+/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
+
+ Authors belong to:
+ - University of LYON http://www.universite-lyon.fr/
+ - Léon Bérard cancer center http://www.centreleonberard.fr
+ - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
+
+ This software is distributed WITHOUT ANY WARRANTY; without even
+ the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the copyright notices for more information.
+
+ It is distributed under dual licence
+
+ - BSD See included LICENSE.txt file
+ - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+===========================================================================**/
+#ifndef clitk4DImageToNVectorImageGenericFilter_txx
+#define clitk4DImageToNVectorImageGenericFilter_txx
+
+/* =================================================
+ * @file clitk4DImageToNVectorImageGenericFilter.txx
+ * @author
+ * @date
+ *
+ * @brief
+ *
+ ===================================================*/
+
+#include "itkComposeImageFilter.h"
+#include "itkExtractImageFilter.h"
+
+namespace clitk
+{
+
+ //-------------------------------------------------------------------
+ // Update with the number of dimensions
+ //-------------------------------------------------------------------
+ template<unsigned int Dimension>
+ void
+ FourDImageToNVectorImageGenericFilter::UpdateWithDim(std::string PixelType, unsigned int Components)
+ {
+ if (m_Verbose) std::cout << "Image was detected to be "<<Dimension<<"D and "<< PixelType<<"..."<<std::endl;
+
+ if (PixelType == "short") {
+ UpdateWithDimAndPixelType<Dimension, short>();
+ } else if (PixelType == "unsigned short") {
+ UpdateWithDimAndPixelType<Dimension, unsigned short>();
+ } else if (PixelType == "unsigned_short") {
+ UpdateWithDimAndPixelType<Dimension, unsigned short>();
+ } else if (PixelType == "char") {
+ UpdateWithDimAndPixelType<Dimension, char>();
+ } else if (PixelType == "unsigned_char") {
+ UpdateWithDimAndPixelType<Dimension, unsigned char>();
+ } else if (PixelType == "int") {
+ UpdateWithDimAndPixelType<Dimension, int>();
+ } else if (PixelType == "unsigned_int") {
+ UpdateWithDimAndPixelType<Dimension, unsigned int>();
+ } else if (PixelType == "double") {
+ UpdateWithDimAndPixelType<Dimension, double>();
+ } else if (PixelType == "float") {
+ UpdateWithDimAndPixelType<Dimension, float>();
+ } else {
+ std::cerr << "Error, pixel type : \"" << PixelType << "\" unknown !" << std::endl;
+ }
+ }
+
+
+ //-------------------------------------------------------------------
+ // Update with the number of dimensions and the pixeltype
+ //-------------------------------------------------------------------
+ template <unsigned int Dimension, class PixelType>
+ void
+ FourDImageToNVectorImageGenericFilter::UpdateWithDimAndPixelType()
+ {
+ // ImageTypes
+ typedef itk::Image<PixelType, Dimension> InputImageType;
+ typedef itk::Image<PixelType, Dimension-1> MedianImageType;
+ typedef itk::VectorImage<PixelType, Dimension-1> OutputImageType;
+
+ // Read the input
+ typedef itk::ImageFileReader<InputImageType> InputReaderType;
+ typename InputReaderType::Pointer reader = InputReaderType::New();
+ reader->SetFileName(m_InputFileName);
+ reader->Update();
+ typename InputImageType::Pointer input= reader->GetOutput();
+ std::string fileName=m_ArgsInfo.output_arg;
+
+ //Filter
+ typedef itk::ComposeImageFilter<MedianImageType> ImageToVectorImageFilterType;
+ typename ImageToVectorImageFilterType::Pointer imageToVectorImageFilter = ImageToVectorImageFilterType::New();
+ typedef itk::ExtractImageFilter<InputImageType, MedianImageType> ExtractFilterType;
+ typename ExtractFilterType::Pointer extractFilter = ExtractFilterType::New();
+ extractFilter->SetDirectionCollapseToSubmatrix();
+ typedef itk::ImageFileWriter<OutputImageType> WriterType;
+ typename WriterType::Pointer writer = WriterType::New();
+
+ extractFilter->SetInput(input);
+ typename InputImageType::SizeType size;
+ for (unsigned int nbDimension=0; nbDimension<Dimension-1; ++nbDimension)
+ {
+ size[nbDimension] = input->GetLargestPossibleRegion().GetSize(nbDimension);
+ }
+ size[Dimension-1] = 0;
+ typename MedianImageType::Pointer tempImage = MedianImageType::New();
+
+ //Extract All "time" slices
+ for (unsigned int nbSlice=0; nbSlice<input->GetLargestPossibleRegion().GetSize(Dimension-1); ++nbSlice)
+ {
+ typename InputImageType::RegionType desiredRegion;
+ typename InputImageType::IndexType index;
+ index.Fill(0);
+ index[Dimension-1]=nbSlice;
+ desiredRegion.SetSize(size);
+ extractFilter->SetInput(input);
+ desiredRegion.SetIndex(index);
+ extractFilter->SetExtractionRegion(desiredRegion);
+ extractFilter->Update();
+ tempImage = extractFilter->GetOutput();
+ tempImage->DisconnectPipeline();
+ extractFilter->Update();
+ imageToVectorImageFilter->SetInput(nbSlice, tempImage);
+ }
+
+ imageToVectorImageFilter->Update();
+
+ // Output
+ writer->SetInput(imageToVectorImageFilter->GetOutput());
+ writer->SetFileName(fileName);
+ writer->Update();
+ }
+}//end clitk
+
+#endif //#define clitk4DImageToNVectorImageGenericFilter_txx