vtkImageEMGeneral Class Reference

#include <vtkImageEMGeneral.h>

Inheritance diagram for vtkImageEMGeneral:

Public Member Functions
void	GEImageReader (vtkImageReader *VOLUME, const char FileName[], int Zmin, int Zmax, int ScalarType)
int	GEImageWriter (vtkImageData Volume, char FileName, int PrintFlag)
void *	GetPointerToVtkImageData (vtkImageData *Image, int DataType, int Ext[6])
void	PrintMatrix (double **mat, int yMax, int xMax)
void	PrintMatrix3D (double ***mat, int zMax, int yMax, int xMax)
void	PrintSelf (ostream &os, vtkIndent indent)
void	SetInputIndex (int index, vtkImageData *image)
	vtkTypeMacro (vtkImageEMGeneral, vtkObject)
Static Public Member Functions
static float	CalcSimularityMeasure (vtkImageData Image1, vtkImageData Image2, float val, int PrintRes)
static float	CalcSimularityMeasure (vtkImageData Image1, vtkImageData Image2, float val, int PrintRes, int BoundaryMin, int BoundaryMax)
static int	CalculateGaussLookupTable (double GaussLookupTable, double ValueTable, double InvCovMatrix, double InvSqrtDetCovMatrix, double ValueVec, int GaussTableIndex, int TableSize, int NumberOfInputImages, int index)
static void	CalculateLogMeanandLogCovariance (double mu, double Sigma, double LogMu, double LogSigma, int NumberOfClasses, int SequenceMax)
static int	CalculateLogMeanandLogCovariance (double Mu, double CovMatrix, double LogMu, double **LogCov, int NumberOfInputImages, int NumberOfClasses, int SequenceMax)
static double	CalculatingPJointDistribution (float x, int Vleft, double mu, double *inv_cov, double inv_sqrt_det_cov, int SequenceMax, int setvar, int numvar)
static double	determinant (double **mat, int dim)
static double	FastGauss (const double inverse_sigma, const double x)
static float	FastGauss2 (const double inverse_sqrt_det_covariance, const float x, const double mu, double **inv_cov, const int virtualDim)
static float	FastGaussMulti (const double inverse_sqrt_det_covariance, const float x, const double mu, double **inv_cov, const int realDim, const int virtualDim)
static float	FastGaussMulti (const double inverse_sqrt_det_covariance, const float x, const int dim)
static double	FastGaussTest (const double inverse_sigma, const double x)
static double	GeneralGauss (float x, double mu, double **inv_cov, double inv_sqrt_det_cov, int n)
static double	GeneralGauss (double x, double m, double s)
static int	InvertMatrix (double mat, double inv_mat, int dim)
static double	LookupGauss (double table, double lbound, double ubound, double resolution, double *value, int NumberOfInputImages)
static double	LookupGauss (double *table, double lbound, double ubound, double resolution, double value)
static void	MatrixVectorMulti (double *mat, double vec, double *res, int dim)
static vtkImageEMGeneral *	New ()
static FILE *	OpenTextFile (const char FileDir, const char FileName[], int Label, int LabelFlag, const char LevelName, int LevelNameFlag, int iter, int IterFlag, const char FileSucessMessage[], char OpenFileName[])
static void	SquareMatrix (double Input, double Output, int dim)
Protected Member Functions
void	DeleteVariables ()
void	TestMatrixFunctions (int MatrixDim, int iter)
void	ThreadedExecute (vtkImageData *vtkNotUsed(inData), vtkImageData vtkNotUsed(outData), int vtkNotUsed(outExt)[6], int vtkNotUsed(id))
	vtkImageEMGeneral ()
	~vtkImageEMGeneral ()
Static Protected Member Functions
static void	CalculateLogMeanandLogCovariance (double mu, double Sigma, double LogMu, double LogVariance, double *LogTestSequence, int NumberOfClasses, int SequenceMax)
static double	CalculateVectorMatrixVectorOperation (double *mat, double vec, int offY, int dimY, int offX, int dimX)
static void	convMatrix3D (double *mat3D, double *U, int mat3DZlen, int mat3DYlen, int mat3DXlen, double v[], int vLen)
static double	InnerproductWithMatrixX (double *mat, int posY, int posX, int dimX, double vec)
static double	InnerproductWithMatrixY (double vec, double *mat, int posY, int dimY, int posX)
Private Member Functions
void	operator= (const vtkImageEMGeneral &)
	vtkImageEMGeneral (const vtkImageEMGeneral &)

Constructor & Destructor Documentation

vtkImageEMGeneral::vtkImageEMGeneral ( ) [inline, protected]

vtkImageEMGeneral::~vtkImageEMGeneral ( ) [inline, protected]

vtkImageEMGeneral::vtkImageEMGeneral ( const vtkImageEMGeneral & ) [private]

Member Function Documentation

float vtkImageEMGeneral::CalcSimularityMeasure	(	vtkImageData *	Image1,
		vtkImageData *	Image2,
		float	val,
		int	PrintRes
	)			`[static]`

References New(), result, and vtkImageEMGeneral_CountLabel().

float vtkImageEMGeneral::CalcSimularityMeasure	(	vtkImageData *	Image1,
		vtkImageData *	Image2,
		float	val,
		int	PrintRes,
		int *	BoundaryMin,
		int *	BoundaryMax
	)			`[static]`

References New(), result, and vtkImageEMGeneral_CountLabel().

Referenced by vtkImageEMAtlasSegmenter::PrintIntermediateResultsToFile().

int vtkImageEMGeneral::CalculateGaussLookupTable	(	double *	GaussLookupTable,
		double **	ValueTable,
		double **	InvCovMatrix,
		double	InvSqrtDetCovMatrix,
		double *	ValueVec,
		int	GaussTableIndex,
		int	TableSize,
		int	NumberOfInputImages,
		int	index
	)			`[static]`

References CalculateVectorMatrixVectorOperation(), FastGauss(), FastGaussMulti(), InnerproductWithMatrixX(), and InnerproductWithMatrixY().

void vtkImageEMGeneral::CalculateLogMeanandLogCovariance	(	double *	mu,
		double *	Sigma,
		double *	LogMu,
		double *	LogVariance,
		double *	LogTestSequence,
		int	NumberOfClasses,
		int	SequenceMax
	)			`[static, protected]`

References FastGauss(), and j.

void vtkImageEMGeneral::CalculateLogMeanandLogCovariance	(	double *	mu,
		double *	Sigma,
		double *	LogMu,
		double *	LogSigma,
		int	NumberOfClasses,
		int	SequenceMax
	)			`[static]`

References CalculateLogMeanandLogCovariance(), and k.

int vtkImageEMGeneral::CalculateLogMeanandLogCovariance	(	double **	Mu,
		double ***	CovMatrix,
		double **	LogMu,
		double ***	LogCov,
		int	NumberOfInputImages,
		int	NumberOfClasses,
		int	SequenceMax
	)			`[static]`

References CalculatingPJointDistribution(), determinant(), InvertMatrix(), j, and k.

Referenced by CalculateLogMeanandLogCovariance(), and TestMatrixFunctions().

double vtkImageEMGeneral::CalculateVectorMatrixVectorOperation	(	double **	mat,
		double *	vec,
		int	offY,
		int	dimY,
		int	offX,
		int	dimX
	)			`[static, protected]`

References result.

Referenced by CalculateGaussLookupTable().

double vtkImageEMGeneral::CalculatingPJointDistribution	(	float *	x,
		int *	Vleft,
		double *	mu,
		double **	inv_cov,
		double	inv_sqrt_det_cov,
		int	SequenceMax,
		int	setvar,
		int	numvar
	)			`[static]`

References FastGauss(), FastGauss2(), and GeneralGauss().

Referenced by CalculateLogMeanandLogCovariance().

void vtkImageEMGeneral::convMatrix3D	(	double ***	mat3D,
		double ***	U,
		int	mat3DZlen,
		int	mat3DYlen,
		int	mat3DXlen,
		double	v[],
		int	vLen
	)			`[static, protected]`

References j, and k.

void vtkImageEMGeneral::DeleteVariables ( ) [protected]

Reimplemented in vtkImageEMAtlasSegmenter, and vtkImageEMLocalSegmenter.

double vtkImageEMGeneral::determinant	(	double **	mat,
		int	dim
	)			`[static]`

References j, k, and result.

Referenced by CalculateLogMeanandLogCovariance(), EMAtlasSegment_CalcWeightedCovariance(), InvertMatrix(), and TestMatrixFunctions().

double vtkImageEMGeneral::FastGauss	(	const double	inverse_sigma,
		const double	x
	)			`[inline, static]`

References EMSEGMENT_MINUS_ONE_OVER_2_LOG_2, EMSEGMENT_ONE_OVER_ROOT_2_PI, and vtkImageEMGeneral_qnexp2().

Referenced by CalculateGaussLookupTable(), CalculateLogMeanandLogCovariance(), CalculatingPJointDistribution(), FastGaussMulti(), and vtkImageEMAtlasAlgorithm().

float vtkImageEMGeneral::FastGauss2	(	const double	inverse_sqrt_det_covariance,
		const float *	x,
		const double *	mu,
		double **	inv_cov,
		const int	virtualDim
	)			`[inline, static]`

References EMSEGMENT_MINUS_ONE_OVER_2_LOG_2, EMSEGMENT_ONE_OVER_2_PI, EMSEGMENT_ONE_OVER_ROOT_2_PI, and vtkImageEMGeneral_qnexp2().

Referenced by CalculatingPJointDistribution(), and FastGaussMulti().

float vtkImageEMGeneral::FastGaussMulti	(	const double	inverse_sqrt_det_covariance,
		const float *	x,
		const double *	mu,
		double **	inv_cov,
		const int	realDim,
		const int	virtualDim
	)			`[inline, static]`

References FastGauss(), FastGauss2(), FastGaussMulti(), and j.

float vtkImageEMGeneral::FastGaussMulti	(	const double	inverse_sqrt_det_covariance,
		const float	x,
		const int	dim
	)			`[inline, static]`

References EMSEGMENT_MINUS_ONE_OVER_2_LOG_2, EMSEGMENT_ONE_OVER_ROOT_2_PI, and vtkImageEMGeneral_qnexp2().

Referenced by CalculateGaussLookupTable(), FastGaussMulti(), vtkEMAtlasSegment_ConditionalTissueProbability(), vtkImageEMAtlasAlgorithm(), and vtkImageEMAtlasSegmenter_MeanFieldApproximation3DPrivate().

double vtkImageEMGeneral::FastGaussTest	(	const double	inverse_sigma,
		const double	x
	)			`[inline, static]`

References EMSEGMENT_MINUS_ONE_OVER_2_LOG_2, EMSEGMENT_ONE_OVER_ROOT_2_PI, and vtkImageEMGeneral_qnexp2().

void vtkImageEMGeneral::GEImageReader	(	vtkImageReader *	VOLUME,
		const char	FileName[],
		int	Zmin,
		int	Zmax,
		int	ScalarType
	)

Referenced by vtkImageEMAtlasSegmenter::HierarchicalSegmentation().

int vtkImageEMGeneral::GEImageWriter	(	vtkImageData *	Volume,
		char *	FileName,
		int	PrintFlag
	)

References New(), and vtkFileOps_WriteToFlippedGEFile().

Referenced by vtkImageEMAtlasSegmenter::PrintIntermediateResultsToFile(), and vtkImageEMAtlasSegmenter_PrintDataToOutputExtension().

double vtkImageEMGeneral::GeneralGauss	(	float *	x,
		double *	mu,
		double **	inv_cov,
		double	inv_sqrt_det_cov,
		int	n
	)			`[static]`

References EMSEGMENT_ONE_OVER_ROOT_2_PI, and j.

double vtkImageEMGeneral::GeneralGauss	(	double	x,
		double	m,
		double	s
	)			`[static]`

References EMSEGMENT_ONE_OVER_ROOT_2_PI.

Referenced by CalculatingPJointDistribution().

void * vtkImageEMGeneral::GetPointerToVtkImageData	(	vtkImageData *	Image,
		int	DataType,
		int	Ext[6]
	)

Referenced by vtkImageEMAtlasSegmenter::HierarchicalSegmentation().

double vtkImageEMGeneral::InnerproductWithMatrixX	(	double **	mat,
		int	posY,
		int	posX,
		int	dimX,
		double *	vec
	)			`[static, protected]`

References result.

Referenced by CalculateGaussLookupTable().

double vtkImageEMGeneral::InnerproductWithMatrixY	(	double *	vec,
		double **	mat,
		int	posY,
		int	dimY,
		int	posX
	)			`[static, protected]`

References result.

Referenced by CalculateGaussLookupTable().

int vtkImageEMGeneral::InvertMatrix	(	double **	mat,
		double **	inv_mat,
		int	dim
	)			`[static]`

References determinant().

Referenced by CalculateLogMeanandLogCovariance(), EMAtlasSegment_CalcWeightedCovariance(), and vtkImageEMAtlasAlgorithm().

double vtkImageEMGeneral::LookupGauss	(	double *	table,
		double *	lbound,
		double *	ubound,
		double *	resolution,
		double *	value,
		int	NumberOfInputImages
	)			`[static]`

References EMSEGMENT_TABLE_SIZE_MULTI.

double vtkImageEMGeneral::LookupGauss	(	double *	table,
		double	lbound,
		double	ubound,
		double	resolution,
		double	value
	)			`[static]`

void vtkImageEMGeneral::MatrixVectorMulti	(	double **	mat,
		double *	vec,
		double *	res,
		int	dim
	)			`[static]`

vtkImageEMGeneral * vtkImageEMGeneral::New ( ) [static]

Reimplemented in vtkImageEMAtlasSegmenter, and vtkImageEMLocalSegmenter.

References autoSlicerTracto2regions::ret.

Referenced by CalcSimularityMeasure(), and GEImageWriter().

FILE * vtkImageEMGeneral::OpenTextFile	(	const char *	FileDir,
		const char	FileName[],
		int	Label,
		int	LabelFlag,
		const char *	LevelName,
		int	LevelNameFlag,
		int	iter,
		int	IterFlag,
		const char	FileSucessMessage[],
		char	OpenFileName[]
	)			`[static]`

References FILE, fopen, and vtkFileOps::makeDirectoryIfNeeded().

void vtkImageEMGeneral::operator= ( const vtkImageEMGeneral & ) [private]

Reimplemented in vtkImageEMAtlasSegmenter, and vtkImageEMLocalSegmenter.

void vtkImageEMGeneral::PrintMatrix	(	double **	mat,
		int	yMax,
		int	xMax
	)

Referenced by TestMatrixFunctions().

void vtkImageEMGeneral::PrintMatrix3D	(	double ***	mat,
		int	zMax,
		int	yMax,
		int	xMax
	)

Referenced by TestMatrixFunctions().

void vtkImageEMGeneral::PrintSelf	(	ostream &	os,
		vtkIndent	indent
	)			`[inline]`

Reimplemented in vtkImageEMAtlasSegmenter, and vtkImageEMLocalSegmenter.

void vtkImageEMGeneral::SetInputIndex	(	int	index,
		vtkImageData *	image
	)			`[inline]`

void vtkImageEMGeneral::SquareMatrix	(	double **	Input,
		double **	Output,
		int	dim
	)			`[static]`

References j, and k.

Referenced by TestMatrixFunctions().

void vtkImageEMGeneral::TestMatrixFunctions	(	int	MatrixDim,
		int	iter
	)			`[protected]`

References CalculateLogMeanandLogCovariance(), determinant(), j, k, slicerget::name, PrintMatrix(), PrintMatrix3D(), SquareMatrix(), and vtkFileOps::WriteMatrixMatlabFile().

void vtkImageEMGeneral::ThreadedExecute	(	vtkImageData **	vtkNotUsedinData,
		vtkImageData *	vtkNotUsedoutData,
		int	vtkNotUsed(outExt)[6],
		int	vtkNotUsedid
	)			`[inline, protected]`

vtkImageEMGeneral::vtkTypeMacro	(	vtkImageEMGeneral	,
		vtkObject
	)

Reimplemented in vtkImageEMAtlasSegmenter, and vtkImageEMLocalSegmenter.

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

Modules/EMSegment/Algorithm/vtkImageEMGeneral.h
Modules/EMSegment/Algorithm/vtkImageEMGeneral.cxx

vtkImageEMGeneral Class Reference

Public Member Functions

Static Public Member Functions

Protected Member Functions

Static Protected Member Functions

Private Member Functions

Constructor & Destructor Documentation

Member Function Documentation