diff --git a/Modules/DiffusionImaging/Quantification/IODataStructures/TbssImages/mitkNrrdTbssImageWriter.cpp b/Modules/DiffusionImaging/Quantification/IODataStructures/TbssImages/mitkNrrdTbssImageWriter.cpp index c7ab1ff07e..a790432044 100644 --- a/Modules/DiffusionImaging/Quantification/IODataStructures/TbssImages/mitkNrrdTbssImageWriter.cpp +++ b/Modules/DiffusionImaging/Quantification/IODataStructures/TbssImages/mitkNrrdTbssImageWriter.cpp @@ -1,119 +1,160 @@ /*=================================================================== The Medical Imaging Interaction Toolkit (MITK) Copyright (c) German Cancer Research Center, Division of Medical and Biological Informatics. All rights reserved. This software is distributed WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See LICENSE.txt or http://www.mitk.org for details. ===================================================================*/ #ifndef __mitkNrrdTbssImageWriter__cpp #define __mitkNrrdTbssImageWriter__cpp #include "mitkNrrdTbssImageWriter.h" #include "itkMetaDataDictionary.h" #include "itkMetaDataObject.h" #include "itkNrrdImageIO.h" //#include "itkNiftiImageIO.h" #include "itkImageFileWriter.h" #include "itksys/SystemTools.hxx" #include "boost/lexical_cast.hpp" #include #include mitk::NrrdTbssImageWriter::NrrdTbssImageWriter() : m_FileName(""), m_FilePrefix(""), m_FilePattern(""), m_Success(false) { this->SetNumberOfRequiredInputs( 1 ); } mitk::NrrdTbssImageWriter::~NrrdTbssImageWriter() {} void mitk::NrrdTbssImageWriter::GenerateData() { m_Success = false; InputType* input = this->GetInput(); if (input == NULL) { itkWarningMacro(<<"Sorry, input to NrrdTbssImageWriter is NULL!"); return; } if ( m_FileName == "" ) { itkWarningMacro( << "Sorry, filename has not been set!" ); return ; } itk::VectorImage::Pointer img = input->GetImage(); + + + std::string key; + std::string val; + + + /* For the case of a tbss image containing data of the patients: + Save info about the groups and the type of measurement */ + + + + + std::vector< std::pair > groups = input->GetGroupInfo(); + std::vector< std::pair >::iterator it = groups.begin(); + + int i=0; + while(it != groups.end()) + { + std::pair p = *it; + + key = "Group_index_" + boost::lexical_cast(i); + val = " " + p.first + " " + boost::lexical_cast(p.second); + //sprintf( keybuffer, "Group_index_%04d", std::string(i) ); + // sprintf( valbuffer, "%1d %1d", p.first, p.second); + + //std::cout << valbuffer << std::endl; + + //itk::EncapsulateMetaData< std::string >(input->GetImage()->GetMetaDataDictionary(),std::string(keybuffer),std::string(valbuffer)); + itk::EncapsulateMetaData< std::string >(input->GetImage()->GetMetaDataDictionary(),key,val); + it++; + ++i; + } + + key = "Measurement info"; + val = input->GetMeasurementInfo(); + itk::EncapsulateMetaData< std::string >(input->GetImage()->GetMetaDataDictionary(),key,val); + + + + + typedef itk::VectorImage ImageType; itk::NrrdImageIO::Pointer io = itk::NrrdImageIO::New(); io->SetFileType( itk::ImageIOBase::Binary ); io->UseCompressionOn(); typedef itk::ImageFileWriter WriterType; WriterType::Pointer nrrdWriter = WriterType::New(); nrrdWriter->UseInputMetaDataDictionaryOn(); nrrdWriter->SetInput( img ); nrrdWriter->SetImageIO(io); nrrdWriter->SetFileName(m_FileName); nrrdWriter->UseCompressionOn(); nrrdWriter->SetImageIO(io); try { nrrdWriter->Update(); } catch (itk::ExceptionObject e) { std::cout << e << std::endl; } m_Success = true; } void mitk::NrrdTbssImageWriter::SetInput( InputType* tbssVol ) { this->ProcessObject::SetNthInput( 0, tbssVol ); } mitk::TbssImage* mitk::NrrdTbssImageWriter::GetInput() { if ( this->GetNumberOfInputs() < 1 ) { return NULL; } else { return dynamic_cast ( this->ProcessObject::GetInput( 0 ) ); } } std::vector mitk::NrrdTbssImageWriter::GetPossibleFileExtensions() { std::vector possibleFileExtensions; possibleFileExtensions.push_back(".tbss"); return possibleFileExtensions; } #endif //__mitkNrrdTbssImageWriter__cpp