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://oncora1.lyon.fnclcc.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 clitkCropImageGenericFilter_txx
19 #define clitkCropImageGenericFilter_txx
21 /* =================================================
22 * @file clitkCropImageGenericFilter.txx
28 ===================================================*/
34 //-------------------------------------------------------------------
35 // Update with the number of dimensions
36 //-------------------------------------------------------------------
37 template<unsigned int Dimension>
39 CropImageGenericFilter::UpdateWithDim(std::string PixelType, unsigned int Components)
41 if (m_Verbose) std::cout << "Image was detected to be "<<Dimension<<"D and "<<Components<<" component(s) of "<< PixelType<<"..."<<std::endl;
45 if(PixelType == "short"){
46 if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and signed short..." << std::endl;
47 UpdateWithDimAndPixelType<Dimension, signed short>();
49 // else if(PixelType == "unsigned_short"){
50 // if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and unsigned_short..." << std::endl;
51 // UpdateWithDimAndPixelType<Dimension, unsigned short>();
54 else if (PixelType == "unsigned_char"){
55 if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and unsigned_char..." << std::endl;
56 UpdateWithDimAndPixelType<Dimension, unsigned char>();
59 // else if (PixelType == "char"){
60 // if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and signed_char..." << std::endl;
61 // UpdateWithDimAndPixelType<Dimension, signed char>();
64 if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and float..." << std::endl;
65 UpdateWithDimAndPixelType<Dimension, float>();
69 else if (Components==3)
71 if (m_Verbose) std::cout << "Launching filter in "<< Dimension <<"D and 3D float (DVF)" << std::endl;
72 UpdateWithDimAndPixelType<Dimension, itk::Vector<float, 3> >();
75 else std::cerr<<"Number of components is "<<Components<<", not supported!"<<std::endl;
79 //-------------------------------------------------------------------
80 // Update with the number of dimensions and the pixeltype
81 //-------------------------------------------------------------------
82 template <unsigned int Dimension, class PixelType>
84 CropImageGenericFilter::UpdateWithDimAndPixelType()
88 typedef itk::Image<PixelType, Dimension> InputImageType;
89 typedef itk::Image<PixelType, Dimension> OutputImageType;
92 typedef itk::ImageFileReader<InputImageType> InputReaderType;
93 typename InputReaderType::Pointer reader = InputReaderType::New();
94 reader->SetFileName( m_InputFileName);
96 typename InputImageType::Pointer input= reader->GetOutput();
99 typedef itk::CropImageFilter<InputImageType, OutputImageType> CropImageFilterType;
100 typename CropImageFilterType::Pointer cropFilter=CropImageFilterType::New();
101 cropFilter->SetInput(input);
102 typename InputImageType::SizeType lSize, uSize;
104 if (m_ArgsInfo.boundingBox_given)
106 for(unsigned int i=0;i<Dimension;i++)
108 lSize[i]=m_ArgsInfo.boundingBox_arg[2*i];
109 uSize[i]=input->GetLargestPossibleRegion().GetSize()[i]-m_ArgsInfo.boundingBox_arg[2*i+1]-1;
115 if (m_ArgsInfo.lower_given)
116 for(unsigned int i=0;i<Dimension;i++)
117 lSize[i]=static_cast<unsigned int >(m_ArgsInfo.lower_arg[i]);
120 if (m_ArgsInfo.upper_given)
121 for(unsigned int i=0;i<Dimension;i++)
122 uSize[i]=static_cast<unsigned int >(m_ArgsInfo.upper_arg[i]);
126 cropFilter->SetLowerBoundaryCropSize(lSize);
127 cropFilter->SetUpperBoundaryCropSize(uSize);
128 cropFilter->Update();
129 typename OutputImageType::Pointer output= cropFilter->GetOutput();
132 typename OutputImageType::PointType origin;
133 origin.Fill(itk::NumericTraits<double>::Zero);
134 if (m_ArgsInfo.origin_flag)
136 output->SetOrigin(origin);
138 if (m_Verbose) std::cout<<"Setting origin to "<< origin<<"..."<<std::endl;
142 typedef itk::ImageFileWriter<OutputImageType> WriterType;
143 typename WriterType::Pointer writer = WriterType::New();
144 writer->SetFileName(m_ArgsInfo.output_arg);
145 writer->SetInput(output);
152 #endif //#define clitkCropImageGenericFilter_txx