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/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Module: itkTransformToDeformationFieldSourceTest.cxx
Language: C++
Date: $Date$
Version: $Revision$
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.
=========================================================================*/
#include <fstream>
#include "itkVector.h"
#include "itkImage.h"
#include "itkTransform.h"
#include "itkAffineTransform.h"
#include "itkBSplineDeformableTransform.h"
#include "itkTransformToDeformationFieldSource.h"
#include "itkImageFileWriter.h"
int itkTransformToDeformationFieldSourceTest( int argc, char * argv [] )
{
/** Check command line arguments. */
if( argc < 3 )
{
std::cerr << "You must supply transform and output filename" << std::endl;
return EXIT_FAILURE;
}
std::string transformName = argv[ 1 ];
std::string fileName = argv[ 2 ];
std::string bSplineParametersFile;
if ( argc > 3 )
{
bSplineParametersFile = argv[ 3 ];
}
/** Typedefs. */
const unsigned int Dimension = 2;
typedef float ScalarPixelType;
typedef double CoordRepresentationType;
const unsigned int SplineOrder = 3;
typedef itk::Vector<
ScalarPixelType, Dimension > VectorPixelType;
typedef itk::Image<
VectorPixelType, Dimension > DeformationFieldImageType;
typedef itk::Transform<
CoordRepresentationType, Dimension,
Dimension > TransformType;
typedef itk::AffineTransform<
CoordRepresentationType, Dimension > AffineTransformType;
typedef itk::BSplineDeformableTransform<
CoordRepresentationType, Dimension,
SplineOrder > BSplineDeformableTransformType;
typedef TransformType::ParametersType ParametersType;
typedef itk::TransformToDeformationFieldSource<
DeformationFieldImageType,
CoordRepresentationType > DeformationFieldGeneratorType;
typedef DeformationFieldGeneratorType::SizeType SizeType;
typedef DeformationFieldGeneratorType::SpacingType SpacingType;
typedef DeformationFieldGeneratorType::OriginType OriginType;
typedef DeformationFieldGeneratorType::IndexType IndexType;
typedef DeformationFieldGeneratorType::RegionType RegionType;
typedef itk::ImageFileWriter<
DeformationFieldImageType > WriterType;
/** Create output information. */
SizeType size; size.Fill( 20 );
IndexType index; index.Fill( 0 );
SpacingType spacing; spacing.Fill( 0.7 );
OriginType origin; origin.Fill( -10.0 );
/** Create transforms. */
AffineTransformType::Pointer affineTransform
= AffineTransformType::New();
BSplineDeformableTransformType::Pointer bSplineTransform
= BSplineDeformableTransformType::New();
if ( transformName == "Affine" )
{
/** Set the options. */
OriginType centerOfRotation;
centerOfRotation[ 0 ] = -3.0; centerOfRotation[ 1 ] = -3.0;
affineTransform->SetCenter( centerOfRotation );
/** Create and set parameters. */
ParametersType parameters( affineTransform->GetNumberOfParameters() );
parameters[ 0 ] = 1.1;
parameters[ 1 ] = 0.1;
parameters[ 2 ] = -0.2;
parameters[ 3 ] = 0.9;
parameters[ 4 ] = 10.3;
parameters[ 5 ] = -33.8;
affineTransform->SetParameters( parameters );
}
else if ( transformName == "BSpline" )
{
/** Set the options. */
SizeType gridSize;
gridSize[ 0 ] = 7; gridSize[ 1 ] = 10;
//gridSize[ 0 ] = 2; gridSize[ 1 ] = 3;
IndexType gridIndex; gridIndex.Fill( 0 );
RegionType gridRegion;
gridRegion.SetSize( gridSize );
gridRegion.SetIndex( gridIndex );
SpacingType gridSpacing;
gridSpacing[ 0 ] = 5.4; gridSpacing[ 1 ] = 3.1;
OriginType gridOrigin; gridOrigin.Fill( -16.0 );
bSplineTransform->SetGridOrigin( gridOrigin );
bSplineTransform->SetGridSpacing( gridSpacing );
bSplineTransform->SetGridRegion( gridRegion );
/** Create and set parameters. */
ParametersType parameters( bSplineTransform->GetNumberOfParameters() );
std::ifstream input( bSplineParametersFile.c_str() );
if ( input.is_open() )
{
for ( unsigned int i = 0; i < parameters.GetSize(); ++i )
{
input >> parameters[ i ];
}
input.close();
}
else
{
std::cerr << "ERROR: B-spline parameter file not found." << std::endl;
return EXIT_FAILURE;
}
bSplineTransform->SetParametersByValue( parameters );
}
else
{
std::cerr << "ERROR: Not a valid transform." << std::endl;
return EXIT_FAILURE;
}
/** Create an setup deformation field generator. */
DeformationFieldGeneratorType::Pointer defGenerator
= DeformationFieldGeneratorType::New();
std::cout << "Name of Class: " << defGenerator->GetNameOfClass()
<< std::endl;
defGenerator->SetOutputSize( size );
defGenerator->SetOutputSpacing( spacing );
defGenerator->SetOutputOrigin( origin );
defGenerator->SetOutputIndex( index );
//
// for coverage, exercise access methods
spacing = defGenerator->GetOutputSpacing();
origin = defGenerator->GetOutputOrigin();
DeformationFieldGeneratorType::DirectionType
direction = defGenerator->GetOutputDirection();
std::cout << "Spacing " << spacing
<< " Origin " << origin
<< std::endl << "Direction "
<< direction
<< std::endl;
//defGenerator->SetOutputDirection( direction );
if ( transformName == "Affine" )
{
defGenerator->SetTransform( affineTransform );
}
else if ( transformName == "BSpline" )
{
defGenerator->SetTransform( bSplineTransform );
}
std::cout << "Transform: " << defGenerator->GetTransform()
<< std::endl;
DeformationFieldGeneratorType::OutputImageRegionType
outputRegion = defGenerator->GetOutputRegion();
defGenerator->SetOutputRegion(outputRegion);
/** Write deformation field to disk. */
WriterType::Pointer writer
= WriterType::New();
writer->SetInput( defGenerator->GetOutput() );
writer->SetFileName( fileName.c_str() );
try
{
writer->Update();
}
catch ( itk::ExceptionObject & e )
{
std::cerr << "Exception detected while generating deformation field" << argv[1];
std::cerr << " : " << e.GetDescription();
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
} // end main
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