#include <svkEPSIReorder.h>

Inheritance diagram for svkEPSIReorder:

Public Types
enum	EPSIType { UNDEFINED_EPSI_TYPE = 0, FLYBACK, SYMMETRIC, INTERLEAVED }

enum	EPSIAxis { UNDEFINED_EPSI_AXIS = -1, COLS, ROWS, SLICES }

Public Member Functions
	vtkTypeMacro (svkEPSIReorder, svkImageInPlaceFilter)

void	SetEPSIType (svkEPSIReorder::EPSIType epsiType)

void	SetNumEPSILobes (int numLobes)

void	SetNumSamplesPerLobe (int numSamples)

int	GetNumSamplesPerLobe ()

void	SetFirstSample (int firstSample)

void	SetNumSamplesToSkip (int numSamplesToSkip)

void	SetEPSIAxis (svkEPSIReorder::EPSIAxis epsiAxis)

svkEPSIReorder::EPSIAxis	GetEPSIAxis ()

virtual int	GetNumEPSIAcquisitions ()

virtual int	GetNumEPSIAcquisitionsPerFID ()

virtual int	GetNumEPSIFrequencyPoints ()

Public Member Functions inherited from svkImageInPlaceFilter
	vtkTypeMacro (svkImageInPlaceFilter, vtkImageInPlaceFilter)

svkImageData *	GetOutput ()

svkImageData *	GetOutput (int port)

svkImageData *	GetImageDataInput (int port)

Static Public Member Functions
static svkEPSIReorder *	New ()

static void	CombineLobes (svkImageData *data)

Protected Member Functions
	svkEPSIReorder ()

	~svkEPSIReorder ()

virtual int	FillInputPortInformation (int port, vtkInformation *info)

virtual int	RequestData (vtkInformation request, vtkInformationVector inputVector, vtkInformationVector outputVector)

Protected Member Functions inherited from svkImageInPlaceFilter
	svkImageInPlaceFilter ()

	~svkImageInPlaceFilter ()

virtual int	FillOutputPortInformation (int vtkNotUsed(port), vtkInformation *info)

virtual int	FillInputPortInformation (int vtkNotUsed(port), vtkInformation *info)

Detailed Description

This class reorders the EPSI dimension of an EPSI MRS acquisition.

Member Enumeration Documentation

enum EPSIAxis

Enumerator
UNDEFINED_EPSI_AXIS
COLS
ROWS
SLICES

enum EPSIType

Enumerator
UNDEFINED_EPSI_TYPE
FLYBACK
SYMMETRIC
INTERLEAVED

Constructor & Destructor Documentation

svkEPSIReorder ( )

protected

Constructor. Initialize any member variables.

References svkEPSIReorder::UNDEFINED_EPSI_AXIS, svkEPSIReorder::UNDEFINED_EPSI_TYPE, UNDEFINED_NUM_LOBES, and UNDEFINED_NUM_SAMPLES.

~svkEPSIReorder ( )

protected

Clean up any allocated member variables.

Member Function Documentation

void CombineLobes ( svkImageData * data )

static

Static method to compute sum of squares combination of lobes

References svkDcmHeader::EPSI_ACQ_INDEX, svk4DImageData::GetArrayName(), svkDcmHeader::GetCellIDFromDimensionVectorIndex(), svkImageData::GetDcmHeader(), svkDcmHeader::GetDimensionIndexVector(), svkDcmHeader::GetDimensionVectorIndexFromCellID(), svkDcmHeader::GetDimensionVectorValue(), svkDcmHeader::GetIntValue(), svkDcmHeader::GetNumberOfCells(), loopVector, svkDcmHeader::RemoveDimensionIndex(), and svkDcmHeader::SetDimensionVectorValue().

int FillInputPortInformation	(	int	port,
		vtkInformation *	info
	)

protectedvirtual

Set the input data type, e.g. svkMrsImageData for an MRS algorithm.

svkEPSIReorder::EPSIAxis GetEPSIAxis ( )

Get the axis index corresponding to the EPSI encoding (0,1 or 2).

int GetNumEPSIAcquisitions ( )

virtual

Virtual method that returns the number of acquisitions in the sequence. For example symmetric EPSI contains 2, one during the positive gradient and one during the negative gradient.

References svkEPSIReorder::FLYBACK, svkEPSIReorder::INTERLEAVED, svkEPSIReorder::SYMMETRIC, and svkEPSIReorder::UNDEFINED_EPSI_TYPE.

int GetNumEPSIAcquisitionsPerFID ( )

virtual

Virtual method that returns the number of acquisitions in each FID 1, except for symmetric which has interleaved pos/neg lobes.

References svkEPSIReorder::FLYBACK, svkEPSIReorder::INTERLEAVED, svkEPSIReorder::SYMMETRIC, and svkEPSIReorder::UNDEFINED_EPSI_TYPE.

int GetNumEPSIFrequencyPoints ( )

virtual

Virtual method that returns the number of spec frequency points in the acquisition. May be reimplemented for specific EPSI acquisitions.

References svkEPSIReorder::FLYBACK, svkEPSIReorder::INTERLEAVED, svkEPSIReorder::SYMMETRIC, and svkEPSIReorder::UNDEFINED_EPSI_TYPE.

int GetNumSamplesPerLobe ( )

Get the number of lobes in the EPSI acquisition. If the number of samples per lobe has not been explicitly set via SetNumEPSISamplesPerLobe, then infer it by dividing the number of samples in the entire EPSI waveform by the number of lobes.

References svkImageData::GetDcmHeader(), svkImageInPlaceFilter::GetImageDataInput(), svkDcmHeader::GetIntValue(), UNDEFINED_NUM_LOBES, and UNDEFINED_NUM_SAMPLES.

static svkEPSIReorder* New ( )

static

Referenced by svkGEPFileMapper::ReorderEPSI().

int RequestData	(	vtkInformation *	request,
		vtkInformationVector **	inputVector,
		vtkInformationVector *	outputVector
	)

protectedvirtual

This method is called during pipeline execution. Calculates the 2D array of linear phase correction factors, which are a function of the epsi k-space index, as well as the spectral index. Applies these to all spectra in data set to generate a rectilinear spectral/spatial (k-space, time-domain) data set.

References svkImageInPlaceFilter::GetImageDataInput(), svkEPSIReorder::UNDEFINED_EPSI_AXIS, svkEPSIReorder::UNDEFINED_EPSI_TYPE, and UNDEFINED_NUM_LOBES.

void SetEPSIAxis ( svkEPSIReorder::EPSIAxis epsiAxis )

Set the axis index corresponding to the EPSI encoding (0,1 or 2).

Referenced by svkGEPFileMapper::ReorderEPSI().

void SetEPSIType ( svkEPSIReorder::EPSIType epsiType )

Set the type of EPSI sequence

Referenced by svkGEPFileMapper::ReorderEPSI().

void SetFirstSample ( int firstSample )

Set the first sample to read when reordering the EPSI data. A few samples may be skipped at the begining. To include the first point set to 0 (default).

Referenced by svkGEPFileMapper::ReorderEPSI().

void SetNumEPSILobes ( int numLobes )

Set the number of lobes in the EPSI acquisition

Referenced by svkGEPFileMapper::ReorderEPSI().

void SetNumSamplesPerLobe ( int numSamplesPerLobe )

Set the number of lobes in the EPSI acquisition

void SetNumSamplesToSkip ( int numSamplesToSkip )

Set the number of samples to skip between lobes. Different from the initial offset (firstSample). This is 0 by default.

Referenced by svkGEPFileMapper::ReorderEPSI().