[Insight-users] compiler error with watershed class : LINK error

[Rodrigo Vivanco]

Yeah, usual copy/paste error... I had just copied the TARGET_LINK_LIBRARIES()
from the filter test prgm... including the proper .so for linking did the trick.

thanks,
Rodrigo

Quoting Luis Ibanez <luis.ibanez at kitware.com>:

> 
> Hi Rodrigo,
> 
> It seems that you are missing the "ITKAlgorithms"
> library in your TARGET_LINK_LIBRARIES() command.
> 
> The WatershedImageFilter is located in
> 
>           Insight/Code/Algorithms
> 
> therefore its code is compiled in the library
> "ITKAlgorithms".
> 
> Your CMakeLists.txt file should have lines like:
> 
>    ADD_EXECUTABLE(watershed_seg watershed_segmentation.cpp )
> 
>    TARGET_LINK_LIBRARIES(watershed_seg
>     ITKAlgorithems ITKCommon ITKBasicFilters ITKIO)
> 
> 
> 
> 
> Regards,
> 
> 
>     Luis
> 
> 
> -----------------------
> Rodrigo Vivanco wrote:
> 
> > Hello,
> > 
> > I've successfully installed and started to use ITK on Linux running release
> 9
> > (Shrike).
> > 
> > the example, WatershedSegmentation1.cxx compiles ok.
> > 
> > 
> > I've managed to write small test programs for reading/writing image
> files,
> > anisotrophic filter, GradiantMagnitude using the following CMakeList.txt:
> > 
> > # This project is designed to be built outside the Insight source tree.
> > PROJECT(test_itk)
> > 
> > # Find ITK.
> > FIND_PACKAGE(ITK)
> > IF(ITK_FOUND)
> >   INCLUDE(${ITK_USE_FILE})
> > ELSE(ITK_FOUND)
> >   MESSAGE(FATAL_ERROR
> >           "Cannot build without ITK.  Please set ITK_DIR.")
> > ENDIF(ITK_FOUND)
> > 
> > ADD_EXECUTABLE(read_write_image read_write_raw_image.cpp )
> > TARGET_LINK_LIBRARIES(read_write_image ITKCommon ITKIO)
> > 
> > ADD_EXECUTABLE(aniso_filter anisotropic_diffusion_filter.cpp )
> > TARGET_LINK_LIBRARIES(aniso_filter ITKCommon ITKBasicFilters ITKIO)
> > 
> > ADD_EXECUTABLE(gradiant_mag_filter gradiant_mag_filter.cpp )
> > TARGET_LINK_LIBRARIES(gradiant_mag_filter ITKCommon ITKBasicFilters
> ITKIO)
> > 
> > ADD_EXECUTABLE(watershed_seg watershed_segmentation.cpp )
> > TARGET_LINK_LIBRARIES(watershed_seg ITKCommon ITKBasicFilters ITKIO)
> > 
> > 
> > however, the following watershed test program fails to compile:
> > 
> > 
> > error:
> > 
> > Building dependencies cmake.check_depends...
> > Building object file watershed_segmentation.o...
> > Building executable /home/vivanco/itk/test_itk/watershed_seg...
> >
>
watershed_segmentation.o(.gnu.linkonce.t._ZN3itk20WatershedImageFilterINS_5ImageIfLj2EEEE12GenerateDataEv+0x19f):
> > In function `itk::WatershedImageFilter<itk::Image<float, (unsigned)2>
> > 
> >>::GenerateData()':
> > 
> > : undefined reference to `typeinfo for
> itk::WatershedMiniPipelineProgressCommand'
> >
>
watershed_segmentation.o(.gnu.linkonce.t._ZN3itk36WatershedMiniPipelineProgressCommandC1Ev+0x19):
> > In function
> >
>
`itk::WatershedMiniPipelineProgressCommand::WatershedMiniPipelineProgressCommand[in-charge]()':
> > : undefined reference to `vtable for
> itk::WatershedMiniPipelineProgressCommand'
> >
>
watershed_segmentation.o(.gnu.linkonce.t._ZN3itk13ObjectFactoryINS_36WatershedMiniPipelineProgressCommandEE6CreateEv+0x11):
> > In function
> >
> `itk::ObjectFactory<itk::WatershedMiniPipelineProgressCommand>::Create()':
> > : undefined reference to `typeinfo for
> itk::WatershedMiniPipelineProgressCommand'
> >
>
watershed_segmentation.o(.gnu.linkonce.t._ZN3itk13ObjectFactoryINS_36WatershedMiniPipelineProgressCommandEE6CreateEv+0x51):
> > In function
> >
> `itk::ObjectFactory<itk::WatershedMiniPipelineProgressCommand>::Create()':
> > : undefined reference to `typeinfo for
> itk::WatershedMiniPipelineProgressCommand'
> > collect2: ld returned 1 exit status
> > make[1]: *** [/home/vivanco/itk/test_itk/watershed_seg] Error 1
> > make: *** [default_target] Error 2
> > 
> > 
> > source:
> > 
> > #include "itkImage.h"
> > #include "itkImageFileReader.h"
> > #include "itkImageFileWriter.h"
> > #include "itkWatershedImageFilter.h" 
> > 
> > 
> > int main( int argc, char ** argv )
> > {
> >   if (argc < 5 )
> >     {
> >     std::cerr << "Missing Parameters " << std::endl;
> >     std::cerr << "Usage: " << argv[0] << " inputImage outputImage level
> > threshold" << std::endl;
> >     return 1;
> >     }
> >     
> >   typedef itk::Image< float, 2 > ImageType;
> >   typedef itk::Image< unsigned long, 2 > SegmentImageType;
> > 
> >   ImageType::Pointer image_in;
> >   SegmentImageType::Pointer seg_image_out;
> > 
> >   // read input file
> >   typedef itk::ImageFileReader< ImageType >  ReaderType;
> >   ReaderType::Pointer reader = ReaderType::New();
> >   
> >   try {
> >     reader->SetFileName( argv[1] );
> >     std::cerr << "reading file: " << argv[1] << '\n';
> >     reader->Update(); // read the data
> >   }
> >   catch( itk::ExceptionObject & excp ) {
> >     std::cerr << "Problem reading data " << std::endl;
> >     std::cerr << excp << std::endl;
> >     return 1;
> >   }
> > 
> >   image_in = reader->GetOutput();  // get smart-pointer to Image
> > 
> >   // segment the image
> >   typedef itk::WatershedImageFilter<ImageType> WatershedFilterType;
> >   WatershedFilterType::Pointer watershed = WatershedFilterType::New();
> > /*
> >   watershed->SetLevel( atof(argv[2]) );
> >   watershed->SetThreshold( atof(argv[3]) );
> >   
> >   watershed->SetInput(image_in);
> >   watershed->Update();
> > 
> >   seg_image_out = watershed->GetOutput();
> > */
> >   // write out segmented data
> >   typedef itk::ImageFileWriter< SegmentImageType >  WriterType;
> >   WriterType::Pointer writer = WriterType::New();
> >   try {
> >     std::cerr << "writing file: " << argv[4] << '\n';
> >     writer->SetFileName( argv[4] );
> >     writer->SetInput(seg_image_out);
> >     writer->Update(); // write the data
> >   }
> >   catch( itk::ExceptionObject & excp ) {
> >     std::cerr << "Problem writing data " << std::endl;
> >     std::cerr << excp << std::endl;
> >     return 1;
> >   }
> >   
> >   return 0;
> > }
> > 
> > 
> > any suggestions as to why the example code compiles, but this simple test
> code
> > does not...
> > 
> > thanks,
> > 
> > Rodrigo
> > 
> > -------------------------------------------------
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> > 
> 
> 
> 
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