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/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Module: $RCSfile: DeformationFieldInitialization.cxx,v $
Language: C++
Date: $Date: 2009-11-21 21:23:25 $
Version: $Revision: 1.11 $
Copyright (c) Insight Software Consortium. All rights reserved.
See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.htm for details.
This software is distributed WITHOUT ANY WARRANTY; without even
the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
PURPOSE. See the above copyright notices for more information.
=========================================================================*/
#if defined(_MSC_VER)
#pragma warning ( disable : 4786 )
#endif
// Software Guide : BeginLatex
//
// In order to initialize deformable registration algorithme it is often
// convenient to generate a deformation fields from a set of feature
// correspondances provided by the user. The following example illustrates how
// to use the \doxygen{itkDeformableFieldSource} class in order to generate a
// deformation field from the specification of two sets of landmarks.
// Landmarks from one set are associated one-to-one to the landmarks in the
// other set. Each landmark pair defines one deformation vector. This class
// interpolates the values of all other deformation vectors using
// \doxygen{KernelBasedTransform}
//
//
// \index{Registration!Finite Element-Based}
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"
#include "itkImage.h"
#include "itkVector.h"
#include "itkDeformationFieldSource.h"
#include "itkImageRegionIteratorWithIndex.h"
#include "itkImageFileWriter.h"
#include <fstream>
int main( int argc, char * argv[] )
{
if( argc < 3 )
{
std::cerr << "Missing Parameters " << std::endl;
std::cerr << "Usage: " << argv[0];
std::cerr << " landmarksFile fixedImage outputDeformationField" << std::endl;
return EXIT_FAILURE;
}
const unsigned int Dimension = 2;
typedef float VectorComponentType;
typedef itk::Vector< VectorComponentType, Dimension > VectorType;
typedef itk::Image< VectorType, Dimension > DeformationFieldType;
typedef unsigned char PixelType;
typedef itk::Image< PixelType, Dimension > FixedImageType;
typedef itk::ImageFileReader< FixedImageType > FixedReaderType;
FixedReaderType::Pointer fixedReader = FixedReaderType::New();
fixedReader->SetFileName( argv[2] );
try
{
fixedReader->Update();
}
catch( itk::ExceptionObject & excp )
{
std::cerr << "Exception thrown " << std::endl;
std::cerr << excp << std::endl;
return EXIT_FAILURE;
}
FixedImageType::ConstPointer fixedImage = fixedReader->GetOutput();
typedef itk::DeformationFieldSource<
DeformationFieldType
> FilterType;
FilterType::Pointer filter = FilterType::New();
filter->SetOutputSpacing( fixedImage->GetSpacing() );
filter->SetOutputOrigin( fixedImage->GetOrigin() );
filter->SetOutputRegion( fixedImage->GetLargestPossibleRegion() );
filter->SetOutputDirection( fixedImage->GetDirection() );
// Create source and target landmarks.
//
typedef FilterType::LandmarkContainerPointer LandmarkContainerPointer;
typedef FilterType::LandmarkContainer LandmarkContainerType;
typedef FilterType::LandmarkPointType LandmarkPointType;
LandmarkContainerType::Pointer sourceLandmarks = LandmarkContainerType::New();
LandmarkContainerType::Pointer targetLandmarks = LandmarkContainerType::New();
LandmarkPointType sourcePoint;
LandmarkPointType targetPoint;
std::ifstream pointsFile;
pointsFile.open( argv[1] );
unsigned int pointId = 0;
pointsFile >> sourcePoint;
pointsFile >> targetPoint;
while( !pointsFile.fail() )
{
sourceLandmarks->InsertElement( pointId, sourcePoint );
targetLandmarks->InsertElement( pointId, targetPoint );
pointId++;
pointsFile >> sourcePoint;
pointsFile >> targetPoint;
}
pointsFile.close();
filter->SetSourceLandmarks( sourceLandmarks.GetPointer() );
filter->SetTargetLandmarks( targetLandmarks.GetPointer() );
try
{
filter->UpdateLargestPossibleRegion();
}
catch( itk::ExceptionObject & excp )
{
std::cerr << "Exception thrown " << std::endl;
std::cerr << excp << std::endl;
return EXIT_FAILURE;
}
// Write an image for regression testing
typedef itk::ImageFileWriter< DeformationFieldType > WriterType;
WriterType::Pointer writer = WriterType::New();
writer->SetInput ( filter->GetOutput() );
writer->SetFileName( argv[3] );
filter->Print( std::cout );
try
{
writer->Update();
}
catch( itk::ExceptionObject & excp )
{
std::cerr << "Exception thrown by writer" << std::endl;
std::cerr << excp << std::endl;
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
// Software Guide : EndLatex
}
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