1 /*=========================================================================
2 Program: vv http://www.creatis.insa-lyon.fr/rio/vv
5 - University of LYON http://www.universite-lyon.fr/
6 - Léon Bérard cancer center http://www.centreleonberard.fr
7 - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
9 This software is distributed WITHOUT ANY WARRANTY; without even
10 the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
11 PURPOSE. See the copyright notices for more information.
13 It is distributed under dual licence
15 - BSD See included LICENSE.txt file
16 - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
17 ===========================================================================**/
18 #ifndef clitkExtractSliceGenericFilter_txx
19 #define clitkExtractSliceGenericFilter_txx
21 /* =================================================
22 * @file clitkExtractSliceGenericFilter.txx
28 ===================================================*/
34 //-------------------------------------------------------------------
35 // Update with the number of dimensions
36 //-------------------------------------------------------------------
37 template<unsigned int Dimension>
39 ExtractSliceGenericFilter::UpdateWithDim(std::string PixelType)
41 if (m_Verbose) std::cout << "Image was detected to be "<<Dimension<<"D and "<< PixelType<<"..."<<std::endl;
43 if(PixelType == "short"){
44 if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and signed short..." << std::endl;
45 UpdateWithDimAndPixelType<Dimension, signed short>();
47 // else if(PixelType == "unsigned_short"){
48 // if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and unsigned_short..." << std::endl;
49 // UpdateWithDimAndPixelType<Dimension, unsigned short>();
52 else if (PixelType == "unsigned_char"){
53 if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and unsigned_char..." << std::endl;
54 UpdateWithDimAndPixelType<Dimension, unsigned char>();
57 // else if (PixelType == "char"){
58 // if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and signed_char..." << std::endl;
59 // UpdateWithDimAndPixelType<Dimension, signed char>();
62 if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and float..." << std::endl;
63 UpdateWithDimAndPixelType<Dimension, float>();
68 //-------------------------------------------------------------------
69 // Update with the number of dimensions and the pixeltype
70 //-------------------------------------------------------------------
71 template <unsigned int Dimension, class PixelType>
73 ExtractSliceGenericFilter::UpdateWithDimAndPixelType()
77 typedef itk::Image<PixelType, Dimension> InputImageType;
78 typedef itk::Image<PixelType, Dimension-1> OutputImageType;
81 typedef itk::ImageFileReader<InputImageType> InputReaderType;
82 typename InputReaderType::Pointer reader = InputReaderType::New();
83 reader->SetFileName( m_InputFileName);
85 typename InputImageType::Pointer input= reader->GetOutput();
88 typedef clitk::ExtractImageFilter<InputImageType, OutputImageType> ExtractImageFilterType;
89 typename ExtractImageFilterType::Pointer extractFilter=ExtractImageFilterType::New();
90 extractFilter->SetInput(input);
93 if( (m_ArgsInfo.axe_arg<0) || (static_cast<unsigned int >(m_ArgsInfo.axe_arg) >= Dimension) )
95 std::cerr<<"The axe index does not name a dimension!!"<<std::endl;
98 typename InputImageType::RegionType region= input->GetLargestPossibleRegion();
99 typename InputImageType::RegionType::SizeType size= region.GetSize();
101 if( (m_ArgsInfo.slice_arg<0) || (static_cast<unsigned int>(m_ArgsInfo.slice_arg) >= size[static_cast<unsigned int >(m_ArgsInfo.axe_arg)]) )
103 std::cerr<<"The slice index does not name a slice!!"<<std::endl;
107 // Collapse dimension
108 size[m_ArgsInfo.axe_arg]=0;
109 typename InputImageType::IndexType start;
111 start[m_ArgsInfo.axe_arg]=m_ArgsInfo.slice_arg;
112 region.SetSize( size );
113 region.SetIndex(start);
114 extractFilter->SetExtractionRegion(region);
115 extractFilter->Update();
116 typename OutputImageType::Pointer output =extractFilter->GetOutput();
119 typedef itk::ImageFileWriter<OutputImageType> WriterType;
120 typename WriterType::Pointer writer = WriterType::New();
121 writer->SetFileName(m_ArgsInfo.output_arg);
122 writer->SetInput(output);
130 #endif //#define clitkExtractSliceGenericFilter_txx