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/*=========================================================================
*
* Copyright Insight Software Consortium
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
#include "itkImage.h"
#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"
#include "itkExtractImageFilter.h"
typedef float PixelType;
typedef itk::Image<PixelType, 3> ImageType;
typedef itk::Image<PixelType, 2> SliceType;
typedef itk::ImageFileReader<ImageType> ReaderType;
typedef itk::ExtractImageFilter<ImageType, SliceType> ExtractType;
typedef itk::ImageFileWriter<SliceType> WriterType;
int itkExtractSlice(int argc, char *argv[])
{
if (argc<3)
{
std::cout << "Usage:\n" << argv[0] << " in.nii out.nrrd";
return EXIT_FAILURE;
}
try
{
ReaderType::Pointer reader = ReaderType::New();
reader->SetFileName(argv[1]);
reader->UpdateOutputInformation();
ImageType::RegionType inRegion = reader->GetOutput()->GetLargestPossibleRegion();
ImageType::SizeType outSize = inRegion.GetSize();
outSize[1] = 0;
ImageType::IndexType outIndex = inRegion.GetIndex();
outIndex[1] = inRegion.GetSize()[1] / 2;
ImageType::RegionType outRegion;
outRegion.SetSize(outSize);
outRegion.SetIndex(outIndex);
ExtractType::Pointer extractFilter = ExtractType::New();
extractFilter->SetDirectionCollapseToSubmatrix();
extractFilter->InPlaceOn();
extractFilter->SetInput(reader->GetOutput());
extractFilter->SetExtractionRegion(outRegion);
WriterType::Pointer writer = WriterType::New();
writer->SetInput(extractFilter->GetOutput());
writer->SetFileName(argv[2]);
writer->Update();
}
catch (itk::ExceptionObject& exc)
{
std::cerr << exc;
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
}
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