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 ===========================================================================**/
19 -------------------------------------------------------------------
20 * @file clitkSplitImageGenericFilter.cxx
21 * @author Joël Schaerer
25 -------------------------------------------------------------------*/
27 #include "clitkSplitImageGenericFilter.h"
28 #include "itkChangeInformationImageFilter.h"
29 #include <itkIntensityWindowingImageFilter.h>
30 //--------------------------------------------------------------------
31 clitk::SplitImageGenericFilter::SplitImageGenericFilter():
32 clitk::ImageToImageGenericFilter<Self>("SplitImage")
35 InitializeImageType<3>();
36 InitializeImageType<4>();
38 //--------------------------------------------------------------------
40 //--------------------------------------------------------------------
41 template<unsigned int Dim>
42 void clitk::SplitImageGenericFilter::InitializeImageType()
44 ADD_DEFAULT_IMAGE_TYPES(Dim);
45 ADD_VEC_IMAGE_TYPE(Dim, 3,float);
47 //--------------------------------------------------------------------
49 //--------------------------------------------------------------------
50 template <class ImageType>
51 typename clitk::SplitImageGenericFilter::PngConversion<ImageType>::OutputPngImagePointer
52 clitk::SplitImageGenericFilter::PngConversion<ImageType>::Do(double window,
56 static const unsigned int PixelDimension = itk::PixelTraits<typename ImageType::PixelType>::Dimension;
57 return this->Do(window, level, input, static_cast< PixelDimType<PixelDimension> *>(ITK_NULLPTR) );
59 //--------------------------------------------------------------------
61 //--------------------------------------------------------------------
62 template <class ImageType>
63 template<unsigned int Dim>
64 typename clitk::SplitImageGenericFilter::PngConversion<ImageType>::OutputPngImagePointer
65 clitk::SplitImageGenericFilter::PngConversion<ImageType>::Do(double window,
70 clitkExceptionMacro("Png conversion is not implemented for vector fields");
73 //--------------------------------------------------------------------
75 //--------------------------------------------------------------------
76 template <class ImageType>
77 typename clitk::SplitImageGenericFilter::PngConversion<ImageType>::OutputPngImagePointer
78 clitk::SplitImageGenericFilter::PngConversion<ImageType>::Do(double window,
83 typedef itk::IntensityWindowingImageFilter< ImageType, OutputPngImageType > CastFilterType;
84 typename CastFilterType::Pointer cast = CastFilterType::New();
85 cast->SetWindowLevel(window, level);
86 cast->SetInput(input);
88 return cast->GetOutput();
90 //--------------------------------------------------------------------
92 //--------------------------------------------------------------------
93 template<class ImageType>
94 void clitk::SplitImageGenericFilter::UpdateWithInputImageType()
98 typedef typename ImageType::PixelType PixelType;
99 typedef itk::Image<PixelType,ImageType::ImageDimension-1> OutputImageType;
100 typename ImageType::Pointer input = this->GetInput<ImageType>(0);
101 typedef itk::ExtractImageFilter<ImageType,OutputImageType> FilterType;
102 typename FilterType::Pointer filter= FilterType::New();
104 filter->SetInput(input);
105 typename ImageType::SizeType size=input->GetLargestPossibleRegion().GetSize();
106 size[mSplitDimension]=0;
107 typename ImageType::RegionType extracted_region;
108 extracted_region.SetSize(size);
109 filter->SetDirectionCollapseToIdentity();
110 filter->SetExtractionRegion(extracted_region);
113 typedef itk::ChangeInformationImageFilter< OutputImageType > InformationFilterType;
115 typename ImageType::IndexType index=input->GetLargestPossibleRegion().GetIndex();
116 std::string base_filename=GetOutputFilename();
117 unsigned int number_of_output_images=input->GetLargestPossibleRegion().GetSize()[mSplitDimension];
118 for (unsigned int i=0; i<number_of_output_images; i++) {
119 std::ostringstream ss;
120 ss << std::setfill('0') << std::setw((int)(log10(double(number_of_output_images))+1)) << i;
121 index[mSplitDimension]=i;
122 extracted_region.SetIndex(index);
123 filter->SetExtractionRegion(extracted_region);
126 if (ImageType::ImageDimension == 4 && mSplitDimension == 3) //Copy the transformation matrix if the original image is a 4D image splitted along the time dimension
128 typename InformationFilterType::Pointer informationFilter = InformationFilterType::New();
129 informationFilter->SetInput( filter->GetOutput() );
130 typename OutputImageType::DirectionType directionOutput;
131 for (unsigned j=0; j<3; ++j)
132 for (unsigned k=0; k<3; ++k)
133 directionOutput[j][k] = input->GetDirection()[j][k];
134 informationFilter->SetOutputDirection( directionOutput );
135 informationFilter->ChangeDirectionOn();
136 informationFilter->UpdateOutputInformation();
139 PngConversion<OutputImageType> png;
140 SetOutputFilename(base_filename+"_"+ss.str()+".png");
141 typename PngConversion<OutputImageType>::OutputPngImagePointer output;
142 output = png.Do(this->m_Window, this->m_Level, informationFilter->GetOutput());
143 this->template SetNextOutput<typename PngConversion<OutputImageType>::OutputPngImageType>(output);
146 SetOutputFilename(base_filename+"_"+ss.str()+".mhd");
147 SetNextOutput<OutputImageType>(informationFilter->GetOutput());
153 PngConversion<OutputImageType> png;
154 SetOutputFilename(base_filename+"_"+ss.str()+".png");
155 typename PngConversion<OutputImageType>::OutputPngImagePointer output;
156 output = png.Do(this->m_Window, this->m_Level, filter->GetOutput());
157 this->template SetNextOutput<typename PngConversion<OutputImageType>::OutputPngImageType>(output);
160 SetOutputFilename(base_filename+"_"+ss.str()+".mhd");
161 SetNextOutput<OutputImageType>(filter->GetOutput());
166 //--------------------------------------------------------------------