[ITK-users] Problem compiling ITK4.8 - MINCIOTransform does not seem to exist
Francois Budin
fbudin at email.unc.edu
Thu Jul 9 12:22:47 EDT 2015
Hello everyone,
I am trying to compile ITK4.8 with the following options:
-DBUILD_TESTING:BOOL=ON \
-DCMAKE_BUILD_TYPE:STRING=Release \
-DBUILD_SHARED_LIBS:BOOL=ON \
-DModule_ITKIODCMTK:BOOL=ON \
-DModule_ITKIOPhilipsREC=ON \
-DModule_ITKIOMINC=ON \
-DModule_MGHIO:BOOL=ON \
-DITKV3_COMPATIBILITY:BOOL=OFF \
-DModule_ITKReview:BOOL=ON \
-DVTK_DIR:PATH=${VTKConfigDIR} \
-DModule_ITKVtkGlue:BOOL=ON
I get the following error message when it tries to compile the examples:
Linking CXX executable ../../bin/TransformReadWrite
cd /tools/devel/linux/ITKv4/InsightToolkit-Auto-4.8.0-build/Examples/IO
&& /NIRAL/tools/CMake/cmake-3.1.0/bin/cmake -E cmake_link_script
CMakeFiles/TransformReadWrite.dir/link.txt --verbose=1
/usr/bin/c++ -Wall -Wno-long-double -Wcast-align
-Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch
-Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings
-funit-at-a-time -Wno-strict-overflow -Wno-deprecated
-Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel
-msse2 -msse2 -O3 -DNDEBUG
CMakeFiles/TransformReadWrite.dir/TransformReadWrite.cxx.o -o
../../bin/TransformReadWrite -rdynamic ../../lib/libITKIOLSM-4.8.so.1
../../lib/libITKDICOMParser-4.8.so.1 ../../lib/libITKIOMesh-4.8.so.1
../../lib/libITKIOCSV-4.8.so.1 ../../lib/libITKIODCMTK-4.8.so.1
../../lib/libITKIOHDF5-4.8.so.1
../../Modules/ThirdParty/MINC/ITKMINC2_ExternalProject-build/libitk_minc2.a
../../lib/libITKIOMINC-4.8.so.1 ../../lib/libITKIOMRC-4.8.so.1
../../lib/libITKIOPhilipsREC-4.8.so.1
../../lib/libITKOptimizersv4-4.8.so.1 ../../lib/libITKReview-4.8.so.1
../../lib/libITKVideoIO-4.8.so.1 ../../lib/libITKVtkGlue-4.8.so.1
../../lib/libitkMGHIO-4.8.so.1 ../../lib/libITKgiftiio-4.8.so.1
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmdata.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmimage.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmimgle.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmjpeg.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmjpls.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmnet.so ../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmpstat.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmqrdb.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmsr.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libdcmtls.so ../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libijg12.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libijg16.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libijg8.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/liboflog.so
../../Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib/libofstd.so
../../Modules/ThirdParty/MINC/ITKMINC2_ExternalProject-build/libitk_minc2.a
../../lib/libITKIOBMP-4.8.so.1 ../../lib/libITKIOBioRad-4.8.so.1
../../lib/libITKIOGDCM-4.8.so.1 ../../lib/libitkgdcmMSFF-4.8.so.1
../../lib/libitkgdcmDICT-4.8.so.1 ../../lib/libitkgdcmIOD-4.8.so.1
../../lib/libitkgdcmDSED-4.8.so.1 ../../lib/libitkgdcmCommon-4.8.so.1
../../lib/libITKIOGIPL-4.8.so.1 ../../lib/libITKIOJPEG-4.8.so.1
../../lib/libITKIOTIFF-4.8.so.1 ../../lib/libitktiff-4.8.so.1
../../lib/libitkjpeg-4.8.so.1 ../../lib/libITKIOMeta-4.8.so.1
../../lib/libITKIONIFTI-4.8.so.1 ../../lib/libITKniftiio-4.8.so.1
../../lib/libITKznz-4.8.so.1 ../../lib/libITKIONRRD-4.8.so.1
../../lib/libITKNrrdIO-4.8.so.1 ../../lib/libITKIOPNG-4.8.so.1
../../lib/libitkpng-4.8.so.1 ../../lib/libITKIOStimulate-4.8.so.1
../../lib/libITKIOVTK-4.8.so.1 ../../lib/libITKLabelMap-4.8.so.1
../../lib/libITKQuadEdgeMesh-4.8.so.1
../../lib/libITKBiasCorrection-4.8.so.1
../../lib/libITKPolynomials-4.8.so.1 ../../lib/libITKBioCell-4.8.so.1
../../lib/libITKIOSpatialObjects-4.8.so.1 ../../lib/libITKIOXML-4.8.so.1
../../lib/libITKEXPAT-4.8.so.1 ../../lib/libITKFEM-4.8.so.1
../../lib/libITKMetaIO-4.8.so.1 ../../lib/libITKOptimizers-4.8.so.1
../../lib/libITKIOSiemens-4.8.so.1 ../../lib/libITKIOGE-4.8.so.1
../../lib/libITKIOIPL-4.8.so.1 ../../lib/libITKIOTransformHDF5-4.8.so.1
../../lib/libitkhdf5_cpp-4.8.so.1 ../../lib/libitkhdf5-4.8.so.1
../../lib/libITKIOTransformInsightLegacy-4.8.so.1
../../lib/libITKIOTransformMatlab-4.8.so.1
../../lib/libITKIOTransformBase-4.8.so.1
../../lib/libITKKLMRegionGrowing-4.8.so.1
../../lib/libITKWatersheds-4.8.so.1
../../lib/libITKSpatialObjects-4.8.so.1 ../../lib/libITKMesh-4.8.so.1
../../lib/libITKPath-4.8.so.1 ../../lib/libITKStatistics-4.8.so.1
../../lib/libitkNetlibSlatec-4.8.so.1 ../../lib/libitkopenjpeg-4.8.so.1
../../lib/libITKVideoCore-4.8.so.1 ../../lib/libITKVTK-4.8.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkRenderingFreeTypeOpenGL-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkRenderingOpenGL-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkImagingHybrid-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkIOImage-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkDICOMParser-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkIOCore-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkmetaio-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkpng-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtktiff-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkjpeg-6.2.so.1
-lGLU -lSM -lICE -lX11 -lXext -lSM -lICE -lX11 -lXext -lXt
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkRenderingFreeType-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkftgl-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkfreetype-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkzlib-6.2.so.1
-lGL
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkInteractionStyle-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkRenderingCore-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonColor-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkFiltersGeometry-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkFiltersExtraction-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkFiltersStatistics-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkImagingFourier-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkalglib-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkFiltersSources-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkFiltersGeneral-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkFiltersCore-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonComputationalGeometry-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkImagingSources-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkImagingCore-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonExecutionModel-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonDataModel-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonMisc-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonSystem-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtksys-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonTransforms-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonMath-6.2.so.1
/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib/libvtkCommonCore-6.2.so.1
../../lib/libITKIOImageBase-4.8.so.1 ../../lib/libITKCommon-4.8.so.1
../../lib/libitkdouble-conversion-4.8.so.1 ../../lib/libitksys-4.8.so.1
../../lib/libITKVNLInstantiation-4.8.so.1
../../lib/libitkvnl_algo-4.8.so.1 ../../lib/libitkv3p_lsqr-4.8.so.1
../../lib/libitkvnl-4.8.so.1 ../../lib/libitkvcl-4.8.so.1
../../lib/libitkv3p_netlib-4.8.so.1 -lm -lpthread -ldl -lm
../../lib/libitkzlib-4.8.so.1
-Wl,-rpath,/tools/devel/linux/ITKv4/InsightToolkit-Auto-4.8.0-build/lib:/tools/devel/linux/ITKv4/InsightToolkit-Auto-4.8.0-build/Modules/ThirdParty/DCMTK/ITKDCMTK_ExtProject-build/lib:/tools/VTK/VTK_6.2.0/VTK_6.2.0_linux64_dyn-Qt4.8.6-Python2.7.7_Release/lib
-Wl,-rpath-link,/tools/devel/linux/ITKv4/InsightToolkit-Auto-4.8.0-build/lib
CMakeFiles/TransformReadWrite.dir/TransformReadWrite.cxx.o:(.data+0x10):
undefined reference to `itk::MINCTransformIOFactoryRegister__Private()'
collect2: ld returned 1 exit status
make[3]: *** [bin/TransformReadWrite] Error 1
I am attaching the itkTransformIOFactoryRegisterManager.h file generated
automatically for TransformReadWrite. It tries to register
MINCTransformIOFactoryRegister which makes sense because this transform
IO is specified in the UseITK.cmake (also attached), but I don't seem to
have any library that corresponds to that in my ITK-build/lib directory.
Is there an option I forgot to activate that is required for that? For
now I am just going to deactivate the support of the MINC format, but I
wanted to report my problem in case it is a bug in ITK.
Francois
-------------- next part --------------
/*=========================================================================
*
* Copyright Insight Software Consortium
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
#ifndef itkTransformIOFactoryRegisterManager_h
#define itkTransformIOFactoryRegisterManager_h
namespace itk {
class TransformIOFactoryRegisterManager
{
public:
TransformIOFactoryRegisterManager(void (*list[])(void))
{
for(;*list; ++list)
{
(*list)();
}
}
};
//
// The following code is intended to be expanded at the end of the
// itkTransformFileReader.h and itkTransformFileWriter.h files.
//
void MatlabTransformIOFactoryRegister__Private();void HDF5TransformIOFactoryRegister__Private();void ITK_ABI_IMPORT MINCTransformIOFactoryRegister__Private();void TxtTransformIOFactoryRegister__Private();
//
// The code below registers available IO helpers using static initialization in
// application translation units. Note that this code will be expanded in the
// ITK-based applications and not in ITK itself.
//
namespace {
void (*TransformIOFactoryRegisterRegisterList[])(void) = {
MatlabTransformIOFactoryRegister__Private,HDF5TransformIOFactoryRegister__Private,MINCTransformIOFactoryRegister__Private,TxtTransformIOFactoryRegister__Private,
0};
TransformIOFactoryRegisterManager TransformIOFactoryRegisterManagerInstance(TransformIOFactoryRegisterRegisterList);
}
}
#endif
-------------- next part --------------
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