Open cryos opened 13 years ago
Works for me. Can you give us more information? What OS are you using? What version of Avogadro? Can you post a molecule or 3? How are you opening the molecules?
Original comment by: @ghutchis
I am using Mac OSX 10.6.8 and Avogadro 1.0.3. The program initially works fine with no problem. But after some time into its usage, the program crashes right after I open up a new molecule.
The crash occurs occasionally, meaning that sometimes it did not crash while at times it did. Upon crashing, it did give a pop-up window with some messages inside. I'll make sure to post the error message the next time it happens.
Original comment by: nobody
Well, open multiple molecule was probably not the cause of the error as this time I had only one molecule open, but I was trying to edit the bonds type of the molecule and suddenly it crashed.
It says that Avogadro ended unexpectedly and the following message was given:
Process: Avogadro [276] Path: /Applications/Avogadro.app/Contents/MacOS/Avogadro Identifier: net.sourceforge Version: (1.0.3) Code Type: X86 (Native) Parent Process: launchd [93]
Date/Time: 2011-09-13 21:44:13.579 +0200 OS Version: Mac OS X 10.6.8 (10K549) Report Version: 6
Interval Since Last Report: 196085 sec Crashes Since Last Report: 9 Per-App Interval Since Last Report: 10697 sec Per-App Crashes Since Last Report: 5 Anonymous UUID: F950A5D3-C554-40A3-BD09-1801EFF566AE
Exception Type: EXC_BAD_ACCESS (SIGBUS) Exception Codes: KERN_PROTECTION_FAILURE at 0x0000000000000000 Crashed Thread: 0 Dispatch queue: com.apple.main-thread
Thread 0 Crashed: Dispatch queue: com.apple.main-thread 0 drawtool.so 0x17e5f965 Avogadro::ChangeElementDrawCommand::undo() + 61 1 QtGui 0x00bed5a7 QUndoStack::undo() + 103 2 QtGui 0x00c1630a QUndoStack::qtmetacall(QMetaObject::Call, int, void**) + 474 3 QtCore 0x01237832 QMetaObject::activate(QObject, QMetaObject const_, int, void*) + 594 4 QtGui 0x004e98c4 QAction::triggered(bool) + 68 5 QtGui 0x004eaf8f QAction::activate(QAction::ActionEvent) + 159 6 QtGui 0x004c8f09 qt_mac_activateaction(OpaqueMenuRef, unsigned int, QAction::ActionEvent, bool) + 153 7 QtGui 0x004c9519 qt_mac_menuevent(OpaqueEventHandlerCallRef, OpaqueEventRef, void) + 617 8 com.apple.HIToolbox 0x9a42dc2f DispatchEventToHandlers(EventTargetRec, OpaqueEventRef, HandlerCallRec) + 1567 9 com.apple.HIToolbox 0x9a42cef6 SendEventToEventTargetInternal(OpaqueEventRef, OpaqueEventTargetRef, HandlerCallRec) + 411 10 com.apple.HIToolbox 0x9a44f7f3 SendEventToEventTarget + 52 11 com.apple.HIToolbox 0x9a47be87 SendHICommandEvent(unsigned long, HICommand const, unsigned long, unsigned long, unsigned char, void const, OpaqueEventTargetRef, OpaqueEventTargetRef, OpaqueEventRef_) + 448 12 com.apple.HIToolbox 0x9a4a0b90 SendMenuCommandWithContextAndModifiers + 66 13 com.apple.HIToolbox 0x9a4a0b47 SendMenuItemSelectedEvent + 121 14 com.apple.HIToolbox 0x9a62c941 HIMenuSendItemSelectedEvent + 83 15 com.apple.HIToolbox 0x9a5dba36 HIMenuBar::HandleKeyboardEvent(OpaqueEventRef) + 304 16 com.apple.HIToolbox 0x9a42e22b HIObject::EventHook(OpaqueEventHandlerCallRef, OpaqueEventRef, void) + 173 17 com.apple.HIToolbox 0x9a42dc2f DispatchEventToHandlers(EventTargetRec, OpaqueEventRef, HandlerCallRec) + 1567 18 com.apple.HIToolbox 0x9a42cef6 SendEventToEventTargetInternal(OpaqueEventRef, OpaqueEventTargetRef, HandlerCallRec) + 411 19 com.apple.HIToolbox 0x9a42cd55 SendEventToEventTargetWithOptions + 58 20 com.apple.HIToolbox 0x9a4615e4 ToolboxEventDispatcherHandler(OpaqueEventHandlerCallRef, OpaqueEventRef, void) + 1918 21 com.apple.HIToolbox 0x9a42e080 DispatchEventToHandlers(EventTargetRec, OpaqueEventRef, HandlerCallRec) + 2672 22 com.apple.HIToolbox 0x9a42cef6 SendEventToEventTargetInternal(OpaqueEventRef, OpaqueEventTargetRef, HandlerCallRec) + 411 23 com.apple.HIToolbox 0x9a44f7f3 SendEventToEventTarget + 52 24 QtGui 0x0049cc34 QEventDispatcherMac::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 596 25 QtCore 0x01312f31 QEventLoop::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 65 26 QtCore 0x0131316d QEventLoop::exec(QFlagsQEventLoop::ProcessEventsFlag) + 189 27 QtCore 0x0131549e QCoreApplication::exec() + 174 28 net.sourceforge 0x00013c43 main + 6451 29 net.sourceforge 0x00006e96 _start + 216 30 net.sourceforge 0x00006dbd start + 41
Thread 1: Dispatch queue: com.apple.libdispatch-manager 0 libSystem.B.dylib 0x965aa382 kevent + 10 1 libSystem.B.dylib 0x965aaa9c _dispatch_mgr_invoke + 215 2 libSystem.B.dylib 0x965a9f59 _dispatch_queue_invoke + 163 3 libSystem.B.dylib 0x965a9cfe _dispatch_worker_thread2 + 240 4 libSystem.B.dylib 0x965a9781 _pthread_wqthread + 390 5 libSystem.B.dylib 0x965a95c6 start_wqthread + 30
Thread 2: 0 libSystem.B.dylib 0x96583b42 semaphore_wait_signal_trap + 10 1 libSystem.B.dylib 0x965b16f8 _pthread_cond_wait + 1089 2 libSystem.B.dylib 0x965fa05f pthread_condwait + 48 3 QtCore 0x011ee316 QWaitCondition::wait(QMutex, unsigned long) + 278 4 QtGui 0x00a5c84c QFileInfoGatherer::run() + 540 5 QtCore 0x01253f06 QThreadPrivate::start(void_) + 198 6 libSystem.B.dylib 0x965b1259 _pthread_start + 345 7 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 3: 0 libSystem.B.dylib 0x965aa382 kevent + 10 1 QtCore 0x012ffdda QKqueueFileSystemWatcherEngine::run() + 74 2 QtCore 0x01253f06 QThreadPrivate::start(void*) + 198 3 libSystem.B.dylib 0x965b1259 _pthread_start + 345 4 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 4: com.apple.CFSocket.private 0 libSystem.B.dylib 0x965a2ac6 select$DARWIN_EXTSN + 10 1 com.apple.CoreFoundation 0x92cb4c83 __CFSocketManager + 1091 2 libSystem.B.dylib 0x965b1259 _pthread_start + 345 3 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 5: 0 libSystem.B.dylib 0x96583b42 semaphore_wait_signal_trap + 10 1 libSystem.B.dylib 0x965b16f8 _pthread_cond_wait + 1089 2 libSystem.B.dylib 0x965fa05f pthread_condwait + 48 3 QtCore 0x011ee316 QWaitCondition::wait(QMutex, unsigned long) + 278 4 QtGui 0x00a5c84c QFileInfoGatherer::run() + 540 5 QtCore 0x01253f06 QThreadPrivate::start(void_) + 198 6 libSystem.B.dylib 0x965b1259 _pthread_start + 345 7 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 6: 0 libSystem.B.dylib 0x965aa382 kevent + 10 1 QtCore 0x012ffdda QKqueueFileSystemWatcherEngine::run() + 74 2 QtCore 0x01253f06 QThreadPrivate::start(void*) + 198 3 libSystem.B.dylib 0x965b1259 _pthread_start + 345 4 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 0 crashed with X86 Thread State (32-bit): eax: 0x00000000 ebx: 0x00bed55a ecx: 0x00000004 edx: 0x00000002 edi: 0x1c5ac7e0 esi: 0x1c559c20 ebp: 0xbfffe7c8 esp: 0xbfffe7b0 ss: 0x0000001f efl: 0x00210202 eip: 0x17e5f965 cs: 0x00000017 ds: 0x0000001f es: 0x0000001f fs: 0x00000000 gs: 0x00000037 cr2: 0x00000000
Binary Images:
0x1000 - 0x8afe3 +net.sourceforge (1.0.3)
Original comment by: nobody
It happens again:
Process: Avogadro [356] Path: /Applications/Avogadro.app/Contents/MacOS/Avogadro Identifier: net.sourceforge Version: (1.0.3) Code Type: X86 (Native) Parent Process: launchd [93]
Date/Time: 2011-09-13 22:11:20.811 +0200 OS Version: Mac OS X 10.6.8 (10K549) Report Version: 6
Interval Since Last Report: 197711 sec Crashes Since Last Report: 11 Per-App Interval Since Last Report: 12248 sec Per-App Crashes Since Last Report: 7 Anonymous UUID: F950A5D3-C554-40A3-BD09-1801EFF566AE
Exception Type: EXC_BAD_ACCESS (SIGBUS) Exception Codes: KERN_PROTECTION_FAILURE at 0x0000000000000002 Crashed Thread: 0 Dispatch queue: com.apple.main-thread
Thread 0 Crashed: Dispatch queue: com.apple.main-thread 0 QtCore 0x01211ef9 QString::startsWith(QChar const&, Qt::CaseSensitivity) const + 169 1 QtCore 0x012e182e QSettingsPrivate::variantToString(QVariant const&) + 2110 2 QtCore 0x012fc9e3 macValue(QVariant const&) + 419 3 QtCore 0x012fda86 QMacSettingsPrivate::set(QString const&, QVariant const&) + 54 4 QtCore 0x0122230a QSettings::setValue(QString const&, QVariant const&) + 58 5 net.sourceforge 0x00045e51 Avogadro::UpdateCheck::writeSettings(QSettings&) const + 93 6 net.sourceforge 0x0001806e Avogadro::MainWindow::writeSettings() + 1674 7 net.sourceforge 0x0002264e Avogadro::MainWindow::closeEvent(QCloseEvent) + 72 8 QtGui 0x0054cfcb QWidget::event(QEvent) + 4267 9 QtGui 0x0096f53f QMainWindow::event(QEvent) + 335 10 net.sourceforge 0x000252c8 Avogadro::MainWindow::event(QEvent) + 1020 11 QtGui 0x004f3d7f QApplicationPrivate::notifyhelper(QObject, QEvent) + 175 12 QtGui 0x004f3f81 QApplication::notify(QObject, QEvent) + 385 13 QtCore 0x01230cc2 QCoreApplication::notifyInternal(QObject, QEvent_) + 98 14 QtGui 0x0054721d QWidgetPrivate::close_helper(QWidgetPrivate::CloseMode) + 525 15 QtGui 0x0054731c QWidget::close() + 28 16 QtGui 0x005518f7 QWidget::qt_metacall(QMetaObject::Call, int, void) + 295 17 QtGui 0x00c0e585 QMainWindow::qt_metacall(QMetaObject::Call, int, void) + 53 18 net.sourceforge 0x00025dad Avogadro::MainWindow::qtmetacall(QMetaObject::Call, int, void**) + 53 19 QtCore 0x01237832 QMetaObject::activate(QObject, QMetaObject const_, int, void*) + 594 20 QtGui 0x004e98c4 QAction::triggered(bool) + 68 21 QtGui 0x004eaf8f QAction::activate(QAction::ActionEvent) + 159 22 QtGui 0x004c8f09 qt_mac_activateaction(OpaqueMenuRef, unsigned int, QAction::ActionEvent, bool) + 153 23 QtGui 0x004c9519 qt_mac_menuevent(OpaqueEventHandlerCallRef, OpaqueEventRef, void) + 617 24 com.apple.HIToolbox 0x9a42dc2f DispatchEventToHandlers(EventTargetRec, OpaqueEventRef, HandlerCallRec) + 1567 25 com.apple.HIToolbox 0x9a42cef6 SendEventToEventTargetInternal(OpaqueEventRef, OpaqueEventTargetRef, HandlerCallRec) + 411 26 com.apple.HIToolbox 0x9a44f7f3 SendEventToEventTarget + 52 27 com.apple.HIToolbox 0x9a47be87 SendHICommandEvent(unsigned long, HICommand const, unsigned long, unsigned long, unsigned char, void const, OpaqueEventTargetRef, OpaqueEventTargetRef, OpaqueEventRef_) + 448 28 com.apple.HIToolbox 0x9a4a0b90 SendMenuCommandWithContextAndModifiers + 66 29 com.apple.HIToolbox 0x9a4a0b47 SendMenuItemSelectedEvent + 121 30 com.apple.HIToolbox 0x9a62c941 HIMenuSendItemSelectedEvent + 83 31 com.apple.HIToolbox 0x9a5dba36 HIMenuBar::HandleKeyboardEvent(OpaqueEventRef) + 304 32 com.apple.HIToolbox 0x9a42e22b HIObject::EventHook(OpaqueEventHandlerCallRef, OpaqueEventRef, void) + 173 33 com.apple.HIToolbox 0x9a42dc2f DispatchEventToHandlers(EventTargetRec, OpaqueEventRef, HandlerCallRec) + 1567 34 com.apple.HIToolbox 0x9a42cef6 SendEventToEventTargetInternal(OpaqueEventRef, OpaqueEventTargetRef, HandlerCallRec) + 411 35 com.apple.HIToolbox 0x9a42cd55 SendEventToEventTargetWithOptions + 58 36 com.apple.HIToolbox 0x9a4615e4 ToolboxEventDispatcherHandler(OpaqueEventHandlerCallRef, OpaqueEventRef, void) + 1918 37 com.apple.HIToolbox 0x9a42e080 DispatchEventToHandlers(EventTargetRec, OpaqueEventRef, HandlerCallRec) + 2672 38 com.apple.HIToolbox 0x9a42cef6 SendEventToEventTargetInternal(OpaqueEventRef, OpaqueEventTargetRef, HandlerCallRec) + 411 39 com.apple.HIToolbox 0x9a44f7f3 SendEventToEventTarget + 52 40 QtGui 0x0049cc34 QEventDispatcherMac::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 596 41 QtCore 0x01312f31 QEventLoop::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 65 42 QtCore 0x0131316d QEventLoop::exec(QFlagsQEventLoop::ProcessEventsFlag) + 189 43 QtCore 0x0131549e QCoreApplication::exec() + 174 44 net.sourceforge 0x00013c43 main + 6451 45 net.sourceforge 0x00006e96 _start + 216 46 net.sourceforge 0x00006dbd start + 41
Thread 1: Dispatch queue: com.apple.libdispatch-manager 0 libSystem.B.dylib 0x965aa382 kevent + 10 1 libSystem.B.dylib 0x965aaa9c _dispatch_mgr_invoke + 215 2 libSystem.B.dylib 0x965a9f59 _dispatch_queue_invoke + 163 3 libSystem.B.dylib 0x965a9cfe _dispatch_worker_thread2 + 240 4 libSystem.B.dylib 0x965a9781 _pthread_wqthread + 390 5 libSystem.B.dylib 0x965a95c6 start_wqthread + 30
Thread 2: com.apple.CFSocket.private 0 libSystem.B.dylib 0x965a2ac6 select$DARWIN_EXTSN + 10 1 com.apple.CoreFoundation 0x92cb4c83 __CFSocketManager + 1091 2 libSystem.B.dylib 0x965b1259 _pthread_start + 345 3 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 3: 0 libSystem.B.dylib 0x96583b42 semaphore_wait_signal_trap + 10 1 libSystem.B.dylib 0x965b16f8 _pthread_cond_wait + 1089 2 libSystem.B.dylib 0x965fa05f pthread_condwait + 48 3 QtCore 0x011ee316 QWaitCondition::wait(QMutex, unsigned long) + 278 4 QtGui 0x00a5c84c QFileInfoGatherer::run() + 540 5 QtCore 0x01253f06 QThreadPrivate::start(void_) + 198 6 libSystem.B.dylib 0x965b1259 _pthread_start + 345 7 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 4: 0 libSystem.B.dylib 0x965aa382 kevent + 10 1 QtCore 0x012ffdda QKqueueFileSystemWatcherEngine::run() + 74 2 QtCore 0x01253f06 QThreadPrivate::start(void*) + 198 3 libSystem.B.dylib 0x965b1259 _pthread_start + 345 4 libSystem.B.dylib 0x965b10de thread_start + 34
Thread 5: 0 libSystem.B.dylib 0x965a9412 __workq_kernreturn + 10 1 libSystem.B.dylib 0x965a99a8 _pthread_wqthread + 941 2 libSystem.B.dylib 0x965a95c6 start_wqthread + 30
Thread 0 crashed with X86 Thread State (32-bit): eax: 0x00000040 ebx: 0x01211e69 ecx: 0xbfffd5de edx: 0x00000002 edi: 0xbfffde90 esi: 0xbfffd5a0 ebp: 0xbfffd4f8 esp: 0xbfffd4e8 ss: 0x0000001f efl: 0x00210246 eip: 0x01211ef9 cs: 0x00000017 ds: 0x0000001f es: 0x0000001f fs: 0x00000000 gs: 0x00000037 cr2: 0x00000002
Binary Images:
0x1000 - 0x8afe3 +net.sourceforge (1.0.3)
Original comment by: nobody
The program crashes upon opening multiple molecules simultaneously.
Reported by: *anonymous