat.so
0x19075000 - 0x19078ff7 +bgfformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/bgfformat.so
0x1907d000 - 0x19080fff +boxformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/boxformat.so
0x19085000 - 0x19089fff +cacaoformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/cacaoformat.so
0x1908f000 - 0x19091ff7 +cacheformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/cacheformat.so
0x19096000 - 0x19098fff +carformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/carformat.so
0x1909d000 - 0x1909ffff +cccformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/cccformat.so
0x190a4000 - 0x190aafff +cdxmlformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/cdxmlformat.so
0x190b1000 - 0x190b4fff +chem3dformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/chem3dformat.so
0x190ba000 - 0x190c2ff7 +chemdrawcdxformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/chemdrawcdxformat.so
0x190c9000 - 0x190cbfff +chemdrawctformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/chemdrawctformat.so
0x190d0000 - 0x190dfff7 +chemkinformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/chemkinformat.so
0x190e9000 - 0x190ebfff +chemtoolformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/chemtoolformat.so
0x190f0000 - 0x19104ff7 +cifformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/cifformat.so
0x1910f000 - 0x19127ff3 +cmlformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/cmlformat.so
0x19136000 - 0x1913afff +crkformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/crkformat.so
0x1913f000 - 0x19141ff3 +CSRformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/CSRformat.so
0x19146000 - 0x19148ffb +cssrformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/cssrformat.so
0x1914d000 - 0x19150fff +dmolformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/dmolformat.so
0x19155000 - 0x19157fff +fastaformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/fastaformat.so
0x1915c000 - 0x19162ff7 +fastsearchformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/fastsearchformat.so
0x19168000 - 0x1916fff7 +fchkformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/fchkformat.so
0x19176000 - 0x19178fff +featformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/featformat.so
0x1917d000 - 0x1917ffff +fhformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/fhformat.so
0x19184000 - 0x19187ffb +fingerprintformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/fingerprintformat.so
0x1918c000 - 0x1918ffff +freefracformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/freefracformat.so
0x19194000 - 0x1919bff3 +gamessformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/gamessformat.so
0x191a1000 - 0x191a8ffb +gamessukformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/gamessukformat.so
0x191bf000 - 0x191c9ff7 +gausscubeformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/gausscubeformat.so
0x191d0000 - 0x191d6ff3 +gaussformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/gaussformat.so
0x191dc000 - 0x191e1ff3 +gausszmatformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/gausszmatformat.so
0x191e7000 - 0x191eaffb +ghemicalformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/ghemicalformat.so
0x191ef000 - 0x191f1ff3 +gromos96format.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/gromos96format.so
0x191f6000 - 0x191f8fff +hinformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/hinformat.so
0x191fd000 - 0x192d9fe5 +inchiformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/inchiformat.so
0x192fd000 - 0x19300ff7 +jaguarformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/jaguarformat.so
0x19305000 - 0x19317ff3 +MCDLformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/MCDLformat.so
0x19321000 - 0x1932dff3 +mdlformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/mdlformat.so
0x19336000 - 0x1933dffb +mmcifformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/mmcifformat.so
0x19344000 - 0x19348ffb +mmodformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/mmodformat.so
0x1934e000 - 0x19353ff7 +mol2format.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/mol2format.so
0x19359000 - 0x1935bffb +moldenformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/moldenformat.so
0x19360000 - 0x19362fff +molreportformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/molreportformat.so
0x19367000 - 0x1936cfff +mopacformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/mopacformat.so
0x19372000 - 0x19375ff7 +mpdformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/mpdformat.so
0x1937a000 - 0x1937cff7 +mpqcformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/mpqcformat.so
0x19381000 - 0x19384ff7 +msiformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/msiformat.so
0x19389000 - 0x1938bff7 +msmsformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/msmsformat.so
0x19390000 - 0x19392ff7 +nwchemformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/nwchemformat.so
0x19397000 - 0x1939cff3 +opendxformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/opendxformat.so
0x193a2000 - 0x193a5ff7 +pcmodelformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/pcmodelformat.so
0x193aa000 - 0x193b2ff3 +pdbformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/pdbformat.so
0x193b9000 - 0x193bdfff +pngformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/pngformat.so
0x193c2000 - 0x193c7fff +povrayformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/povrayformat.so
0x193cc000 - 0x193d2ff3 +pqrformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/pqrformat.so
0x193d7000 - 0x193dbffb +PQSformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/PQSformat.so
0x193e1000 - 0x193e7ff7 +pubchem.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/pubchem.so
0x193ee000 - 0x193f2ff3 +qchemformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/qchemformat.so
0x193f8000 - 0x193fbfff +reportformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/reportformat.so
0x19400000 - 0x19405ffb +rsmiformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/rsmiformat.so
0x1940b000 - 0x1940fffb +rxnformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/rxnformat.so
0x19415000 - 0x19417fff +shelxformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/shelxformat.so
0x1941c000 - 0x1942dfff +smilesformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/smilesformat.so
0x19438000 - 0x1943cff3 +thermoformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/thermoformat.so
0x19442000 - 0x19444fff +tinkerformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/tinkerformat.so
0x19449000 - 0x1944bff3 +titleformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/titleformat.so
0x19450000 - 0x19452fff +turbomoleformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/turbomoleformat.so
0x19457000 - 0x19459fff +unichemformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/unichemformat.so
0x1945e000 - 0x19460ffb +viewmolformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/viewmolformat.so
0x19465000 - 0x19467fff +xedformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/xedformat.so
0x1946c000 - 0x19470ff3 +xmlformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/xmlformat.so
0x19476000 - 0x1947bff7 +xtcformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/xtcformat.so
0x19480000 - 0x19484ff7 +xyzformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/xyzformat.so
0x19489000 - 0x1948cff3 +yasaraformat.so ??? (???) /usr/local/lib/openbabel/2.2.0b6/yasaraformat.so
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0x9567b000 - 0x95a11ff7 com.apple.QuartzCore 1.5.2 (1.5.2) /System/Library/Frameworks/QuartzCore.framework/Versions/A/QuartzCore
0x95a12000 - 0x95a89fe3 com.apple.CFNetwork 221.5 (221.5) /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/CFNetwork.framework/Versions/A/CFNetwork
0x95a8a000 - 0x95aa8ff3 com.apple.DirectoryService.Framework 3.5.1 (3.5.1) <5ee87dc53f9c1f5e4578a63ff31437a2> /System/Library/Frameworks/DirectoryService.framework/Versions/A/DirectoryService
0x95aa9000 - 0x95ac4ffb libPng.dylib ??? (???) <0c5f9010b3b70a3d4bce4f93b78fc8a7> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/ImageIO.framework/Versions/A/Resources/libPng.dylib
0x95ae2000 - 0x95b94ffb libcrypto.0.9.7.dylib ??? (???) <8f92cbdc8777bea2ec49b06ee79fabc0> /usr/lib/libcrypto.0.9.7.dylib
0x95b95000 - 0x95bb9fff libxslt.1.dylib ??? (???) <59399cc446ed903fd9479526ee9f116b> /usr/lib/libxslt.1.dylib
0x95bba000 - 0x95be2fff libcups.2.dylib ??? (???) <2f0a710a9128882efb2ed92ad139b58c> /usr/lib/libcups.2.dylib
0x95be3000 - 0x95c6fffb com.apple.QTKit 7.4.5 (67) /System/Library/Frameworks/QTKit.framework/Versions/A/QTKit
0x95c70000 - 0x95c7cff5 libGL.dylib ??? (???) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib
0x95c7d000 - 0x95cbcfef libTIFF.dylib ??? (???) <4b7d3b3b9a9c8335c2538371cb39b60b> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/ImageIO.framework/Versions/A/Resources/libTIFF.dylib
0x95cbd000 - 0x95cd1ff3 com.apple.ImageCapture 4.0 (5.0.0) /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/ImageCapture.framework/Versions/A/ImageCapture
0x95ce2000 - 0x95dadfff com.apple.ColorSync 4.5.0 (4.5.0) /System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/ColorSync.framework/Versions/A/ColorSync
0x95dae000 - 0x95de8fff com.apple.coreui 1.1 (61) /System/Library/PrivateFrameworks/CoreUI.framework/Versions/A/CoreUI
0x97031000 - 0x97190ff3 libSystem.B.dylib ??? (???) /usr/lib/libSystem.B.dylib
0xba900000 - 0xba916fff libJapaneseConverter.dylib ??? (???) <79f7cbef6bc9f4c32a42d63c7332bf8e> /System/Library/CoreServices/Encodings/libJapaneseConverter.dylib
0xbab00000 - 0xbab21fe2 libKoreanConverter.dylib ??? (???) <4b497e7a0027447eaff2b45572bb85ea> /System/Library/CoreServices/Encodings/libKoreanConverter.dylib
0xfffe8000 - 0xfffebfff libobjc.A.dylib ??? (???) /usr/lib/libobjc.A.dylib
0xffff0000 - 0xffff1780 libSystem.B.dylib ??? (???) /usr/lib/libSystem.B.dylib

Reported by: *anonymous

[cryos]

Logged In: NO

submitted by s e b 2 6 8 @ c o r n e l l . e d u

Original comment by: nobody

[cryos]

Still exists for 0.9.2/Linux. Crashes on clicking Fill Cell Button

madcad@integra:~> gdb avogadro
GNU gdb 6.8
Copyright (C) 2008 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later http://gnu.org/licenses/gpl.html
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law. Type "show copying"
and "show warranty" for details.
This GDB was configured as "i586-suse-linux"...
(gdb) run
Starting program: /usr/bin/avogadro
[Thread debugging using libthread_db enabled]
[New Thread 0xb698c6d0 (LWP 9822)]
Avogadro version: 0.9.2
LibAvogadro version: "0.9.2"
Locale: "ru_RU"
path = "/usr/bin/../share/avogadro/i18n/"
"System has OpenGL support."
"About to test OpenGL capabilities."
"OpenGL capabilities found: "
"Double Buffering."
"Direct Rendering."
"Antialiasing."
Searching for plugins in "/usr/bin/../lib/avogadro/colors"
Searching for plugins in "/usr/bin/../lib/avogadro/engines"
Searching for plugins in "/usr/bin/../lib/avogadro/extensions"
Searching for plugins in "/usr/bin/../lib/avogadro/tools"
Versioned config - loading.
GLWidget initialisation...
GLSL support enabled, OpenGL 2.0 support confirmed.
GLWidget initialised...
createObjects()
setOBMol called.
Copying atoms...
Copying bonds...
Copying cubes...

Program received signal SIGSEGV, Segmentation fault.
[Switching to Thread 0xb698c6d0 (LWP 9822)]
0xb7e880ef in OpenBabel::SpaceGroup::Transform () from /usr/lib/libopenbabel.so.3
(gdb) bt
#0 0xb7e880ef in OpenBabel::SpaceGroup::Transform () from /usr/lib/libopenbabel.so.3
#1 0xb59eeb70 in Avogadro::UnitCellExtension::fillUnitCell (this=0x8248498)
at /usr/src/debug/avogadro-0.9.2/libavogadro/src/extensions/unitcellextension.cpp:220
#2 0xb59eef45 in Avogadro::UnitCellExtension::qt_metacall (this=0x8248498, _c=QMetaObject::InvokeMetaMethod, _id=3, _a=0xbfc979d8)
at /usr/src/debug/avogadro-0.9.2/build/libavogadro/src/extensions/unitcellextension.moc:75
#3 0xb7000730 in QMetaObject::activate () from /usr/lib/libQtCore.so.4
#4 0xb70014b2 in QMetaObject::activate () from /usr/lib/libQtCore.so.4
#5 0xb59efad7 in Avogadro::UnitCellParamDialog::fillUnitCell (this=0x81580e0)
at /usr/src/debug/avogadro-0.9.2/build/libavogadro/src/extensions/unitcellparamdialog.moc:125
#6 0xb59f08fb in Avogadro::UnitCellParamDialog::qt_metacall (this=0x81580e0, _c=QMetaObject::InvokeMetaMethod, _id=10, _a=0xbfc97b5c)
at /usr/src/debug/avogadro-0.9.2/libavogadro/src/extensions/unitcellparamdialog.cpp:230
#7 0xb7000730 in QMetaObject::activate () from /usr/lib/libQtCore.so.4
#8 0xb7000b30 in QMetaObject::activate () from /usr/lib/libQtCore.so.4
#9 0xb7a296b1 in QAbstractButton::clicked () from /usr/lib/libQtGui.so.4
#10 0xb777bfd9 in ?? () from /usr/lib/libQtGui.so.4
#11 0xb777db44 in ?? () from /usr/lib/libQtGui.so.4
#12 0xb777ddd6 in QAbstractButton::mouseReleaseEvent () from /usr/lib/libQtGui.so.4
#13 0xb7492a52 in QWidget::event () from /usr/lib/libQtGui.so.4
#14 0xb777be7e in QAbstractButton::event () from /usr/lib/libQtGui.so.4
#15 0xb7822870 in QPushButton::event () from /usr/lib/libQtGui.so.4
#16 0xb743a82c in QApplicationPrivate::notify_helper () from /usr/lib/libQtGui.so.4
#17 0xb7443081 in QApplication::notify () from /usr/lib/libQtGui.so.4
#18 0xb6feba61 in QCoreApplication::notifyInternal () from /usr/lib/libQtCore.so.4
#19 0xb744230e in QApplicationPrivate::sendMouseEvent () from /usr/lib/libQtGui.so.4
#20 0xb74ac736 in ?? () from /usr/lib/libQtGui.so.4
#21 0xb74abadd in QApplication::x11ProcessEvent () from /usr/lib/libQtGui.so.4
#22 0xb74d41bc in ?? () from /usr/lib/libQtGui.so.4
---Type to continue, or q to quit---
#23 0xb6e172d9 in g_main_context_dispatch () from /usr/lib/libglib-2.0.so.0
#24 0xb6e1a85b in ?? () from /usr/lib/libglib-2.0.so.0
#25 0xb6e1a9d8 in g_main_context_iteration () from /usr/lib/libglib-2.0.so.0
#26 0xb70161f8 in QEventDispatcherGlib::processEvents () from /usr/lib/libQtCore.so.4
#27 0xb74d3885 in ?? () from /usr/lib/libQtGui.so.4
#28 0xb6fea13a in QEventLoop::processEvents () from /usr/lib/libQtCore.so.4
#29 0xb6fea2fa in QEventLoop::exec () from /usr/lib/libQtCore.so.4
#30 0xb6fec995 in QCoreApplication::exec () from /usr/lib/libQtCore.so.4
#31 0xb743a6a7 in QApplication::exec () from /usr/lib/libQtGui.so.4
#32 0x0806c645 in main (argc=1, argv=0xbfc98cb4) at /usr/src/debug/avogadro-0.9.2/avogadro/src/main.cpp:189
(gdb)

Original comment by: madcadufa

[cryos]

Can someone get me an example file which causes the crash? I'd like to know what's causing this, since I can't reproduce it.

Original comment by: @ghutchis

[cryos]

OK, I've narrowed this down to Open Babel issues with space groups. It will be fixed with the OB v2.2.2 release. If anyone wants a patch, please let me know.

Original comment by: @ghutchis

[cryos]

This Tracker item was closed automatically by the system. It was
previously set to a Pending status, and the original submitter
did not respond within 14 days (the time period specified by
the administrator of this Tracker).

Original comment by: sf-robot