[Insight-users] 4d support itkGDCMImageIO multifile MRI non-enhanced

[Jose Ignacio Prieto]

Hi all,

I don't know if this is an itk or gdcm issue. When I try to load a file of
20 frames and 100 slices per frame, using the pipe exposed here, the itk
object has dimension [288,288,2000,1] instead of [288,288,100,20]
The problem to me seems to be that in the file itkImageSeriesReader.hxx
line 185 says :
dimSize[this->m_NumberOfDimensionsInImage] = m_FileNames.size();
and because every image is 2D, then dimSize[2]=2000.

I think there may be a connection between itkGDCMImageIO and
itkImageSeriesReader, that always thinks that it is a 3D volume and never
checks the 0018,1060 tag.

Here is the gdcmdump of the series:
https://www.dropbox.com/s/bxytgpt0gprhuly/gdcmdump.txt


What can I do?

Thanks.

Pipeline:

typedef unsigned short    PixelType;
const unsigned int      Dimension3 = 3;
const unsigned int      Dimension4 = 4;

const PixelType lowerThreshold = atoi( argv[7] );

typedef itk::Image< PixelType, Dimension3>         ImageType3D;
typedef itk::Image< PixelType, Dimension4 >         ImageType;


typedef itk::ImageSeriesReader< ImageType >        ReaderType;
ReaderType::Pointer reader = ReaderType::New();

typedef itk::GDCMImageIO       ImageIOType;
ImageIOType::Pointer dicomIO = ImageIOType::New();

reader->SetImageIO( dicomIO );
typedef itk::GDCMSeriesFileNames NamesGeneratorType;
NamesGeneratorType::Pointer nameGenerator = NamesGeneratorType::New();

nameGenerator->SetDirectory( argv[9]);

typedef std::vector< std::string >    SeriesIdContainer;
const SeriesIdContainer & seriesUID = nameGenerator->GetSeriesUIDs()
;
SeriesIdContainer::const_iterator seriesItr = seriesUID.begin();
SeriesIdContainer::const_iterator seriesEnd = seriesUID.end();
std::string seriesIdentifier;
seriesIdentifier = seriesUID.begin()->c_str();
typedef std::vector< std::string >   FileNamesContainer;
FileNamesContainer fileNames;
fileNames = nameGenerator->GetFileNames( seriesIdentifier );
reader->SetFileNames( fileNames );
reader->Update();


-- 
José Ignacio Prieto
celular(nuevo): 94348182
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