add.cxx

////program for itkAddImageFilter
//01: based on mask.cxx


#include <complex>

#include "itkFilterWatcher.h"
#include <itkImageFileReader.h>
#include <itkAddImageFilter.h>
#include <itkImageFileWriter.h>



template<typename InputComponent1, typename TypeInputComponentType2, typename InputPixelType1, typename InputPixelType2, size_t Dimension>
int DoIt(int argc, char *argv[]){

    typedef InputPixelType1 OutputPixelType;

    typedef itk::Image<InputPixelType1, Dimension>  InputImageType1;
    typedef itk::Image<InputPixelType2, Dimension>  InputImageType2;
    typedef itk::Image<OutputPixelType, Dimension>  OutputImageType;


    typedef itk::ImageFileReader<InputImageType1> ReaderType1;
    typename ReaderType1::Pointer reader1 = ReaderType1::New();

    reader1->SetFileName(argv[1]);
    FilterWatcher watcherI1(reader1);
    watcherI1.QuietOn();
    watcherI1.ReportTimeOn();
    try{
        reader1->Update();
        }
    catch(itk::ExceptionObject &ex){
	std::cerr << ex << std::endl;
	return EXIT_FAILURE;
	}

    typename InputImageType1::Pointer input1= reader1->GetOutput();


    typedef itk::ImageFileReader<InputImageType2> ReaderType2;
    typename ReaderType2::Pointer reader2 = ReaderType2::New();

    reader2->SetFileName(argv[2]);
    FilterWatcher watcherI2(reader2);
    watcherI2.QuietOn();
    watcherI2.ReportTimeOn();
    try{
        reader2->Update();
        }
    catch(itk::ExceptionObject &ex){
	std::cerr << ex << std::endl;
	return EXIT_FAILURE;
	}

    typename InputImageType2::Pointer input2= reader2->GetOutput();


    typedef itk::AddImageFilter<InputImageType1, InputImageType2, OutputImageType> FilterType;
    typename FilterType::Pointer filter= FilterType::New();
    filter->SetInput1(reader1->GetOutput());
    filter->SetInput2(reader2->GetOutput());
    filter->ReleaseDataFlagOn();
    filter->InPlaceOn();

    FilterWatcher watcher1(filter);
    try{
        filter->Update();
        }
    catch(itk::ExceptionObject &ex){
	std::cerr << ex << std::endl;
	return EXIT_FAILURE;
	}


    typename OutputImageType::Pointer output= filter->GetOutput();

    typedef itk::ImageFileWriter<OutputImageType>  WriterType;
    typename WriterType::Pointer writer = WriterType::New();

    FilterWatcher watcherO(writer);
    writer->SetFileName(argv[3]);
    writer->SetInput(output);
    writer->SetUseCompression(atoi(argv[4]));
    try{
        writer->Update();
        }
    catch(itk::ExceptionObject &ex){
        std::cerr << ex << std::endl;
        return EXIT_FAILURE;
        }

    return EXIT_SUCCESS;

    }


template<typename InputComponentType1, typename InputComponentType2, typename InputPixelType1, typename InputPixelType2>
int dispatch_D(size_t dimensionType, int argc, char *argv[]){
  int res= 0;
  switch (dimensionType){
  case 1:
    res= DoIt<InputComponentType1, InputComponentType2, InputPixelType1, InputPixelType2, 1>(argc, argv);
    break;
  case 2:
    res= DoIt<InputComponentType1, InputComponentType2, InputPixelType1, InputPixelType2, 2>(argc, argv);
    break;
  case 3:
    res= DoIt<InputComponentType1, InputComponentType2, InputPixelType1, InputPixelType2, 3>(argc, argv);
    break;
  default:
    std::cerr << "Error: Images of dimension " << dimensionType << " are not handled!" << std::endl;
    break;
  }//switch
  return res;
}

template<typename InputComponentType1, typename InputComponentType2, typename InputPixelType1>
int dispatch_pT2(itk::ImageIOBase::IOPixelType pixelType2, size_t dimensionType, int argc, char *argv[]){
  int res= 0;
    //http://www.itk.org/Doxygen45/html/classitk_1_1ImageIOBase.html#abd189f096c2a1b3ea559bc3e4849f658
    //http://www.itk.org/Doxygen45/html/itkImageIOBase_8h_source.html#l00099
    //IOPixelType:: UNKNOWNPIXELTYPE, SCALAR, RGB, RGBA, OFFSET, VECTOR, POINT, COVARIANTVECTOR, SYMMETRICSECONDRANKTENSOR, DIFFUSIONTENSOR3D, COMPLEX, FIXEDARRAY, MATRIX

  switch (pixelType2){
  case itk::ImageIOBase::SCALAR:{
    typedef InputComponentType2 InputPixelType2;
    res= dispatch_D<InputComponentType1, InputComponentType2, InputPixelType1, InputPixelType2>(dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::UNKNOWNPIXELTYPE:
  default:
    std::cerr << std::endl << "Error: Pixel type not handled!" << std::endl;
    break;
  }//switch
  return res;
}

template<typename InputComponentType1, typename InputComponentType2>
int dispatch_pT1(itk::ImageIOBase::IOPixelType pixelType1, itk::ImageIOBase::IOPixelType pixelType2, size_t dimensionType, int argc, char *argv[]){
  int res= 0;
    //http://www.itk.org/Doxygen45/html/classitk_1_1ImageIOBase.html#abd189f096c2a1b3ea559bc3e4849f658
    //http://www.itk.org/Doxygen45/html/itkImageIOBase_8h_source.html#l00099
    //IOPixelType:: UNKNOWNPIXELTYPE, SCALAR, RGB, RGBA, OFFSET, VECTOR, POINT, COVARIANTVECTOR, SYMMETRICSECONDRANKTENSOR, DIFFUSIONTENSOR3D, COMPLEX, FIXEDARRAY, MATRIX

  switch (pixelType1){
  case itk::ImageIOBase::SCALAR:{
    typedef InputComponentType1 InputPixelType1;
    res= dispatch_pT2<InputComponentType1, InputComponentType2, InputPixelType1>(pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::UNKNOWNPIXELTYPE:
  default:
    std::cerr << std::endl << "Error: Pixel type not handled!" << std::endl;
    break;
  }//switch
  return res;
}

template<typename InputComponentType1>
int dispatch_cT2(itk::ImageIOBase::IOComponentType componentType2, itk::ImageIOBase::IOPixelType pixelType1, itk::ImageIOBase::IOPixelType pixelType2, size_t dimensionType, int argc, char *argv[]){
  int res= 0;

  //http://www.itk.org/Doxygen45/html/classitk_1_1ImageIOBase.html#a8dc783055a0af6f0a5a26cb080feb178
  //http://www.itk.org/Doxygen45/html/itkImageIOBase_8h_source.html#l00107
  //IOComponentType: UNKNOWNCOMPONENTTYPE, UCHAR, CHAR, USHORT, SHORT, UINT, INT, ULONG, LONG, FLOAT, DOUBLE

  switch (componentType2){
  case itk::ImageIOBase::UCHAR:{        // uint8_t
    typedef unsigned char InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::CHAR:{         // int8_t
    typedef char InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::USHORT:{       // uint16_t
    typedef unsigned short InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::SHORT:{        // int16_t
    typedef short InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::UINT:{         // uint32_t
    typedef unsigned int InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::INT:{          // int32_t
    typedef int InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::ULONG:{        // uint64_t
    typedef unsigned long InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::LONG:{         // int64_t
    typedef long InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::FLOAT:{        // float32
    typedef float InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::DOUBLE:{       // float64
    typedef double InputComponentType2;
    res= dispatch_pT1<InputComponentType1, InputComponentType2>(pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::UNKNOWNCOMPONENTTYPE:
  default:
    std::cerr << "unknown component type" << std::endl;
    break;
  }//switch
  return res;
}

int dispatch_cT1(itk::ImageIOBase::IOComponentType componentType1, itk::ImageIOBase::IOComponentType componentType2, itk::ImageIOBase::IOPixelType pixelType1, itk::ImageIOBase::IOPixelType pixelType2, size_t dimensionType, int argc, char *argv[]){
  int res= 0;

  //http://www.itk.org/Doxygen45/html/classitk_1_1ImageIOBase.html#a8dc783055a0af6f0a5a26cb080feb178
  //http://www.itk.org/Doxygen45/html/itkImageIOBase_8h_source.html#l00107
  //IOComponentType: UNKNOWNCOMPONENTTYPE, UCHAR, CHAR, USHORT, SHORT, UINT, INT, ULONG, LONG, FLOAT, DOUBLE

  switch (componentType1){
  case itk::ImageIOBase::UCHAR:{        // uint8_t
    typedef unsigned char InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::CHAR:{         // int8_t
    typedef char InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::USHORT:{       // uint16_t
    typedef unsigned short InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::SHORT:{        // int16_t
    typedef short InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::UINT:{         // uint32_t
    typedef unsigned int InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::INT:{          // int32_t
    typedef int InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::ULONG:{        // uint64_t
    typedef unsigned long InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::LONG:{         // int64_t
    typedef long InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::FLOAT:{        // float32
    typedef float InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::DOUBLE:{       // float64
    typedef double InputComponentType1;
    res= dispatch_cT2<InputComponentType1>(componentType2, pixelType1, pixelType2, dimensionType, argc, argv);
  } break;
  case itk::ImageIOBase::UNKNOWNCOMPONENTTYPE:
  default:
    std::cerr << "unknown component type" << std::endl;
    break;
  }//switch
  return res;
}


////from http://itk-users.7.n7.nabble.com/Pad-image-with-0-but-keep-its-type-what-ever-it-is-td27442.html
//namespace itk{
  // Description:
  // Get the PixelType and ComponentType from fileName

void GetImageType (std::string fileName,
    itk::ImageIOBase::IOPixelType &pixelType,
    itk::ImageIOBase::IOComponentType &componentType,
    size_t &dimensionType
    ){
    typedef itk::Image<char, 1> ImageType; //template initialization parameters need to be given but can be arbitrary here
    itk::ImageFileReader<ImageType>::Pointer imageReader= itk::ImageFileReader<ImageType>::New();
    imageReader->SetFileName(fileName.c_str());
    imageReader->UpdateOutputInformation();

    pixelType = imageReader->GetImageIO()->GetPixelType();
    componentType = imageReader->GetImageIO()->GetComponentType();
    dimensionType= imageReader->GetImageIO()->GetNumberOfDimensions();

    std::cerr << std::endl << "dimensions: " << dimensionType << std::endl;
    std::cerr << "component type: " << imageReader->GetImageIO()->GetComponentTypeAsString(componentType) << std::endl;
    std::cerr << "component size: " << imageReader->GetImageIO()->GetComponentSize() << std::endl;
    std::cerr << "pixel type (string): " << imageReader->GetImageIO()->GetPixelTypeAsString(imageReader->GetImageIO()->GetPixelType()) << std::endl;
    std::cerr << "pixel type: " << pixelType << std::endl << std::endl;

    }



int main(int argc, char *argv[]){
    if ( argc != 5 ){
	std::cerr << "Missing Parameters: "
		  << argv[0]
		  << " Input_Image1"
		  << " Input_Image2"
		  << " Output_Image"
		  << " compress"
    		  << std::endl;

	return EXIT_FAILURE;
	}

    itk::ImageIOBase::IOPixelType pixelType1;
    itk::ImageIOBase::IOPixelType pixelType2;
    typename itk::ImageIOBase::IOComponentType componentType1;
    typename itk::ImageIOBase::IOComponentType componentType2;
    size_t dimensionType1;
    size_t dimensionType2;


    try {
        GetImageType(argv[1], pixelType1, componentType1, dimensionType1);
        GetImageType(argv[2], pixelType2, componentType2, dimensionType2);
        }//try
    catch( itk::ExceptionObject &excep){
        std::cerr << argv[0] << ": exception caught !" << std::endl;
        std::cerr << excep << std::endl;
        return EXIT_FAILURE;
        }

    if (dimensionType1 != dimensionType2){
	std::cout << "Input images need to be of the same dimension." << std::endl;
	return EXIT_FAILURE;
	}

    return dispatch_cT1(componentType1, componentType2, pixelType1, pixelType2, dimensionType1, argc, argv);
    }