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IDProjectCategoryView StatusDate SubmittedLast Update
0002099Slicer4Module SceneViewspublic2012-05-22 01:052014-03-06 06:10
Reporterkikinis Assigned Toalexy  
PrioritynormalSeveritycrashReproducibilityalways
Status closedResolutionfixed 
PlatformAppleOSOS XOS Version10.7.3
Product VersionSlicer 4.1.0 
Target VersionSlicer 4.2.0Fixed in VersionSlicer 4.1.1 
Summary0002099: restoring sceneview with tracts does not work properly and leads to crash
Description

rons examples, 2012-04-...preparedfor lecture, load scene with name beginning with 3...
restore the sceneview called parcellated tracts. Note lack of tracts (compare to thumbnail).
go to tractogaphy display and try to make the cc visible as tubes
enjoy the crash.

Process: Slicer [3805]
Path: /Users/USER/Downloads/Slicer-4.1.0-2012-05-19-macosx-amd64.app/Contents/MacOS/Slicer
Identifier: ???
Version: ??? (???)
Code Type: X86-64 (Native)
Parent Process: launchd [135]

Date/Time: 2012-05-22 11:04:42.845 +0200
OS Version: Mac OS X 10.7.3 (11D50)
Report Version: 9

Interval Since Last Report: 3958260 sec
Crashes Since Last Report: 598
Per-App Interval Since Last Report: 806461 sec
Per-App Crashes Since Last Report: 149
Anonymous UUID: F3CF6168-B63E-40A4-B96C-BB98DB23AB01

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

Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000068

VM Regions Near 0x68:
-->
__TEXT 0000000100000000-0000000100025000 [ 148K] r-x/rwx SM=COW /Users/USER/Downloads/Slicer-4.1.0-2012-05-19-macosx-amd64.app/Contents/MacOS/Slicer

Application Specific Information:
objc[3805]: garbage collection is OFF

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0 libqSlicerTractographyDisplayModuleWidgets.dylib 0x000000011b233c7b qSlicerTractographyDisplayWidget::updateWidgetFromMRML() + 299
1 libqSlicerTractographyDisplayModuleWidgets.dylib 0x000000011b22b768 qSlicerTractographyDisplayModuleWidget::setFiberBundleNode(vtkMRMLFiberBundleNode*) + 104
2 libqSlicerTractographyDisplayModuleWidgets.dylib 0x000000011b2364ff qSlicerTractographyDisplayModuleWidget::qt_metacall(QMetaObject::Call, int, void) + 159
3 QtCore 0x00000001075ab9d6 QMetaObject::activate(QObject, QMetaObject const, int, void) + 710
4 libqMRMLWidgets.dylib 0x00000001004bb92e qMRMLNodeComboBox::currentNodeChanged(vtkMRMLNode*) + 46
5 libqMRMLWidgets.dylib 0x00000001004631d8 qMRMLNodeComboBox::emitCurrentNodeChanged() + 72
6 libqMRMLWidgets.dylib 0x00000001004bbc0c qMRMLNodeComboBox::qt_metacall(QMetaObject::Call, int, void) + 588
7 QtCore 0x00000001075ab9d6 QMetaObject::activate(QObject, QMetaObject const, int, void) + 710
8 QtGui 0x0000000106cb97b9 QComboBox::currentIndexChanged(QString const&) + 41
9 QtGui 0x0000000106cbb1e9 QComboBoxPrivate::_q_emitCurrentIndexChanged(QModelIndex const&) + 73
10 QtGui 0x0000000106cbf9de QComboBoxPrivate::setCurrentIndex(QModelIndex const&) + 254
11 QtGui 0x0000000106cc2145 QComboBoxPrivate::_q_itemSelected(QModelIndex const&) + 69
12 QtGui 0x0000000106cc2d3a QComboBox::qt_metacall(QMetaObject::Call, int, void) + 714
13 libCTKWidgets.0.1.dylib 0x0000000100eca695 ctkComboBox::qt_metacall(QMetaObject::Call, int, void) + 37
14 QtCore 0x00000001075ab9d6 QMetaObject::activate(QObject, QMetaObject const, int, void*) + 710
15 QtGui 0x0000000106f71706 QComboBoxPrivateContainer::itemSelected(QModelIndex const&) + 38
16 QtGui 0x0000000106cbb71a QComboBoxPrivateContainer::eventFilter(QObject, QEvent) + 410
17 QtCore 0x0000000107690827 QCoreApplicationPrivate::sendThroughObjectEventFilters(QObject, QEvent) + 151
18 QtGui 0x000000010692584e QApplicationPrivate::notify_helper(QObject, QEvent) + 142
19 QtGui 0x000000010692c040 QApplication::notify(QObject, QEvent) + 2416
20 QtCore 0x00000001075a523c QCoreApplication::notifyInternal(QObject, QEvent) + 124
21 QtGui 0x0000000106924d7c qt_sendSpontaneousEvent(QObject, QEvent) + 44
22 QtGui 0x00000001068dc49d qt_mac_handleMouseEvent(void, void*, QEvent::Type, Qt::MouseButton) + 2269
23 QtGui 0x00000001068ccbe6 -[QCocoaView mouseUp:] + 22
24 com.apple.AppKit 0x00007fff90a2c7a6 -[NSWindow sendEvent:] + 6504
25 QtGui 0x00000001068cace1 -[QCocoaPanel sendEvent:] + 241
26 com.apple.AppKit 0x00007fff909c516d -[NSApplication sendEvent:] + 5593
27 QtGui 0x00000001068d762a -[QNSApplication sendEvent:] + 74
28 com.apple.AppKit 0x00007fff9095b1f2 -[NSApplication run] + 555
29 QtGui 0x00000001068e1324 QEventDispatcherMac::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) + 1588
30 QtCore 0x000000010768fed4 QEventLoop::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) + 68
31 QtCore 0x00000001076901f4 QEventLoop::exec(QFlags<QEventLoop::ProcessEventsFlag>) + 180
32 QtCore 0x00000001076915aa QCoreApplication::exec() + 186
33 0x0000000100021d82 main + 3090
34 0x000000010001ef28 start + 52

Thread 1:: Dispatch queue: com.apple.libdispatch-manager
0 libsystem_kernel.dylib 0x00007fff8e30e7e6 kevent + 10
1 libdispatch.dylib 0x00007fff85f0e5be _dispatch_mgr_invoke + 923
2 libdispatch.dylib 0x00007fff85f0d14e _dispatch_mgr_thread + 54

Thread 2:
0 libsystem_kernel.dylib 0x00007fff8e30eaf2 read + 10
1 libCTKCore.0.1.dylib 0x0000000104c83ec6 ctkFDHandler::run() + 134
2 QtCore 0x00000001075d9125 QThreadPrivate::start(void*) + 149
3 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
4 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 3:
0 libsystem_kernel.dylib 0x00007fff8e30eaf2 read + 10
1 libCTKCore.0.1.dylib 0x0000000104c83ec6 ctkFDHandler::run() + 134
2 QtCore 0x00000001075d9125 QThreadPrivate::start(void*) + 149
3 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
4 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 4:
0 libsystem_kernel.dylib 0x00007fff8e30de42 __semwait_signal + 10
1 libsystem_c.dylib 0x00007fff860dfdea nanosleep + 164
2 libsystem_c.dylib 0x00007fff860dfbb5 usleep + 53
3 libSlicerBaseLogic.dylib 0x00000001030cdd4a vtkSlicerApplicationLogic::ProcessProcessingTasks() + 154
4 libSlicerBaseLogic.dylib 0x00000001030cde8f vtkSlicerApplicationLogic::ProcessingThreaderCallback(void*) + 31
5 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
6 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 5:
0 libsystem_kernel.dylib 0x00007fff8e30de42 __semwait_signal + 10
1 libsystem_c.dylib 0x00007fff860dfdea nanosleep + 164
2 libsystem_c.dylib 0x00007fff860dfbb5 usleep + 53
3 libSlicerBaseLogic.dylib 0x00000001030ce03a vtkSlicerApplicationLogic::ProcessNetworkingTasks() + 154
4 libSlicerBaseLogic.dylib 0x00000001030ce17f vtkSlicerApplicationLogic::NetworkingThreaderCallback(void*) + 31
5 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
6 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 6:
0 libsystem_kernel.dylib 0x00007fff8e30e7e6 kevent + 10
1 QtCore 0x000000010767ca2b QKqueueFileSystemWatcherEngine::run() + 155
2 QtCore 0x00000001075d9125 QThreadPrivate::start(void*) + 149
3 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
4 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 7:
0 libsystem_kernel.dylib 0x00007fff8e30ddf2 __select + 10
1 QtCore 0x0000000107672410 QProcessManager::run() + 96
2 QtCore 0x00000001075d9125 QThreadPrivate::start(void*) + 149
3 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
4 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 8:: com.apple.CFSocket.private
0 libsystem_kernel.dylib 0x00007fff8e30ddf2 select + 10
1 com.apple.CoreFoundation 0x00007fff8fb9dcdb CFSocketManager + 1355
2 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
3 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 9:
0 libsystem_kernel.dylib 0x00007fff8e30dbca __psynch_cvwait + 10
1 libsystem_c.dylib 0x00007fff8612d274 _pthread_cond_wait + 840
2 QtWebKit 0x0000000102019048 WTF::TCMalloc_PageHeap::scavengerThread() + 520
3 QtWebKit 0x00000001020190e9 WTF::TCMalloc_PageHeap::runScavengerThread(void*) + 9
4 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
5 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 10:
0 libsystem_kernel.dylib 0x00007fff8e30ddf2 __select + 10
1 QtCore 0x00000001076b1935 qt_safe_select(int, fd_set, fd_set, fd_set, timeval const) + 389
2 QtCore 0x00000001076b5bd3 QEventDispatcherUNIXPrivate::doSelect(QFlags<QEventLoop::ProcessEventsFlag>, timeval) + 435
3 QtCore 0x00000001076b60a2 QEventDispatcherUNIX::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) + 178
4 QtCore 0x000000010768fed4 QEventLoop::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) + 68
5 QtCore 0x00000001076901f4 QEventLoop::exec(QFlags<QEventLoop::ProcessEventsFlag>) + 180
6 QtCore 0x00000001075d8116 QThread::exec() + 182
7 QtCore 0x00000001075d9125 QThreadPrivate::start(void) + 149
8 libsystem_c.dylib 0x00007fff861298bf _pthread_start + 335
9 libsystem_c.dylib 0x00007fff8612cb75 thread_start + 13

Thread 11:
0 libsystem_kernel.dylib 0x00007fff8e30e192 __workq_kernreturn + 10
1 libsystem_c.dylib 0x00007fff8612b594 _pthread_wqthread + 758
2 libsystem_c.dylib 0x00007fff8612cb85 start_wqthread + 13

Thread 12:
0 libsystem_kernel.dylib 0x00007fff8e30e192 __workq_kernreturn + 10
1 libsystem_c.dylib 0x00007fff8612b594 _pthread_wqthread + 758
2 libsystem_c.dylib 0x00007fff8612cb85 start_wqthread + 13

Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x0000000000000000 rcx: 0x0000000000000000 rdx: 0x0000000000000000
rdi: 0x000000013518f310 rsi: 0x0000000000000000 rbp: 0x00007fff5fbfe130 rsp: 0x00007fff5fbfe060
r8: 0x0000000000000004 r9: 0x0000000136f0acb0 r10: 0x000000006ec73d4c r11: 0x0000000100dccdb0
r12: 0x0000000123b57d70 r13: 0x000000012b7a58d0 r14: 0x000000012b7a58d0 r15: 0x00007fff5fbfe2a0
rip: 0x000000011b233c7b rfl: 0x0000000000010246 cr2: 0x0000000000000068
Logical CPU: 2

Binary Images:
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0x10114e000 - 0x101197ff7 +libQtTesting.dylib (??? - ???) <BC88E539-73C1-0CB5-AB67-4A58B0966477> /Users/USER/Downloads/Slicer-4.1.0-2012-05-19-macosx-amd64.app/Contents/lib/Slicer-4.1/libQtTesting.dylib
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0x10133b000 - 0x1025edfe7 +QtWebKit (4.7.4 - compatibility 4.7.0) <9B1FC74C-73D0-745C-3FF4-29EB666F50F5> /Users/USER/Downloads/Slicer-4.1.0-2012-05-19-macosx-amd64.app/Contents/Frameworks/QtWebKit.framework/Versions/4/QtWebKit
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0x10334b000 - 0x103394fef +libRemoteIO.dylib (??? - ???) <699E9B8E-EC4C-6EA5-A1C9-8F27227E5732> /Users/USER/Downloads/Slicer-4.1.0-2012-05-19-macosx-amd64.app/Contents/lib/Slicer-4.1/libRemoteIO.dylib
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0x103e79000 - 0x104605fff +libPythonQt.dylib (??? - ???) <4B778D88-D8FC-2EB9-AB03-112D3ADF0365> /Users/USER/Downloads/Slicer-4.1.0-2012-05-19-macosx-amd64.app/Contents/lib/Slicer-4.1/libPythonQt.dylib
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Relationships

related to 0001867 closeddemian Restoring a scene view with tract intersection 

Activities

alexy

alexy

2012-05-25 05:20

developer   ~0004604

Fixed the crash.

As for the tracks visibility in the scene views, scene views point to files in the parent directory that do not exist (they exist in the scene folder). I suggest recreating scene views and try again.
kikinis

kikinis

2012-05-25 07:26

developer   ~0004609

This is a problem. I went into the save function, selected all, pointed to the new directory and saved. It is critical that in such a scenario the sceneviews get updated. With the current behavior, SBD will not work with sceneviews. This is a major bug in my opinion.
jcfr

jcfr

2012-05-25 07:39

administrator   ~0004610

Note from Alex - May 25, 2012 - 11.39EDT

Hi Ron,

The scene view contains incorrect file pathes for .vtk fiber files. I
don't know how they got there, either a bug or the files were moved at
some point. Could you recreate the scene views and check if they
survive the save/load scene roundtrip? It seems to work for at least
one of the fibers which has .vtk file in the same folder and has a
correct file path in the SceneView.

Alex
alexy

alexy

2012-05-25 09:54

developer   ~0004612

I put a corrected scene in the same folder in RonsExamples, it's called
2012-05-25-aDemoPeritumoralTractParcelation.mrml

There are .png files missing in the folder for scene views.

Issue History

Date Modified Username Field Change
2012-05-22 01:05 kikinis New Issue
2012-05-22 01:05 kikinis Status new => assigned
2012-05-22 01:05 kikinis Assigned To => nicole
2012-05-22 04:26 alexy Assigned To nicole => alexy
2012-05-22 04:51 jcfr Target Version => Slicer 4.2.0 AHM Summer 2012
2012-05-25 05:20 alexy Note Added: 0004604
2012-05-25 05:20 alexy Status assigned => resolved
2012-05-25 05:20 alexy Resolution open => fixed
2012-05-25 07:26 kikinis Note Added: 0004609
2012-05-25 07:26 kikinis Status resolved => feedback
2012-05-25 07:26 kikinis Resolution fixed => reopened
2012-05-25 07:39 jcfr Note Added: 0004610
2012-05-25 09:54 alexy Note Added: 0004612
2012-05-25 09:54 alexy Status feedback => resolved
2012-05-25 09:54 alexy Resolution reopened => fixed
2012-05-27 02:08 kikinis Status resolved => closed
2012-05-29 07:07 demian Relationship added related to 0001867
2014-03-06 06:10 jcfr Fixed in Version => Slicer 4.1.1