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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 "itkGDCMImageIO.h"
#include "itkNumericSeriesFileNames.h"
#include "itkImageFileReader.h"
#include "itkImageSeriesWriter.h"
#include "itkMetaDataObject.h"
#include <vector>
#include "itksys/SystemTools.hxx"
// Software Guide : BeginLatex
//
// This example illustrates how to read a 3D image from a non DICOM file and write it as a series of DICOM slices.
// with some changed header information. Header
//
// Please note that modifying the content of a DICOM header is a very risky
// operation. The Header contains fundamental information about the patient
// and therefore its consistency must be protected from any data corruption.
// Before attempting to modify the DICOM headers of your files, you must make
// sure that you have a very good reason for doing so, and that you can ensure
// that this information change will not result in a lower quality of health
// care to be delivered to the patient.
//
// \index{DICOM!Writing Series}
//
// Software Guide : EndLatex
int main( int argc, char* argv[] )
{
if( argc < 3 )
{
std::cerr << "Usage: " << argv[0];
std::cerr << " InputImage OutputDicomDirectory" << std::endl;
return EXIT_FAILURE;
}
typedef signed short PixelType;
const unsigned int Dimension = 3;
typedef itk::Image< PixelType, Dimension > ImageType;
typedef itk::ImageFileReader< ImageType > ReaderType;
ReaderType::Pointer reader = ReaderType::New();
reader->SetFileName( argv[1] );
try
{
reader->Update();
}
catch (itk::ExceptionObject &excp)
{
std::cerr << "Exception thrown while writing the image" << std::endl;
std::cerr << excp << std::endl;
return EXIT_FAILURE;
}
typedef itk::GDCMImageIO ImageIOType;
typedef itk::NumericSeriesFileNames NamesGeneratorType;
ImageIOType::Pointer gdcmIO = ImageIOType::New();
const char * outputDirectory = argv[2];
itksys::SystemTools::MakeDirectory( outputDirectory );
typedef signed short OutputPixelType;
const unsigned int OutputDimension = 2;
typedef itk::Image< OutputPixelType, OutputDimension > Image2DType;
typedef itk::ImageSeriesWriter<
ImageType, Image2DType > SeriesWriterType;
NamesGeneratorType::Pointer namesGenerator = NamesGeneratorType::New();
itk::MetaDataDictionary & dict = gdcmIO->GetMetaDataDictionary();
std::string tagkey, value;
tagkey = "0008|0060"; // Modality
value = "MR";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value );
tagkey = "0008|0008"; // Image Type
value = "DERIVED\\SECONDARY";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0008|0064"; // Conversion Type
value = "DV";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
SeriesWriterType::Pointer seriesWriter = SeriesWriterType::New();
seriesWriter->SetInput( reader->GetOutput() );
seriesWriter->SetImageIO( gdcmIO );
ImageType::RegionType region =
reader->GetOutput()->GetLargestPossibleRegion();
ImageType::IndexType start = region.GetIndex();
ImageType::SizeType size = region.GetSize();
std::string format = outputDirectory;
format += "/image%03d.dcm";
namesGenerator->SetSeriesFormat( format.c_str() );
namesGenerator->SetStartIndex( start[2] );
namesGenerator->SetEndIndex( start[2] + size[2] - 1 );
namesGenerator->SetIncrementIndex( 1 );
seriesWriter->SetFileNames( namesGenerator->GetFileNames() );
try
{
seriesWriter->Update();
}
catch( itk::ExceptionObject & excp )
{
std::cerr << "Exception thrown while writing the series " << std::endl;
std::cerr << excp << std::endl;
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
}
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