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/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Module: itkMINC2ImageIOTest.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.
=========================================================================*/
#if defined(_MSC_VER)
#pragma warning ( disable : 4786 )
#endif
#include <fstream>
#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"
#include "itkImage.h"
#include "itkImageIOFactory.h"
#include "itkMINC2ImageIOFactory.h"
#include "itkMINC2ImageIO.h"
#include <stdio.h>
#include "itkMetaDataObject.h"
#include "itkIOCommon.h"
#include "itkResampleImageFilter.h"
#include "itkLinearInterpolateImageFunction.h"
#include "itkExceptionObject.h"
#include "itkVector.h"
#include "itkAffineTransform.h"
#include "itkNearestNeighborInterpolateImageFunction.h"
#include "itkIdentityTransform.h"
int itkMINC2ImageIOTest( int ac, char* av[] )
{
if(ac < 2)
{
std::cerr << "Usage: " << av[0] << " Input\n";
return EXIT_FAILURE;
}
std::cerr << "This is a test for MINC2!!\n";
typedef unsigned short PixelType;
typedef itk::Image<PixelType, 3> myImage;
typedef itk::Image<float, 3> ImageType;
myImage::Pointer imagefixed;
//myImage::Pointer imagemoving;
itk::ImageFileReader<myImage>::Pointer readerfixed
= itk::ImageFileReader<myImage>::New();
// itk::ImageFileReader<myImage>::Pointer readermoving
// = itk::ImageFileReader<myImage>::New();
readerfixed->SetFileName(av[1]);
//readermoving->SetFileName(av[2]);
typedef itk::MINC2ImageIO ImageIOType;
ImageIOType::Pointer minc2ImageIOfixed = ImageIOType::New();
//ImageIOType::Pointer minc2ImageIOmoving = ImageIOType::New();
readerfixed->SetImageIO( minc2ImageIOfixed );
//readermoving->SetImageIO( minc2ImageIOmoving );
// Rewrite the image in MINC2.0 format
typedef itk::ImageFileWriter< myImage > Writer1Type;
Writer1Type::Pointer writer1 = Writer1Type::New();
writer1->SetFileName( "testitk.mnc" );
//writer1->SetInput( readerfixed->GetOutput() );
writer1->SetImageIO( minc2ImageIOfixed );
try
{
readerfixed->Update();
// readermoving->Update();
}
catch (itk::ExceptionObject & e)
{
std::cerr << "exception in file reader " << std::endl;
std::cerr << e.GetDescription() << std::endl;
std::cerr << e.GetLocation() << std::endl;
return EXIT_FAILURE;
}
imagefixed = readerfixed->GetOutput();
//imagemoving = readermoving->GetOutput();
// do image resampling
typedef itk::AffineTransform<double,3> AffineTransformType;
AffineTransformType::Pointer aff3 = AffineTransformType::New();
itk::Vector<double,3> axis;
axis[0] = 1;
axis[1] = 1;
axis[2] = 1;
aff3->Rotate3D(axis,0 , 0);
//AffineTransformType::OutputVectorType translation;
//translation[0]= 3;
//translation[1]= -3;
//translation[2]= 3;
//aff3->Translate(translation);
//aff3->Scale(1.2);
typedef itk::LinearInterpolateImageFunction<myImage,double> InterpolatorType;
//typedef itk::NearestNeighborInterpolateImageFunction<myImage,double> InterpolatorType;
InterpolatorType::Pointer interpolator = InterpolatorType::New();
typedef itk::ResampleImageFilter<myImage,myImage> ResamplerType;
ResamplerType::Pointer resampler = ResamplerType::New();
interpolator->SetInputImage(readerfixed->GetOutput());
resampler->SetInput( readerfixed->GetOutput() );
resampler->SetTransform( aff3);
resampler->SetInterpolator(interpolator);
resampler->SetSize( imagefixed->GetLargestPossibleRegion().GetSize() );
std::cout << resampler->GetSize() << std::endl;
resampler->SetOutputOrigin(imagefixed->GetOrigin() );
std::cout << resampler->GetOutputOrigin() << std::endl;
resampler->SetOutputSpacing(imagefixed->GetSpacing() );
std::cout << resampler->GetOutputSpacing() << std::endl;
resampler->SetOutputDirection(imagefixed->GetDirection());
std::cout << resampler->GetOutputDirection() << std::endl;
resampler->SetDefaultPixelValue( 100 );
//std::cout <<resampler->GetOutputStartIndex() << std::endl;
//resampler->Update();
std::cout << "done resampling" << std::endl;
//resampler->GenerateOutputInformation();
writer1->SetInput( resampler->GetOutput() );
try
{
writer1->Update();
}
catch (itk::ExceptionObject & e)
{
std::cerr << "exception in file writer " << std::endl;
std::cerr << e.GetDescription() << std::endl;
std::cerr << e.GetLocation() << std::endl;
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
}
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