ITK  5.1.0
Insight Toolkit
Examples/IO/ImageReadDicomSeriesWrite.cxx
/*=========================================================================
*
* 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 <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;
}
using PixelType = signed short;
constexpr unsigned int Dimension = 3;
using ReaderType = itk::ImageFileReader<ImageType>;
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;
}
using ImageIOType = itk::GDCMImageIO;
using NamesGeneratorType = itk::NumericSeriesFileNames;
ImageIOType::Pointer gdcmIO = ImageIOType::New();
const char * outputDirectory = argv[2];
itksys::SystemTools::MakeDirectory(outputDirectory);
using OutputPixelType = signed short;
constexpr unsigned int OutputDimension = 2;
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;
}
itkImageSeriesWriter.h
itk::ImageSeriesWriter
Writes image data to a series of data files.
Definition: itkImageSeriesWriter.h:85
itkImageFileReader.h
itk::GTest::TypedefsAndConstructors::Dimension2::SizeType
ImageBaseType::SizeType SizeType
Definition: itkGTestTypedefsAndConstructors.h:49
itkGDCMImageIO.h
itk::ImageFileReader
Data source that reads image data from a single file.
Definition: itkImageFileReader.h:75
itk::GTest::TypedefsAndConstructors::Dimension2::IndexType
ImageBaseType::IndexType IndexType
Definition: itkGTestTypedefsAndConstructors.h:50
itk::MetaDataDictionary
Provides a mechanism for storing a collection of arbitrary data types.
Definition: itkMetaDataDictionary.h:53
itkNumericSeriesFileNames.h
itk::Index::GetIndex
const IndexValueType * GetIndex() const
Definition: itkIndex.h:228
itk::GTest::TypedefsAndConstructors::Dimension2::RegionType
ImageBaseType::RegionType RegionType
Definition: itkGTestTypedefsAndConstructors.h:54
itk::GDCMImageIO
ImageIO class for reading and writing DICOM V3.0 and ACR/NEMA 1&2 uncompressed images....
Definition: itkGDCMImageIO.h:82
itkMetaDataObject.h
itk::NumericSeriesFileNames
Generate an ordered sequence of filenames.
Definition: itkNumericSeriesFileNames.h:54
itk::Image
Templated n-dimensional image class.
Definition: itkImage.h:86
itk::GTest::TypedefsAndConstructors::Dimension2::Dimension
constexpr unsigned int Dimension
Definition: itkGTestTypedefsAndConstructors.h:44
itk::Size::GetSize
const SizeValueType * GetSize() const
Definition: itkSize.h:169