Closed ghutchis closed 8 years ago
This should be fixed in one of the most recent snapshots: http://avogadro.openmolecules.net/nightly/mac/
Original comment by: @ghutchis
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
Avogadro crashes (reproducibly) if one is to attempt import of a .cdxml file. I'm not sure what ChemDraw uses those formats for, but it would be better if Avogadro just said "can't import" as opposed to crashing. Running 1.0.0 81fcdfb on Mac OS X 10.6.1 here's the crash report, thanks :) Process: Avogadro [14165] Path: /Applications/Avogadro.app/Contents/MacOS/Avogadro Identifier: net.sourceforge Version: (1.0.0) Code Type: X86 (Native) Parent Process: launchd [91]
Date/Time: 2009-11-09 11:02:17.044 -0500 OS Version: Mac OS X 10.6.1 (10A2155) Report Version: 6
Interval Since Last Report: 143286 sec Crashes Since Last Report: 5 Per-App Interval Since Last Report: 147917 sec Per-App Crashes Since Last Report: 5 Anonymous UUID: 690DE6C7-294F-4941-BB33-073E06764A38
Exception Type: EXC_BAD_ACCESS (SIGBUS) Exception Codes: KERN_PROTECTION_FAILURE at 0x0000000000000028 Crashed Thread: 9
Thread 0: Dispatch queue: com.apple.main-thread 0 com.apple.CoreFoundation 0x90881f55 CFBasicHashRehash + 1685 1 com.apple.CoreFoundation 0x908b9a74 CFDictionaryCreate + 68 2 com.apple.CoreFoundation 0x908c92ff -[NSPlaceholderDictionary initWithObjects:forKeys:count:] + 959 3 com.apple.CoreFoundation 0x908e37b0 +[NSDictionary dictionaryWithObjectsAndKeys:] + 320 4 com.apple.AppKit 0x91023f7f -[NSMenu itemChanged:] + 216 5 com.apple.AppKit 0x9108f0b3 -[NSMenu _menuItem:didChangeEnabledStateFrom:to:] + 63 6 com.apple.AppKit 0x9102400c -[NSMenuItem setEnabled:] + 91 7 QtGui 0x003ffda2 qt_mac_set_modal_state_helperrecursive(NSMenu, NSMenu_, bool) + 402 8 QtGui 0x003ffd7b qt_mac_set_modal_state_helperrecursive(NSMenu, NSMenu_, bool) + 363 9 QtGui 0x00400e72 qt_mac_set_modalstate(NSMenu, bool) + 146 10 QtGui 0x00402158 QMenuBar::macUpdateMenuBar() + 936 11 QtGui 0x003ba975 QApplicationPrivate::enterModalsys(QWidget) + 277 12 QtGui 0x0042557d QApplicationPrivate::enterModal(QWidget_) + 253 13 QtGui 0x0046a06e QWidgetPrivate::showhelper() + 398 14 QtGui 0x0046a6c3 QWidget::setVisible(bool) + 1251 15 QtGui 0x008a0721 QDialog::setVisible(bool) + 113 16 net.sourceforge 0x0002362c Avogadro::MainWindow::loadFile(QString const&, OpenBabel::OBFormat, QString const&) + 1108 17 net.sourceforge 0x0001347d Avogadro::ImportDialog::accepted() + 301 18 net.sourceforge 0x000135e0 Avogadro::ImportDialog::qtmetacall(QMetaObject::Call, int, void*) + 228 19 QtCore 0x010a51dc QMetaObject::activate(QObject, int, int, void**) + 556 20 QtGui 0x007c786e QDialogButtonBox::clicked(QAbstractButton) + 62 21 QtGui 0x007c7c47 QDialogButtonBoxPrivate::_q_handleButtonClicked() + 71 22 QtGui 0x007c98da QDialogButtonBox::qt_metacall(QMetaObject::Call, int, void_) + 426 23 QtCore 0x010a51dc QMetaObject::activate(QObject, int, int, void) + 556 24 QtGui 0x00a2b6fc QAbstractButton::clicked(bool) + 76 25 QtGui 0x00798996 QAbstractButtonPrivate::emitClicked() + 54 26 QtGui 0x00798aab QAbstractButtonPrivate::click() + 139 27 QtGui 0x00798cf0 QAbstractButton::mouseReleaseEvent(QMouseEvent) + 128 28 QtGui 0x00466a20 QWidget::event(QEvent) + 2400 29 QtGui 0x00799553 QAbstractButton::event(QEvent) + 83 30 QtGui 0x0083667a QPushButton::event(QEvent_) + 58 31 QtGui 0x0041f39f QApplicationPrivate::notifyhelper(QObject, QEvent) + 191 32 QtGui 0x004268ed QApplication::notify(QObject, QEvent) + 2829 33 QtCore 0x01092de2 QCoreApplication::notifyInternal(QObject, QEvent_) + 98 34 QtGui 0x0041d45c qtsendSpontaneousEvent(QObject, QEvent_) + 60 35 QtGui 0x003d7d63 qt_machandleMouseEvent(void, void, QEvent::Type, Qt::MouseButton) + 1123 36 QtGui 0x003cb3d7 -[QCocoaView mouseUp:] + 55 37 com.apple.AppKit 0x9116ea14 -[NSWindow sendEvent:] + 5693 38 QtGui 0x003cac12 -[QCocoaPanel sendEvent:] + 194 39 com.apple.AppKit 0x9108758f -[NSApplication sendEvent:] + 6433 40 com.apple.AppKit 0x9101aec5 -[NSApplication run] + 917 41 QtGui 0x003db2c1 QEventDispatcherMac::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 1265 42 QtCore 0x01092481 QEventLoop::processEvents(QFlagsQEventLoop::ProcessEventsFlag) + 65 43 QtCore 0x0109264d QEventLoop::exec(QFlagsQEventLoop::ProcessEventsFlag) + 189 44 QtCore 0x0109616e QCoreApplication::exec() + 174 45 net.sourceforge 0x000162a7 main + 5805 46 net.sourceforge 0x00009d22 _start + 216 47 net.sourceforge 0x00009c49 start + 41
Thread 1: Dispatch queue: com.apple.libdispatch-manager 0 libSystem.B.dylib 0x91d0d03a kevent + 10 1 libSystem.B.dylib 0x91d0d768 _dispatch_mgr_invoke + 215 2 libSystem.B.dylib 0x91d0cbf9 _dispatch_queue_invoke + 183 3 libSystem.B.dylib 0x91d0c98a _dispatch_worker_thread2 + 234 4 libSystem.B.dylib 0x91d0c401 _pthread_wqthread + 390 5 libSystem.B.dylib 0x91d0c246 start_wqthread + 30
Thread 2: 0 libSystem.B.dylib 0x91d14782 __semwait_signal + 10 1 libSystem.B.dylib 0x91d1443e _pthread_cond_wait + 1191 2 libSystem.B.dylib 0x91d160d8 pthread_condwait$UNIX2003 + 73 3 QtCore 0x00fa3576 QWaitCondition::wait(QMutex, unsigned long) + 278 4 QtGui 0x008dbb5c QFileInfoGatherer::run() + 508 5 QtCore 0x00fa213f QThreadPrivate::start(void_) + 191 6 libSystem.B.dylib 0x91d13f39 _pthread_start + 345 7 libSystem.B.dylib 0x91d13dbe thread_start + 34
Thread 3: 0 libSystem.B.dylib 0x91d0d03a kevent + 10 1 QtCore 0x0107a2b5 QKqueueFileSystemWatcherEngine::run() + 85 2 QtCore 0x00fa213f QThreadPrivate::start(void*) + 191 3 libSystem.B.dylib 0x91d13f39 _pthread_start + 345 4 libSystem.B.dylib 0x91d13dbe thread_start + 34
Thread 4: 0 libSystem.B.dylib 0x91d14782 __semwait_signal + 10 1 libSystem.B.dylib 0x91d1443e _pthread_cond_wait + 1191 2 libSystem.B.dylib 0x91d160d8 pthread_condwait$UNIX2003 + 73 3 QtCore 0x00fa3576 QWaitCondition::wait(QMutex, unsigned long) + 278 4 QtNetwork 0x00e7ac36 QHostInfoAgent::run() + 566 5 QtCore 0x00fa213f QThreadPrivate::start(void_) + 191 6 libSystem.B.dylib 0x91d13f39 _pthread_start + 345 7 libSystem.B.dylib 0x91d13dbe thread_start + 34
Thread 5: 0 libSystem.B.dylib 0x91d05756 select$DARWIN_EXTSN + 10 1 com.apple.CoreFoundation 0x908fa04d __CFSocketManager + 1085 2 libSystem.B.dylib 0x91d13f39 _pthread_start + 345 3 libSystem.B.dylib 0x91d13dbe thread_start + 34
Thread 6: 0 libSystem.B.dylib 0x91d0c092 __workq_kernreturn + 10 1 libSystem.B.dylib 0x91d0c628 _pthread_wqthread + 941 2 libSystem.B.dylib 0x91d0c246 start_wqthread + 30
Thread 7: 0 libSystem.B.dylib 0x91d0c092 __workq_kernreturn + 10 1 libSystem.B.dylib 0x91d0c628 _pthread_wqthread + 941 2 libSystem.B.dylib 0x91d0c246 start_wqthread + 30
Thread 8: 0 libSystem.B.dylib 0x91d0c092 __workq_kernreturn + 10 1 libSystem.B.dylib 0x91d0c628 _pthread_wqthread + 941 2 libSystem.B.dylib 0x91d0c246 start_wqthread + 30
Thread 9 Crashed: 0 libopenbabel.3.0.3.dylib 0x000ec3e6 OpenBabel::OBAtom::BeginNbrAtom(__gnu_cxx::__normaliterator<OpenBabel::OBBond*, std::vector<OpenBabel::OBBond, std::allocator<OpenBabel::OBBond*> > >&) + 18 1 libopenbabel.3.0.3.dylib 0x0013c696 OpenBabel::OBMol::GetBond(OpenBabel::OBAtom, OpenBabel::OBAtom) const + 36 2 libopenbabel.3.0.3.dylib 0x00145d21 OpenBabel::OBMol::AddBond(int, int, int, int, int) + 65 3 cdxmlformat.so 0x16c97079 OpenBabel::ChemDrawXMLFormat::EnsureEndElement() + 153 4 cdxmlformat.so 0x16c97191 OpenBabel::ChemDrawXMLFormat::EndElement(std::string const&) + 261 5 cdxmlformat.so 0x16c98dc3 OpenBabel::XMLConversion::ReadXML(OpenBabel::XMLBaseFormat, OpenBabel::OBBase) + 679 6 cdxmlformat.so 0x16c97a45 OpenBabel::XMLMoleculeFormat::ReadMolecule(OpenBabel::OBBase, OpenBabel::OBConversion) + 125 7 libopenbabel.3.0.3.dylib 0x0014f5b3 OpenBabel::OBConversion::Read(OpenBabel::OBBase, std::istream_) + 323 8 libavogadro.1.0.0.dylib 0x01233b38 Avogadro::ReadFileThread::run() + 1850 9 QtCore 0x00fa213f QThreadPrivate::start(void*) + 191 10 libSystem.B.dylib 0x91d13f39 _pthread_start + 345 11 libSystem.B.dylib 0x91d13dbe thread_start + 34
Thread 9 crashed with X86 Thread State (32-bit): eax: 0x00000000 ebx: 0x00145cf4 ecx: 0x1c84ebe0 edx: 0x1c84ebe8 edi: 0x00000000 esi: 0xb010232c ebp: 0xb0102308 esp: 0xb01022e0 ss: 0x0000001f efl: 0x00010282 eip: 0x000ec3e6 cs: 0x00000017 ds: 0x0000001f es: 0x0000001f fs: 0x0000001f gs: 0x00000037 cr2: 0x00000028
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0xbb100000 - 0xbb103fe7 libLatinSuppConverter.dylib ??? (???) <8F302BD3-4440-8B41-4F9A-142DF6F6CADD> /System/Library/CoreServices/Encodings/libLatinSuppConverter.dylib
0xffff0000 - 0xffff1fff libSystem.B.dylib ??? (???) <7E717396-4ABC-D321-85F1-7358D94CE628> /usr/lib/libSystem.B.dylib
Model: iMac10,1, BootROM IM101.00CC.B00, 2 processors, Intel Core 2 Duo, 3.06 GHz, 4 GB, SMC 1.52f9 Graphics: NVIDIA GeForce 9400, NVIDIA GeForce 9400, PCI, 256 MB Memory Module: global_name AirPort: spairport_wireless_card_type_airport_extreme (0x168C, 0x8F), Atheros 9280: 2.1.8.7 Bluetooth: Version 2.2.3f8, 2 service, 1 devices, 1 incoming serial ports Network Service: Ethernet, Ethernet, en0 Network Service: AirPort, AirPort, en1 Serial ATA Device: WDC WD5000AAKS-40V2B0, 465.76 GB Serial ATA Device: HL-DT-ST DVDRW GA11N USB Device: Internal Memory Card Reader, 0x05ac (Apple Inc.), 0x8403, 0x26500000 USB Device: USB Flash Drive, 0x090c (Silicon Motion, Inc. - Taiwan), 0x1000, 0x24100000 USB Device: Built-in iSight, 0x05ac (Apple Inc.), 0x8502, 0x24400000 USB Device: BRCM2046 Hub, 0x0a5c (Broadcom Corp.), 0x4500, 0x06100000 USB Device: Bluetooth USB Host Controller, 0x05ac (Apple Inc.), 0x8215, 0x06110000 USB Device: IR Receiver, 0x05ac (Apple Inc.), 0x8242, 0x04500000
Reported by: *anonymous