#include <mitkNrrdTensorImageReader.h>

Inheritance diagram for mitk::NrrdTensorImageReader:

Collaboration diagram for mitk::NrrdTensorImageReader:

Public Types
typedef mitk::TensorImage	OutputType
typedef mitk::TensorImageSource	DTImgSourceType
typedef NrrdTensorImageReader	Self
typedef DTImgSourceType	Superclass
typedef itk::SmartPointer< Self >	Pointer
typedef itk::SmartPointer < const Self >	ConstPointer
Public Member Functions
virtual const char *	GetClassName () const
const char *	GetFileName () const
	Get the specified the file to load.
void	SetFileName (const char *aFileName)
	Specify the file to load.
const char *	GetFilePrefix () const
	Get the specified file prefix for the file(s) to load.
void	SetFilePrefix (const char *aFilePrefix)
	Specify file prefix for the file(s) to load.
const char *	GetFilePattern () const
	Get the specified file pattern for the file(s) to load. The sprintf format used to build filename from FilePrefix and number.
void	SetFilePattern (const char *aFilePattern)
	Specified file pattern for the file(s) to load. The sprintf format used to build filename from FilePrefix and number.
Static Public Member Functions
static Pointer	New ()
	Method for creation through the object factory.
static bool	CanReadFile (const std::string filename, const std::string filePrefix, const std::string filePattern)
Protected Member Functions
virtual void	GenerateData ()
virtual void	GenerateOutputInformation ()
Protected Attributes
std::string	m_FileName
std::string	m_FilePrefix
std::string	m_FilePattern

Detailed Description

Definition at line 35 of file mitkNrrdTensorImageReader.h.

Member Typedef Documentation

typedef itk::SmartPointer<const Self> mitk::NrrdTensorImageReader::ConstPointer

Reimplemented from mitk::TensorImageSource.

Definition at line 42 of file mitkNrrdTensorImageReader.h.

typedef mitk::TensorImageSource mitk::NrrdTensorImageReader::DTImgSourceType

Definition at line 40 of file mitkNrrdTensorImageReader.h.

typedef mitk::TensorImage mitk::NrrdTensorImageReader::OutputType

Definition at line 39 of file mitkNrrdTensorImageReader.h.

typedef itk::SmartPointer<Self> mitk::NrrdTensorImageReader::Pointer

Reimplemented from mitk::TensorImageSource.

Definition at line 42 of file mitkNrrdTensorImageReader.h.

typedef NrrdTensorImageReader mitk::NrrdTensorImageReader::Self

Reimplemented from mitk::TensorImageSource.

Definition at line 42 of file mitkNrrdTensorImageReader.h.

typedef DTImgSourceType mitk::NrrdTensorImageReader::Superclass

Reimplemented from mitk::TensorImageSource.

Definition at line 42 of file mitkNrrdTensorImageReader.h.

Member Function Documentation

bool mitk::NrrdTensorImageReader::CanReadFile	(	const std::string	filename,
		const std::string	filePrefix,
		const std::string	filePattern
	)		`[static]`

Definition at line 143 of file mitkNrrdTensorImageReader.cpp.

  {
    // First check the extension
    if(  filename == "" )
    {
      return false;
    }
    std::string ext = itksys::SystemTools::GetFilenameLastExtension(filename);
    ext = itksys::SystemTools::LowerCase(ext);

    if (ext == ".hdti" || ext == ".dti")
    {
      return true;
    }

    return false;
  }

void mitk::NrrdTensorImageReader::GenerateData ( ) [protected, virtual]

Does the real work.

Reimplemented from mitk::ImageSource.

Definition at line 33 of file mitkNrrdTensorImageReader.cpp.

  {    
    if ( m_FileName == "") 
    {
      throw itk::ImageFileReaderException(__FILE__, __LINE__, "Sorry, the filename is empty!");
    }
    else
    {
      try
      {
        typedef itk::VectorImage<float,3> ImageType;
        itk::NrrdImageIO::Pointer io = itk::NrrdImageIO::New();
        typedef itk::ImageFileReader<ImageType> FileReaderType;
        FileReaderType::Pointer reader = FileReaderType::New();
        reader->SetImageIO(io);
        reader->SetFileName(this->m_FileName);
        reader->Update();
        ImageType::Pointer img = reader->GetOutput();

        typedef itk::Image<itk::DiffusionTensor3D<float>,3> VecImgType;
        VecImgType::Pointer vecImg = VecImgType::New();
        vecImg->SetSpacing( img->GetSpacing() );   // Set the image spacing
        vecImg->SetOrigin( img->GetOrigin() );     // Set the image origin
        vecImg->SetDirection( img->GetDirection() );  // Set the image direction
        vecImg->SetRegions( img->GetLargestPossibleRegion());
        vecImg->Allocate();

        itk::ImageRegionIterator<VecImgType> ot (vecImg, vecImg->GetLargestPossibleRegion() );
        ot = ot.Begin();

        itk::ImageRegionIterator<ImageType> it (img, img->GetLargestPossibleRegion() );
        it = it.Begin();

        typedef ImageType::PixelType  VarPixType;
        typedef VecImgType::PixelType FixPixType;

        while (!it.IsAtEnd())
        {
          VarPixType vec = it.Get();
          FixPixType fixVec(vec.GetDataPointer());
          ot.Set(fixVec);
          ++ot;
          ++it;
        }

        this->GetOutput()->InitializeByItk(vecImg.GetPointer());
        this->GetOutput()->SetVolume(vecImg->GetBufferPointer());

      }
      catch(std::exception& e)
      {
        throw itk::ImageFileReaderException(__FILE__, __LINE__, e.what());                    
      }
      catch(...)
      {
        throw itk::ImageFileReaderException(__FILE__, __LINE__, "Sorry, an error occurred while reading the requested DTI file!");
      }
    }
  }

void mitk::NrrdTensorImageReader::GenerateOutputInformation ( void ) [protected, virtual]

Definition at line 93 of file mitkNrrdTensorImageReader.cpp.

  {

  }

virtual const char* mitk::NrrdTensorImageReader::GetClassName ( ) const [virtual]

Reimplemented from mitk::TensorImageSource.

const char * mitk::NrrdTensorImageReader::GetFileName ( ) const [virtual]

Get the specified the file to load.

Either the FileName or FilePrefix plus FilePattern are used to read.

Implements mitk::FileReader.

Definition at line 101 of file mitkNrrdTensorImageReader.cpp.

  {
    return m_FileName.c_str();
  }

const char * mitk::NrrdTensorImageReader::GetFilePattern ( ) const [virtual]

Get the specified file pattern for the file(s) to load. The sprintf format used to build filename from FilePrefix and number.

You should specify either a FileName or FilePrefix. Use FilePrefix if the data is stored in multiple files.

Implements mitk::FileReader.

Definition at line 129 of file mitkNrrdTensorImageReader.cpp.

  {
    return m_FilePattern.c_str();
  }

const char * mitk::NrrdTensorImageReader::GetFilePrefix ( ) const [virtual]

Get the specified file prefix for the file(s) to load.

You should specify either a FileName or FilePrefix. Use FilePrefix if the data is stored in multiple files.

Implements mitk::FileReader.

Definition at line 115 of file mitkNrrdTensorImageReader.cpp.

  {
    return m_FilePrefix.c_str();
  }

static Pointer mitk::NrrdTensorImageReader::New ( ) [static]

Method for creation through the object factory.

Reimplemented from mitk::TensorImageSource.

void mitk::NrrdTensorImageReader::SetFileName ( const char * aFileName ) [virtual]

Specify the file to load.

Either the FileName or FilePrefix plus FilePattern are used to read.

Implements mitk::FileReader.

Definition at line 108 of file mitkNrrdTensorImageReader.cpp.

  {
    m_FileName = aFileName;
  }

void mitk::NrrdTensorImageReader::SetFilePattern ( const char * aFilePattern ) [virtual]

Specified file pattern for the file(s) to load. The sprintf format used to build filename from FilePrefix and number.

You should specify either a FileName or FilePrefix. Use FilePrefix if the data is stored in multiple files.

Implements mitk::FileReader.

Definition at line 136 of file mitkNrrdTensorImageReader.cpp.

  {
    m_FilePattern = aFilePattern;
  }

void mitk::NrrdTensorImageReader::SetFilePrefix ( const char * aFilePrefix ) [virtual]

Specify file prefix for the file(s) to load.

You should specify either a FileName or FilePrefix. Use FilePrefix if the data is stored in multiple files.

Implements mitk::FileReader.

Definition at line 122 of file mitkNrrdTensorImageReader.cpp.

  {
    m_FilePrefix = aFilePrefix;
  }

Member Data Documentation

std::string mitk::NrrdTensorImageReader::m_FileName [protected]

Definition at line 60 of file mitkNrrdTensorImageReader.h.

std::string mitk::NrrdTensorImageReader::m_FilePattern [protected]

Definition at line 62 of file mitkNrrdTensorImageReader.h.

std::string mitk::NrrdTensorImageReader::m_FilePrefix [protected]

Definition at line 61 of file mitkNrrdTensorImageReader.h.

The documentation for this class was generated from the following files:

mitk::NrrdTensorImageReader Class Reference

Public Types

Public Member Functions

Static Public Member Functions

Protected Member Functions

Protected Attributes

Detailed Description

Member Typedef Documentation

Member Function Documentation

Member Data Documentation