#include <svkGEPFileMapperUCSF.h>

Inheritance diagram for svkGEPFileMapperUCSF:

Public Member Functions
	vtkTypeMacro (svkGEPFileMapperUCSF, svkGEPFileMapper)

Public Member Functions inherited from svkGEPFileMapper
	vtkTypeMacro (svkGEPFileMapper, vtkObject)

virtual void	InitializeDcmHeader (map< string, vector< string > > pfMap, svkDcmHeader header, float pfileVersion, int swapBytes, map< string, void > inputArgs)

virtual void	ReadData (vtkStringArray pFileNames, svkImageData data)

string	GetProgressText ()

void	SetProgressText (string progressText)

void	SetPfileName (string pfileName)

Static Public Member Functions
static svkGEPFileMapperUCSF *	New ()

Static Public Member Functions inherited from svkGEPFileMapper
static svkGEPFileMapper *	New ()

static string	ConvertGEDateToDICOM (string geDate)

Protected Member Functions
	svkGEPFileMapperUCSF ()

	~svkGEPFileMapperUCSF ()

virtual int	GetNumKSpacePoints ()

virtual bool	WasIndexSampled (int xIndex, int yIndex, int zIndex)

virtual void	InitSatBandsFromXML ()

Protected Member Functions inherited from svkGEPFileMapper
	svkGEPFileMapper ()

	~svkGEPFileMapper ()

void	InitPatientModule ()

void	InitGeneralStudyModule ()

void	InitGeneralSeriesModule ()

void	InitFrameOfReferenceModule ()

void	InitGeneralEquipmentModule ()

void	InitEnhancedGeneralEquipmentModule ()

virtual void	InitMultiFrameFunctionalGroupsModule ()

virtual void	InitAcquisitionContextModule ()

virtual void	InitMRSpectroscopyPulseSequenceModule ()

virtual void	InitSharedFunctionalGroupMacros ()

virtual void	InitPerFrameFunctionalGroupMacros ()

virtual void	InitPixelMeasuresMacro ()

virtual void	InitPlaneOrientationMacro ()

virtual void	InitMRSpectroscopyFrameTypeMacro ()

virtual void	InitMRTimingAndRelatedParametersMacro ()

virtual void	InitMRSpectroscopyFOVGeometryMacro ()

virtual void	InitMREchoMacro ()

virtual void	InitMRModifierMacro ()

virtual void	InitMRReceiveCoilMacro ()

virtual void	InitMRTransmitCoilMacro ()

virtual void	InitMRAveragesMacro ()

virtual void	InitMRSpatialSaturationMacro ()

virtual void	InitSatBand (float satRAS[3], float translation)

virtual void	InitMRSpectroscopyModule ()

virtual string	GetVolumeLocalizationTechnique ()

virtual void	InitVolumeLocalizationSeq ()

virtual void	InitMRSpectroscopyDataModule ()

virtual void	InitK0Sampled (svkDcmHeader *hdr)

virtual void	GetCenterFromRawFile (double *center)

virtual float	GetFrequencyOffset ()

int	GetNumVoxelsInVol ()

virtual void	GetNumVoxels (int numVoxels[3])

virtual void	GetVoxelSpacing (double voxelSpacing[3])

void	GetFOV (float fov[3])

int	GetNumCoils ()

int	GetNumFrames ()

virtual int	GetNumTimePoints ()

virtual int	GetNumDummyScans ()

virtual int	GetNumEPSIAcquisitions ()

bool	AddDummy (int offset, int coilNum, int timePt)

void	GetDcos (double dcos[3][3])

virtual float	GetPPMRef ()

bool	IsSwapOn ()

bool	Is2D ()

virtual bool	IsChopOn ()

virtual void	GetXYZIndices (int dataIndex, int x, int y, int *z)

void	UpdateProgress (double amount)

virtual void	ModifyBehavior (svkImageData *data)

void	RedimensionModifiedSVData (svkImageData *data)

virtual int	GetNumberUnsuppressedAcquisitions ()

virtual int	GetNumberSuppressedAcquisitions ()

virtual void	GetSelBoxCenter (double selBoxCenter[3])

virtual void	GetSelBoxSize (double selBoxSize[3])

void	SetCellSpectrum (vtkImageData *data, bool wasSampled, int offset, int index, int x, int y, int z, int timePoint=0, int channel=0)

virtual void	InitSpecTuple (int numFreqPts, int freqPt, float tuple, vtkDataArray dataArray)

int	GetHeaderValueAsInt (string key)

long long int	GetHeaderValueAsLongInt (string key)

float	GetHeaderValueAsFloat (string key)

string	GetHeaderValueAsString (string key)

bool	isInputArgSet (string argName)

bool	GetInputArgStringValue (string argName, string *argValue)

bool	GetInputArgBoolValue (string argName, bool *argValue)

virtual void	ReorderEPSI (svkMrsImageData *data)

string	GetNucleus ()

void	ModifyForPatientEntry (double dcos[3][3])

Additional Inherited Members
Public Types inherited from svkGEPFileMapper
enum	MapperBehavior { UNDEFINED = 0, LOAD_RAW, LOAD_RAW_UNSUPPRESSED, LOAD_RAW_SUPPRESSED, LOAD_AVG_UNSUPPRESSED, LOAD_AVG_SUPPRESSED, LOAD_EPSI }

Protected Attributes inherited from svkGEPFileMapper
string	progressText

map< string, vector< string > >	pfMap

svkDcmHeader *	dcmHeader

float	pfileVersion

int *	specData

svkDcmHeader::DcmDataOrderingDirection	dataSliceOrder

int	chopVal

map< string, void * >	inputArgs

int	swapBytes

svkMRSIOD *	iod

double	progress

string	pfileName

Detailed Description

Mapper from pfile header to DICOM IOD/SOP Class instance, overrides specific product logic with UCSF research sequence logic.

Constructor & Destructor Documentation

svkGEPFileMapperUCSF ( )

protected

~svkGEPFileMapperUCSF ( )

protected

Member Function Documentation

int GetNumKSpacePoints ( )

protectedvirtual

Determine the number of sampled k-space points in the data set. This may differ from the number of voxels in the rectalinear grid, for example if elliptical or another non rectangular acquisition sampling strategy was employed. GE product sequences pad the reduced k-space data with zeros so the number of k-space points is the same as the number of voxels, but that may not be true for custom sequences.

Reimplemented from svkGEPFileMapper.

References svkGEPFileMapper::GetHeaderValueAsFloat(), svkGEPFileMapper::GetHeaderValueAsInt(), svkGEPFileMapper::GetNumVoxels(), and svkGEPFileMapper::GetNumVoxelsInVol().

void InitSatBandsFromXML ( )

protectedvirtual

Add additional sat bands from XML dat file: if read_sats == 1, init the bands from *_box_satbands_atlasbased.dat if oct_sats == 1, then init the oct sats

Reimplemented from svkGEPFileMapper.

References svkSatBandsXML::ConvertDatToXML(), svkGEPFileMapper::dcmHeader, svkDcmHeader::ElementExists(), svkSatBandsXML::GetAutoSat(), svkDcmHeader::GetFloatSequenceItemElement(), svkSatBandsXML::GetNumberOfAutoSats(), svkGEPFileMapper::InitSatBand(), svkSatBandsXML::New(), svkGEPFileMapper::pfileName, and svkSatBandsXML::SetXMLFileName().

static svkGEPFileMapperUCSF* New ( )

static

vtkTypeMacro	(	svkGEPFileMapperUCSF	,
		svkGEPFileMapper
	)

bool WasIndexSampled	(	int	indexX,
		int	indexY,
		int	indexZ
	)

protectedvirtual

Determines whether a voxel (index) was sampled, or not, i.e. was it within the elliptical sampling volume if reduced k-space elliptical sampling was used. Could be extended to support other sparse sampling trajectories.

Reimplemented from svkGEPFileMapper.

References svkGEPFileMapper::GetHeaderValueAsFloat(), svkGEPFileMapper::GetHeaderValueAsInt(), and svkGEPFileMapper::GetNumVoxels().

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

Public Member Functions

Static Public Member Functions

Protected Member Functions

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation