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IDProjectCategoryView StatusDate SubmittedLast Update
0002773Slicer4Core: Base Codepublic2012-11-16 09:172012-12-08 09:38
Reporterfbudin Assigned Tofinetjul  
PrioritynormalSeveritymajorReproducibilityalways
Status closedResolutionfixed 
Product VersionSlicer 4.2.0 
Target VersionSlicer 4.2.2-1Fixed in VersionSlicer 4.2.2-1 
Summary0002773: Crash when running a CLI module using ITKv4
Description

I have compiled an executable CLI module against ITKv4. ITKv4 was build statically. However, when the module is run from within Slicer, the module crashes. This is due to the fact that some modules from the ITK library 3.20 sued by Slicer are loaded when the executable starts (even though they shouldn't since ITK has been linked statically to my executable).
ITKv3.20 is loaded due to this environment variable: ITK_AUTOLOAD_PATH
In Slicer3, this environment variable was reset in certain situations:
http://viewvc.slicer.org/viewvc.cgi/Slicer3/trunk/Modules/CommandLineModule/vtkCommandLineModuleLogic.cxx?revision=15344&view=markup
line 1298
This has been removed in Slicer4:
https://github.com/Slicer/Slicer/blob/master/Base/QTCLI/vtkSlicerCLIModuleLogic.cxx#L1355

Additional Information

GNU gdb (GDB) Red Hat Enterprise Linux (7.2-50.el6)
Copyright (C) 2010 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 "x86_64-redhat-linux-gnu".
For bug reporting instructions, please see:
<http://www.gnu.org/software/gdb/bugs/>.
(gdb) attach 63135
Attaching to process 63135
Reading symbols from /opt/Francois/bin/Slicer4/DTIProcess-ext-branch-build/bin/dtiprocess...done.
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkIO.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkIO.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkFiltering.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkFiltering.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkCommon.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkCommon.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtksys.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtksys.so.5.10
Reading symbols from /lib64/libpthread.so.0...(no debugging symbols found)...done.
[Thread debugging using libthread_db enabled]
Loaded symbols for /lib64/libpthread.so.0
Reading symbols from /lib64/libdl.so.2...(no debugging symbols found)...done.
Loaded symbols for /lib64/libdl.so.2
Reading symbols from /lib64/libm.so.6...(no debugging symbols found)...done.
Loaded symbols for /lib64/libm.so.6
Reading symbols from /usr/lib64/libstdc++.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libstdc++.so.6
Reading symbols from /lib64/libgcc_s.so.1...(no debugging symbols found)...done.
Loaded symbols for /lib64/libgcc_s.so.1
Reading symbols from /lib64/libc.so.6...(no debugging symbols found)...done.
Loaded symbols for /lib64/libc.so.6
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkDICOMParser.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkDICOMParser.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkNetCDF.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkNetCDF.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkNetCDF_cxx.so...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkNetCDF_cxx.so
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libLSDyna.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libLSDyna.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkmetaio.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkmetaio.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtksqlite.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtksqlite.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkpng.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkpng.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkzlib.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkzlib.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkjpeg.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkjpeg.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtktiff.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtktiff.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkexpat.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkexpat.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkhdf5_hl.so.1.8.5...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkhdf5_hl.so.1.8.5
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkhdf5.so.1.8.5...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkhdf5.so.1.8.5
Reading symbols from /lib64/ld-linux-x86-64.so.2...(no debugging symbols found)...done.
Loaded symbols for /lib64/ld-linux-x86-64.so.2
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/lib/Slicer-4.2/ITKFactories/libMGHIOPlugin.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/lib/Slicer-4.2/ITKFactories/libMGHIOPlugin.so
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libMGHIO.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libMGHIO.so
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKAlgorithms.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKAlgorithms.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKNumerics.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKNumerics.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKStatistics.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKStatistics.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkNetlibSlatec.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkNetlibSlatec.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKFEM.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKFEM.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKBasicFilters.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKBasicFilters.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKIO.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKIO.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKNrrdIO.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKNrrdIO.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkgdcm.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkgdcm.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkjpeg12.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkjpeg12.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkjpeg16.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkjpeg16.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkopenjpeg.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkopenjpeg.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkpng.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkpng.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitktiff.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitktiff.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkjpeg8.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkjpeg8.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKSpatialObject.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKSpatialObject.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKMetaIO.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKMetaIO.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKDICOMParser.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKDICOMParser.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKEXPAT.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKEXPAT.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKniftiio.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKniftiio.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKznz.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKznz.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkzlib.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkzlib.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKTransformIOReview.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKTransformIOReview.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKQuadEdgeMesh.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKQuadEdgeMesh.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKCommon.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libITKCommon.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvnl_inst.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvnl_inst.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvnl_algo.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvnl_algo.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkv3p_netlib.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkv3p_netlib.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvnl.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvnl.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvcl.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkvcl.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkv3p_lsqr.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitkv3p_lsqr.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitksys.so.3.20...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libitksys.so.3.20
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/lib/Slicer-4.2/ITKFactories/libMRMLIDIOPlugin.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/lib/Slicer-4.2/ITKFactories/libMRMLIDIOPlugin.so
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libMRMLIDIO.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libMRMLIDIO.so
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libMRMLCore.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libMRMLCore.so
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libvtkITK.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libvtkITK.so
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkInfovis.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkInfovis.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkWidgets.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkWidgets.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkHybrid.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkHybrid.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkParallel.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkParallel.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkVolumeRendering.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkVolumeRendering.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkRendering.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkRendering.so.5.10
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libFreeSurfer.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libFreeSurfer.so
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libvtkTeem.so...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/./lib/Slicer-4.2/libvtkTeem.so
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkGraphics.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkGraphics.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkImaging.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkImaging.so.5.10
Reading symbols from /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/lib/Teem-1.10.0/libteem.so.1...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/tools/Slicer4/Slicer-4.2.0-linux-amd64/lib/Teem-1.10.0/libteem.so.1
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtklibxml2.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtklibxml2.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkalglib.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkalglib.so.5.10
Reading symbols from /usr/lib64/nvidia/libGL.so.1...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/nvidia/libGL.so.1
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkexoIIc.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkexoIIc.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkftgl.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkftgl.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkfreetype.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkfreetype.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libVPIC.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libVPIC.so.5.10
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libCosmo.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libCosmo.so.5.10
Reading symbols from /biomed-resimg/crews_rodent/devel/linux/Qt4/Qt4.7.4/Qt4.7.4_linux64/lib/libQtGui.so.4...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/crews_rodent/devel/linux/Qt4/Qt4.7.4/Qt4.7.4_linux64/lib/libQtGui.so.4
Reading symbols from /biomed-resimg/crews_rodent/devel/linux/Qt4/Qt4.7.4/Qt4.7.4_linux64/lib/libQtSql.so.4...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/crews_rodent/devel/linux/Qt4/Qt4.7.4/Qt4.7.4_linux64/lib/libQtSql.so.4
Reading symbols from /biomed-resimg/crews_rodent/devel/linux/Qt4/Qt4.7.4/Qt4.7.4_linux64/lib/libQtCore.so.4...(no debugging symbols found)...done.
Loaded symbols for /biomed-resimg/crews_rodent/devel/linux/Qt4/Qt4.7.4/Qt4.7.4_linux64/lib/libQtCore.so.4
Reading symbols from /usr/lib64/libXt.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libXt.so.6
Reading symbols from /usr/lib64/libSM.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libSM.so.6
Reading symbols from /usr/lib64/libICE.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libICE.so.6
Reading symbols from /usr/lib64/libX11.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libX11.so.6
Reading symbols from /usr/lib64/libXext.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libXext.so.6
Reading symbols from /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkverdict.so.5.10...done.
Loaded symbols for /opt/Francois/bin/Slicer4/Slicer4-SuperBuild-Debug/VTK-build/bin/libvtkverdict.so.5.10
Reading symbols from /usr/lib64/nvidia/tls/libnvidia-tls.so.304.43...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/nvidia/tls/libnvidia-tls.so.304.43
Reading symbols from /usr/lib64/nvidia/libnvidia-glcore.so.304.43...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/nvidia/libnvidia-glcore.so.304.43
Reading symbols from /lib64/libgthread-2.0.so.0...(no debugging symbols found)...done.
Loaded symbols for /lib64/libgthread-2.0.so.0
Reading symbols from /lib64/libglib-2.0.so.0...(no debugging symbols found)...done.
Loaded symbols for /lib64/libglib-2.0.so.0
Reading symbols from /usr/lib64/libpng12.so.0...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libpng12.so.0
Reading symbols from /lib64/libz.so.1...(no debugging symbols found)...done.
Loaded symbols for /lib64/libz.so.1
Reading symbols from /usr/lib64/libfreetype.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libfreetype.so.6
Reading symbols from /lib64/libgobject-2.0.so.0...(no debugging symbols found)...done.
Loaded symbols for /lib64/libgobject-2.0.so.0
Reading symbols from /usr/lib64/libXrender.so.1...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libXrender.so.1
Reading symbols from /usr/lib64/libfontconfig.so.1...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libfontconfig.so.1
Reading symbols from /lib64/librt.so.1...(no debugging symbols found)...done.
Loaded symbols for /lib64/librt.so.1
Reading symbols from /lib64/libuuid.so.1...(no debugging symbols found)...done.
Loaded symbols for /lib64/libuuid.so.1
Reading symbols from /usr/lib64/libxcb.so.1...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libxcb.so.1
Reading symbols from /lib64/libexpat.so.1...(no debugging symbols found)...done.
Loaded symbols for /lib64/libexpat.so.1
Reading symbols from /usr/lib64/libXau.so.6...(no debugging symbols found)...done.
Loaded symbols for /usr/lib64/libXau.so.6
0x0000003cabaac3a0 in __nanosleep_nocancel () from /lib64/libc.so.6
Missing separate debuginfos, use: debuginfo-install expat-2.0.1-11.el6_2.x86_64 fontconfig-2.8.0-3.el6.x86_64 freetype-2.3.11-6.el6_2.9.x86_64 glib2-2.22.5-6.el6.x86_64 glibc-2.12-1.80.el6_3.5.x86_64 libICE-1.0.6-1.el6.x86_64 libSM-1.1.0-7.1.el6.x86_64 libX11-1.3-2.el6.x86_64 libXau-1.0.5-1.el6.x86_64 libXext-1.1-3.el6.x86_64 libXrender-0.9.5-1.el6.x86_64 libXt-1.0.7-1.el6.x86_64 libgcc-4.4.6-3.el6.x86_64 libpng-1.2.49-1.el6_2.x86_64 libstdc++-4.4.6-3.el6.x86_64 libuuid-2.17.2-12.4.el6.x86_64 libxcb-1.5-1.el6.x86_64 zlib-1.2.3-27.el6.x86_64
(gdb) next
Single stepping until exit from function __nanosleep_nocancel,
which has no line number information.
0x0000003cabaac230 in sleep () from /lib64/libc.so.6
(gdb) ntext
Undefined command: "ntext". Try "help".
(gdb) next
Single stepping until exit from function sleep,
which has no line number information.
main (argc=5, argv=0x7fffa5e96668) at /home/fbudin/LocalWork/dtiprocess/branches/Slicer4Extension/dtiprocess/Applications/dtiprocess.cxx:230
230 std::cout<<"plop88"<<std::endl;
(gdb) next
241 bool scale = !scalarFloat; // I don't understand this logic but...
(gdb) next
248 FileReader2Type::Pointer dtireader2 = FileReader2Type::New();
(gdb) next

Program received signal SIGSEGV, Segmentation fault.
0x00000000014a9d70 in vtable for cxxabiv1::si_class_type_info ()
(gdb) backtrace
#0 0x00000000014a9d70 in vtable for cxxabiv1::si_class_type_info ()
0000001 0x0000000000812b38 in itk::ObjectFactoryBase::CreateInstance(char const*) ()
0000002 0x0000000000693bde in itk::ObjectFactory<itk::ImageFileReader<itk::Image<float, 3u>, itk::DefaultConvertPixelTraits<float> > >::Create ()
at /opt/Francois/bin/Slicer4/DTIProcess-ext3-build/Insight/Modules/Core/Common/include/itkObjectFactory.h:60
0000003 0x000000000068fdd5 in itk::ImageFileReader<itk::Image<float, 3u>, itk::DefaultConvertPixelTraits<float> >::New ()
at /opt/Francois/bin/Slicer4/DTIProcess-ext3-build/Insight/Modules/IO/ImageBase/include/itkImageFileReader.h:111
0000004 0x0000000000684629 in main (argc=5, argv=0x7fffa5e96668) at /home/fbudin/LocalWork/dtiprocess/branches/Slicer4Extension/dtiprocess/Applications/dtiprocess.cxx:248
(gdb)

TagsITKv4

Relationships

related to 0001635 closedjcfr Failed to execute CLI executable - Missing _nv000007gl symbol 

Activities

finetjul

finetjul

2012-11-16 10:42

administrator   ~0007298

Regression from r12053 (Most likely due to the misleading comment associated with the reset of the ITK_AUTOLOAD_PATH env var.)
finetjul

finetjul

2012-11-17 12:29

administrator   ~0007304

Fixed in r21440
fbudin

fbudin

2012-11-21 09:57

developer   ~0007339

It works now. Thanks.

Issue History

Date Modified Username Field Change
2012-11-16 09:17 fbudin New Issue
2012-11-16 09:17 fbudin Status new => assigned
2012-11-16 09:17 fbudin Assigned To => pieper
2012-11-16 10:42 finetjul Note Added: 0007298
2012-11-17 11:51 finetjul Assigned To pieper => finetjul
2012-11-17 12:29 finetjul Note Added: 0007304
2012-11-17 12:29 finetjul Status assigned => resolved
2012-11-17 12:29 finetjul Fixed in Version => Slicer 4.2.2
2012-11-17 12:29 finetjul Resolution open => fixed
2012-11-19 03:49 pieper Relationship added related to 0001635
2012-11-21 09:57 fbudin Note Added: 0007339
2012-11-21 09:57 fbudin Status resolved => closed
2012-11-30 09:35 jcfr Tag Attached: ITKv4
2012-12-08 09:38 jcfr Target Version => Slicer 4.2.2