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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 "itkImageSeriesReader.h"
#include "itkImageSeriesWriter.h"
#include <sstream>
#define SPECIFIC_IMAGEIO_MODULE_TEST
// Take as input any kind of image (typically RAW) and will create a valid
// DICOM MR image out of the raw image.
int itkGDCMImageIOTest2(int argc, char *argv[] )
{
if( argc < 3 )
{
std::cerr << "Usage: " << argv[0] << " InputFile OutputDicomRoot\n";
return EXIT_FAILURE;
}
const char *input = argv[1];
const char *output = argv[2];
typedef itk::Image<unsigned char,3> ImageType;
typedef itk::ImageFileReader<ImageType> ReaderType;
typedef itk::ImageFileWriter<ImageType> WriterType;
ReaderType::Pointer reader = ReaderType::New();
reader->SetFileName(input);
try
{
reader->Update();
}
catch (itk::ExceptionObject & e)
{
std::cerr << "exception in file writer " << std::endl;
std::cerr << e << std::endl;
return EXIT_FAILURE;
}
itk::GDCMImageIO::Pointer dicomIO = itk::GDCMImageIO::New();
//reader->GetOutput()->Print(std::cout);
itk::MetaDataDictionary & dict = dicomIO->GetMetaDataDictionary();
std::string tagkey, value;
tagkey = "0002|0002";
value = "1.2.840.10008.5.1.4.1.1.4"; // Media Storage SOP Class UID
itk::EncapsulateMetaData<std::string>(dict, 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);
tagkey = "0018|5100"; // Patient Position
value = "HFS";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0020|1040"; // Position Reference Indicator
value = "";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0020"; // Scanning Sequence
value = "GR";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0021"; // Sequence Variant
value = "SS\\SP";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0022"; // Scan Options
value = "";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0023"; // MRA Acquisition Type
value = "";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0080"; // Repetition Time
value = "";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0081"; // Echo Time
value = "";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0091"; // Echo Train Length
value = "";
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
tagkey = "0018|0050"; // Slice Thickness
std::ostringstream os;
os << reader->GetImageIO()->GetSpacing(2);
value = os.str();
itk::EncapsulateMetaData<std::string>(dict, tagkey, value);
// Construct different filename based on the root given
std::string output_j2k = output;
output_j2k += "-j2k.dcm";
std::string output_jpll = output;
output_jpll += "-jpll.dcm";
std::string output_raw = output;
output_raw += "-raw.dcm";
WriterType::Pointer writer = WriterType::New();
writer->SetImageIO(dicomIO);
writer->SetInput(reader->GetOutput());
writer->UseInputMetaDataDictionaryOff();
// Save as JPEG 2000 Lossless
// Explicitely specify which compression type to use
dicomIO->SetCompressionType(itk::GDCMImageIO::JPEG2000);
// Request compression of the ImageIO
writer->UseCompressionOn();
writer->SetFileName(output_j2k.c_str());
try
{
writer->Update();
}
catch (itk::ExceptionObject & e)
{
std::cerr << "exception in file writer " << std::endl;
std::cerr << e << std::endl;
return EXIT_FAILURE;
}
// Save as JPEG Lossless
dicomIO->SetCompressionType(itk::GDCMImageIO::JPEG);
writer->SetFileName(output_jpll.c_str());
try
{
writer->Update();
}
catch (itk::ExceptionObject & e)
{
std::cerr << "exception in file writer " << std::endl;
std::cerr << e << std::endl;
return EXIT_FAILURE;
}
// Save as raw
writer->UseCompressionOff();
writer->SetFileName(output_raw.c_str());
try
{
writer->Update();
}
catch (itk::ExceptionObject & e)
{
std::cerr << "exception in file writer " << std::endl;
std::cerr << e << std::endl;
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
}
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