[Insight-users] compiler error with watershed class

[Rodrigo Vivanco]

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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