Authors belong to:
- University of LYON http://www.universite-lyon.fr/
- - Léon Bérard cancer center http://oncora1.lyon.fnclcc.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
- BSD See included LICENSE.txt file
- CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
-======================================================================-====*/
+===========================================================================**/
#ifndef CLITKCONEBEAMPROJECTIMAGEGENERICFILTER_CXX
#define CLITKCONEBEAMPROJECTIMAGEGENERICFILTER_CXX
// Constructor
ConeBeamProjectImageGenericFilter::ConeBeamProjectImageGenericFilter()
{
-
m_Verbose=false;
m_InputFileName="";
-
-// mIsoCenter.resize(3);
-// for (unsigned int j=0; j < 3; j++) mIsoCenter[j]=128.;
-// mSourceToScreen=1536.;
-// mSourceToAxis=1000.;
-// mProjectionAngle=0.;
-
-// // set the rigid transform matrix to the identity
-// for (unsigned int i=0; i <4; i++)
-// for (unsigned int j=0; j <4; j++)
-// if (i==j)mRigidTransformMatrix[i][j]=1.;
-// else mRigidTransformMatrix[i][j]=0.;
-
-// //Padding value
-// mEdgePaddingValue=0.0;
}
//====================================================================
<< " but I can only work on 3D images.");
}
}
+
+ //================================================================================
+ template <class PixelType> void ConeBeamProjectImageGenericFilter::UpdateWithPixelType()
+ {
+
+ //===================================================================
+ // Read the input image
+ const unsigned int InputImageDimension=3;
+ typedef itk::Image<PixelType, InputImageDimension> InputImageType;
+ typedef itk::ImageFileReader<InputImageType> ImageReaderType;
+ typename ImageReaderType::Pointer reader = ImageReaderType::New();
+ reader->SetFileName(m_InputFileName);
+ reader->Update();
+ typename InputImageType::Pointer input = reader->GetOutput();
+
+ // Define the output type
+ //JV always float?
+ typedef float OutputPixelType;
+ const unsigned int OutputImageDimension=2;
+ typedef itk::Image<OutputPixelType, OutputImageDimension> OutputImageType;
+
+ // Create the ConeBeamProjectImageFilter
+ typedef clitk::ConeBeamProjectImageFilter<InputImageType, OutputImageType> ConeBeamProjectImageFilterType;
+ typename ConeBeamProjectImageFilterType::Pointer filter=ConeBeamProjectImageFilterType::New();
+
+ // Pass all the necessary parameters
+ filter->SetInput(input);
+ filter->SetVerbose(m_Verbose);
+ if (m_ArgsInfo.threads_given) filter->SetNumberOfThreads(m_ArgsInfo.threads_arg);
+
+ // Projection parameters
+ typename InputImageType::PointType iso;
+ unsigned int i;
+ if (m_ArgsInfo.iso_given)
+ for(i=0;i<InputImageDimension;i++)
+ {
+ iso[i]=m_ArgsInfo.iso_arg[i];
+ filter->SetIsoCenter(iso);
+ }
+ filter->SetSourceToScreen(m_ArgsInfo.screen_arg);
+ filter->SetSourceToAxis(m_ArgsInfo.axis_arg);
+ filter->SetProjectionAngle(m_ArgsInfo.angle_arg);
+ if (m_ArgsInfo.matrix_given)
+ {
+ itk::Matrix<double,4,4> rt =ReadMatrix3D(m_ArgsInfo.matrix_arg);
+ filter->SetRigidTransformMatrix(rt);
+ }
+ filter->SetEdgePaddingValue(static_cast<OutputPixelType>(m_ArgsInfo.pad_arg));
+
+ DD(m_ArgsInfo.panel_position_arg);
+ if (m_ArgsInfo.panel_shift_given) // one should read the specific values for each angle in Frame.dbf
+ filter->SetPanelShift(m_ArgsInfo.panel_shift_arg);
+ else { // approximate panel positions hard coded values for the elekta synergy
+ if (strcmp(m_ArgsInfo.panel_position_arg,"small") ==0)
+ filter->SetPanelShift(0.);
+ else if (strcmp(m_ArgsInfo.panel_position_arg,"medium") ==0)
+ filter->SetPanelShift(114.84);
+ else if (strcmp(m_ArgsInfo.panel_position_arg,"large") ==0)
+ filter->SetPanelShift(190.);
+ else assert(false); //Unsupported panel position
+ }
+ // Output image info
+ if (m_ArgsInfo.like_given)
+ {
+ typedef itk::ImageFileReader<OutputImageType> ReaderType;
+ ReaderType::Pointer reader2=ReaderType::New();
+ reader2->SetFileName(m_ArgsInfo.like_arg);
+ reader2->Update();
+
+ OutputImageType::Pointer image=reader2->GetOutput();
+ filter->SetOutputParametersFromImage(image);
+ }
+ else
+ {
+ if (m_ArgsInfo.origin_given)
+ {
+ OutputImageType::PointType origin;
+ for(i=0;i<OutputImageDimension;i++)
+ origin[i]=m_ArgsInfo.origin_arg[i];
+ filter->SetOutputOrigin(origin);
+ }
+ if (m_ArgsInfo.spacing_given)
+ {
+ OutputImageType::SpacingType spacing;
+ for(i=0;i<OutputImageDimension;i++)
+ spacing[i]=m_ArgsInfo.spacing_arg[i];
+ filter->SetOutputSpacing(spacing);
+ }
+ if (m_ArgsInfo.size_given)
+ {
+ OutputImageType::SizeType size;
+ for(i=0;i<OutputImageDimension;i++)
+ size[i]=m_ArgsInfo.size_arg[i];
+ filter->SetOutputSize(size);
+ }
+ }
+
+ //Go
+ filter->Update();
+
+ //Get the output
+ OutputImageType::Pointer output=filter->GetOutput();
+
+ //Write the output
+ typedef itk::ImageFileWriter<OutputImageType> OutputWriterType;
+ OutputWriterType::Pointer outputWriter = OutputWriterType::New();
+ outputWriter->SetInput(output);
+ outputWriter->SetFileName(m_ArgsInfo.output_arg);
+ if (m_Verbose)std::cout<<"Writing projected image..."<<std::endl;
+ outputWriter->Update();
+ }
//====================================================================
git://git.creatis.insa-lyon.fr / clitk.git / blobdiff