vtkImageEMAtlasSegmenter Class Reference

#include <vtkImageEMAtlasSegmenter.h>

Inheritance diagram for vtkImageEMAtlasSegmenter:
vtkImageEMGeneral vtkImageMultipleInputFilter

List of all members.

Public Member Functions

vtkImageEMAtlasSuperClass * GetActiveSuperClass ()
int GetDimensionX ()
int GetDimensionY ()
int GetDimensionZ ()
int GetErrorFlag ()
ProtocolMessages * GetErrorMessagePtr ()
char * GetErrorMessages ()
int * GetExtent ()
vtkImageEMAtlasSuperClass * GetHeadClass ()
int GetNumInputImages ()
int * GetSegmentationBoundaryMax ()
int * GetSegmentationBoundaryMin ()
int GetWarningFlag ()
ProtocolMessages * GetWarningMessagePtr ()
char * GetWarningMessages ()
int HierarchicalSegmentation (vtkImageEMAtlasSuperClass *head, float **InputVector, short *ROI, short *OutputVector, EMTriVolume &iv_m, EMVolume *r_m, char *LevelName)
int MF_Approx_Workpile (float **w_m_input, unsigned char *MapVector, float *cY_M, int imgXY, double ***InvLogCov, double *InvSqrtDetLogCov, int NumTotalTypeCLASS, int *NumChildClasses, int NumClasses, void **ProbDataPtr, int *ProbDataIncY, int *ProbDataIncZ, float *ProbDataWeight, float *ProbDataMinusWeight, double **LogMu, double *TissueProbability, int *VirtualNumInputImages, vtkImageEMAtlasSuperClass *head, float **_m_output)
void PrintIntermediateResultsToFile (int iter, float **w_m, short *ROI, unsigned char *OutputVector, int NumTotalTypeCLASS, int *NumChildClasses, vtkImageEMAtlasSuperClass *actSupCl, char *LevelName, void **ClassList, classType *ClassListType, int *LabelList, FILE **QualityFile)
void PrintSelf (ostream &os, vtkIndent indent)
void PrintSuperClass ()
void ResetErrorMessage ()
void ResetWarningMessage ()
void SetHeadClass (vtkImageEMAtlasSuperClass *InitHead)
void SetImageInput (int index, vtkImageData *image)
void SetNumberOfTrainingSamples (int Number)
void SetNumInputImages (int number)
 vtkGetMacro (ImageProd, int)
 vtkGetMacro (NumberOfTrainingSamples, int)
 vtkGetMacro (SmoothingSigma, int)
 vtkGetMacro (SmoothingWidth, int)
 vtkGetMacro (Alpha, double)
 vtkGetMacro (NumRegIter, int)
 vtkGetMacro (NumIter, int)
 vtkGetStringMacro (PrintDir)
 vtkSetMacro (SmoothingSigma, int)
 vtkSetMacro (SmoothingWidth, int)
 vtkSetMacro (Alpha, double)
 vtkSetMacro (NumRegIter, int)
 vtkSetMacro (NumIter, int)
 vtkSetStringMacro (PrintDir)
 vtkTypeMacro (vtkImageEMAtlasSegmenter, vtkObject)

Static Public Member Functions

static void DetermineLabelMap (short *LabelMap, int NumTotalTypeCLASS, int *NumChildClasses, vtkImageEMAtlasSuperClass *head, short *ROI, int ImageMax, float **w_m)
static vtkImageEMAtlasSegmenter * New ()

Protected Member Functions

int CheckInputImage (vtkImageData *inData, int DataTypeOrig, vtkFloatingPointType DataSpacingOrig[3], int num)
void DeleteVariables ()
void ExecuteData (vtkDataObject *)
void operator= (const vtkImageEMAtlasSegmenter &)
void ResetMessageSettings ()
 vtkImageEMAtlasSegmenter (const vtkImageEMAtlasSegmenter &)
 vtkImageEMAtlasSegmenter ()
 ~vtkImageEMAtlasSegmenter ()

Protected Attributes

void * activeClass
classType activeClassType
vtkImageEMAtlasSuperClass * activeSuperClass
double Alpha
ProtocolMessages ErrorMessage
int Extent [6]
vtkImageEMAtlasSuperClass * HeadClass
int ImageProd
int NumberOfTrainingSamples
int NumInputImages
int NumIter
int NumRegIter
char * PrintDir
int SmoothingSigma
int SmoothingWidth
ProtocolMessages WarningMessage

Constructor & Destructor Documentation

vtkImageEMAtlasSegmenter::vtkImageEMAtlasSegmenter (  )  [protected]

References activeClass, activeClassType, activeSuperClass, Alpha, Extent, HeadClass, ImageProd, NumberOfTrainingSamples, NumInputImages, NumIter, NumRegIter, PrintDir, SmoothingSigma, SmoothingWidth, and SUPERCLASS.

vtkImageEMAtlasSegmenter::vtkImageEMAtlasSegmenter ( const vtkImageEMAtlasSegmenter &   )  [inline, protected]
vtkImageEMAtlasSegmenter::~vtkImageEMAtlasSegmenter (  )  [protected]

References DeleteVariables().

Member Function Documentation

int vtkImageEMAtlasSegmenter::CheckInputImage ( vtkImageData *  inData,
int  DataTypeOrig,
vtkFloatingPointType  DataSpacingOrig[3],
int  num 
) [protected]

References Extent, GetErrorFlag(), min, New(), vtkEMAddErrorMessage, and vtkFloatingPointType.

Referenced by ExecuteData().

void vtkImageEMAtlasSegmenter::DeleteVariables (  )  [protected]

Reimplemented from vtkImageEMGeneral.

References activeClass, activeSuperClass, NumInputImages, and PrintDir.

Referenced by ~vtkImageEMAtlasSegmenter().

void vtkImageEMAtlasSegmenter::DetermineLabelMap ( short *  LabelMap,
int  NumTotalTypeCLASS,
int *  NumChildClasses,
vtkImageEMAtlasSuperClass *  head,
short *  ROI,
int  ImageMax,
float **  w_m 
) [static]

References CLASS, exit, vtkImageEMAtlasSuperClass::GetClassList(), vtkImageEMAtlasSuperClass::GetClassListType(), vtkImageEMAtlasSuperClass::GetNumClasses(), and k.

Referenced by HierarchicalSegmentation(), and PrintIntermediateResultsToFile().

void vtkImageEMAtlasSegmenter::ExecuteData ( vtkDataObject *   )  [protected]

References CheckInputImage(), Dimension, Extent, GetDimensionX(), GetDimensionY(), GetDimensionZ(), vtkImageEMGenericClass::GetErrorFlag(), vtkImageEMGenericClass::GetErrorMessages(), GetSegmentationBoundaryMax(), GetSegmentationBoundaryMin(), vtkImageEMGenericClass::GetWarningFlag(), vtkImageEMGenericClass::GetWarningMessages(), HeadClass, ImageProd, NumberOfTrainingSamples, NumInputImages, PrintSelf(), ResetErrorMessage(), ResetWarningMessage(), vtkEMAddErrorMessage, vtkEMAddWarningMessage, vtkImageEMAtlasSegmenterExecute(), and vtkImageEMAtlasSegmenterReadInputChannel().

vtkImageEMAtlasSuperClass* vtkImageEMAtlasSegmenter::GetActiveSuperClass (  )  [inline]
int vtkImageEMAtlasSegmenter::GetDimensionX (  ) 

References HeadClass, and vtkEMAddErrorMessage.

Referenced by ExecuteData(), MF_Approx_Workpile(), PrintIntermediateResultsToFile(), and vtkImageEMAtlasSegmenter_TransfereDataToOutputExtension().

int vtkImageEMAtlasSegmenter::GetDimensionY (  ) 

References HeadClass, and vtkEMAddErrorMessage.

Referenced by ExecuteData(), MF_Approx_Workpile(), PrintIntermediateResultsToFile(), and vtkImageEMAtlasSegmenter_TransfereDataToOutputExtension().

int vtkImageEMAtlasSegmenter::GetDimensionZ (  ) 

References HeadClass, and vtkEMAddErrorMessage.

Referenced by ExecuteData(), PrintIntermediateResultsToFile(), and vtkImageEMAtlasSegmenter_TransfereDataToOutputExtension().

int vtkImageEMAtlasSegmenter::GetErrorFlag (  )  [inline]

References ErrorMessage().

Referenced by CheckInputImage().

ProtocolMessages* vtkImageEMAtlasSegmenter::GetErrorMessagePtr (  )  [inline]

References ErrorMessage().

char* vtkImageEMAtlasSegmenter::GetErrorMessages (  )  [inline]

References ErrorMessage().

int* vtkImageEMAtlasSegmenter::GetExtent (  )  [inline]

Referenced by vtkImageEMAtlasSegmenter_PrintDataToOutputExtension(), and vtkImageEMAtlasSegmenter_TransfereDataToOutputExtension().

vtkImageEMAtlasSuperClass* vtkImageEMAtlasSegmenter::GetHeadClass (  )  [inline]

Referenced by HierarchicalSegmentation().

int vtkImageEMAtlasSegmenter::GetNumInputImages (  )  [inline]
int * vtkImageEMAtlasSegmenter::GetSegmentationBoundaryMax (  ) 

References HeadClass, and vtkEMAddErrorMessage.

Referenced by ExecuteData(), and PrintIntermediateResultsToFile().

int * vtkImageEMAtlasSegmenter::GetSegmentationBoundaryMin (  ) 

References HeadClass, and vtkEMAddErrorMessage.

Referenced by ExecuteData(), PrintIntermediateResultsToFile(), vtkImageEMAtlasSegmenter_PrintDataToOutputExtension(), and vtkImageEMAtlasSegmenter_TransfereDataToOutputExtension().

int vtkImageEMAtlasSegmenter::GetWarningFlag (  )  [inline]

References WarningMessage().

ProtocolMessages* vtkImageEMAtlasSegmenter::GetWarningMessagePtr (  )  [inline]

References WarningMessage().

char* vtkImageEMAtlasSegmenter::GetWarningMessages (  )  [inline]

References WarningMessage().

int vtkImageEMAtlasSegmenter::HierarchicalSegmentation ( vtkImageEMAtlasSuperClass *  head,
float **  InputVector,
short *  ROI,
short *  OutputVector,
EMTriVolume &  iv_m,
EMVolume *  r_m,
char *  LevelName 
)

References activeSuperClass, CLASS, DetermineLabelMap(), Extent, vtkImageEMGeneral::GEImageReader(), vtkImageEMAtlasSuperClass::GetClassList(), vtkImageEMAtlasSuperClass::GetClassListType(), GetHeadClass(), vtkImageEMAtlasSuperClass::GetNumClasses(), vtkImageEMGeneral::GetPointerToVtkImageData(), vtkImageEMAtlasSuperClass::GetProbDataPtr(), vtkImageEMAtlasSuperClass::GetProbDataWeight(), vtkImageEMAtlasSuperClass::GetTotalNumberOfClasses(), ImageProd, New(), SUPERCLASS, vtkEMAddWarningMessage, and vtkImageEMAtlasAlgorithm().

int vtkImageEMAtlasSegmenter::MF_Approx_Workpile ( float **  w_m_input,
unsigned char *  MapVector,
float *  cY_M,
int  imgXY,
double ***  InvLogCov,
double *  InvSqrtDetLogCov,
int  NumTotalTypeCLASS,
int *  NumChildClasses,
int  NumClasses,
void **  ProbDataPtr,
int *  ProbDataIncY,
int *  ProbDataIncZ,
float *  ProbDataWeight,
float *  ProbDataMinusWeight,
double **  LogMu,
double *  TissueProbability,
int *  VirtualNumInputImages,
vtkImageEMAtlasSuperClass *  head,
float **  _m_output 
)

References Alpha, EMAtlas_MF_Approximation_Work_Private::Alpha, EMAtlas_MF_Approximation_Work_Private::cY_M, EMAtlas_MF_Approximation_Work_Private::EndVoxel, GetDimensionX(), GetDimensionY(), vtkImageEMAtlasSuperClass::GetMrfParams(), EMAtlas_MF_Approximation_Work_Private::id, ImageProd, EMAtlas_MF_Approximation_Work_Private::imgX, EMAtlas_MF_Approximation_Work_Private::imgXY, EMAtlas_MF_Approximation_Work_Private::imgY, EMAtlas_MF_Approximation_Work_Private::InvLogCov, EMAtlas_MF_Approximation_Work_Private::InvSqrtDetLogCov, j, EMAtlas_MF_Approximation_Work_Private::LogMu, EMAtlas_MF_Approximation_Work_Private::MapVector, MAXMFAPPROXIMATIONWORKERTHREADS, EMAtlas_MF_Approximation_Work_Private::MrfParams, EMAtlas_MF_Approximation_Work_Private::NumChildClasses, EMAtlas_MF_Approximation_Work_Private::NumClasses, EMAtlas_MF_Approximation_Work_Private::NumInputImages, NumInputImages, EMAtlas_MF_Approximation_Work_Private::NumTotalTypeCLASS, EMAtlas_MF_Approximation_Work_Private::ProbDataIncY, EMAtlas_MF_Approximation_Work_Private::ProbDataIncZ, EMAtlas_MF_Approximation_Work_Private::ProbDataMinusWeight, EMAtlas_MF_Approximation_Work_Private::ProbDataPtr, EMAtlas_MF_Approximation_Work_Private::ProbDataType, EMAtlas_MF_Approximation_Work_Private::ProbDataWeight, EMAtlas_MF_Approximation_Work_Private::StartVoxel, EMAtlas_MF_Approximation_Work_Private::TissueProbability, EMAtlas_MF_Approximation_Work_Private::VirtualNumInputImages, vtkImageEMAtlasSegmenter_MeanFieldApproximation3DThreadPrivate(), EMAtlas_MF_Approximation_Work_Private::w_m_input, and EMAtlas_MF_Approximation_Work_Private::w_m_output.

vtkImageEMAtlasSegmenter * vtkImageEMAtlasSegmenter::New (  )  [static]

Reimplemented from vtkImageEMGeneral.

References autoSlicerTracto2regions::ret.

Referenced by CheckInputImage(), HierarchicalSegmentation(), and PrintIntermediateResultsToFile().

void vtkImageEMAtlasSegmenter::operator= ( const vtkImageEMAtlasSegmenter &   )  [inline, protected]

Reimplemented from vtkImageEMGeneral.

void vtkImageEMAtlasSegmenter::PrintIntermediateResultsToFile ( int  iter,
float **  w_m,
short *  ROI,
unsigned char *  OutputVector,
int  NumTotalTypeCLASS,
int *  NumChildClasses,
vtkImageEMAtlasSuperClass *  actSupCl,
char *  LevelName,
void **  ClassList,
classType *  ClassListType,
int *  LabelList,
FILE **  QualityFile 
)

References Console::c, vtkImageEMGeneral::CalcSimularityMeasure(), CLASS, DetermineLabelMap(), EMSEGMENT_NUM_OF_QUALITY_MEASURE, Extent, fprintf, vtkImageEMGeneral::GEImageWriter(), GetDimensionX(), GetDimensionY(), GetDimensionZ(), vtkImageEMAtlasSuperClass::GetNumClasses(), GetSegmentationBoundaryMax(), GetSegmentationBoundaryMin(), ImageProd, vtkFileOps::makeDirectoryIfNeeded(), New(), NumInputImages, PrintDir, SUPERCLASS, vtkEMAddErrorMessage, vtkImageEMAtlasSegmenter_GetPointerToVtkImageData(), vtkImageEMAtlasSegmenter_PrintDataToOutputExtension(), and vtkImageEMAtlasSegmenter_TransfereDataToOutputExtension().

void vtkImageEMAtlasSegmenter::PrintSelf ( ostream &  os,
vtkIndent  indent 
)

Reimplemented from vtkImageEMGeneral.

References activeClass, activeClassType, activeSuperClass, Alpha, CLASS, Extent, HeadClass, NumberOfTrainingSamples, NumInputImages, NumIter, NumRegIter, PrintDir, vtkImageEMAtlasSuperClass::PrintSelf(), SmoothingSigma, and SmoothingWidth.

Referenced by ExecuteData().

void vtkImageEMAtlasSegmenter::PrintSuperClass (  )  [inline]
void vtkImageEMAtlasSegmenter::ResetErrorMessage (  )  [inline]

References ErrorMessage().

Referenced by ExecuteData().

void vtkImageEMAtlasSegmenter::ResetMessageSettings (  )  [protected]
void vtkImageEMAtlasSegmenter::ResetWarningMessage (  )  [inline]

References WarningMessage().

Referenced by ExecuteData().

void vtkImageEMAtlasSegmenter::SetHeadClass ( vtkImageEMAtlasSuperClass *  InitHead  )  [inline]

References vtkImageEMGenericClass::GetErrorFlag(), and SUPERCLASS.

void vtkImageEMAtlasSegmenter::SetImageInput ( int  index,
vtkImageData *  image 
) [inline]
void vtkImageEMAtlasSegmenter::SetNumberOfTrainingSamples ( int  Number  )  [inline]
void vtkImageEMAtlasSegmenter::SetNumInputImages ( int  number  ) 

References NumInputImages, and vtkEMAddErrorMessage.

vtkImageEMAtlasSegmenter::vtkGetMacro ( ImageProd  ,
int   
)
vtkImageEMAtlasSegmenter::vtkGetMacro ( NumberOfTrainingSamples  ,
int   
)
vtkImageEMAtlasSegmenter::vtkGetMacro ( SmoothingSigma  ,
int   
)
vtkImageEMAtlasSegmenter::vtkGetMacro ( SmoothingWidth  ,
int   
)
vtkImageEMAtlasSegmenter::vtkGetMacro ( Alpha  ,
double   
)
vtkImageEMAtlasSegmenter::vtkGetMacro ( NumRegIter  ,
int   
)
vtkImageEMAtlasSegmenter::vtkGetMacro ( NumIter  ,
int   
)
vtkImageEMAtlasSegmenter::vtkGetStringMacro ( PrintDir   ) 
vtkImageEMAtlasSegmenter::vtkSetMacro ( SmoothingSigma  ,
int   
)
vtkImageEMAtlasSegmenter::vtkSetMacro ( SmoothingWidth  ,
int   
)
vtkImageEMAtlasSegmenter::vtkSetMacro ( Alpha  ,
double   
)
vtkImageEMAtlasSegmenter::vtkSetMacro ( NumRegIter  ,
int   
)
vtkImageEMAtlasSegmenter::vtkSetMacro ( NumIter  ,
int   
)
vtkImageEMAtlasSegmenter::vtkSetStringMacro ( PrintDir   ) 
vtkImageEMAtlasSegmenter::vtkTypeMacro ( vtkImageEMAtlasSegmenter  ,
vtkObject   
)

Reimplemented from vtkImageEMGeneral.

Member Data Documentation

void* vtkImageEMAtlasSegmenter::activeClass [protected]

Referenced by DeleteVariables(), PrintSelf(), and vtkImageEMAtlasSegmenter().

classType vtkImageEMAtlasSegmenter::activeClassType [protected]

Referenced by PrintSelf(), and vtkImageEMAtlasSegmenter().

vtkImageEMAtlasSuperClass* vtkImageEMAtlasSegmenter::activeSuperClass [protected]

Referenced by DeleteVariables(), HierarchicalSegmentation(), PrintSelf(), and vtkImageEMAtlasSegmenter().

double vtkImageEMAtlasSegmenter::Alpha [protected]

Referenced by MF_Approx_Workpile(), PrintSelf(), and vtkImageEMAtlasSegmenter().

ProtocolMessages vtkImageEMAtlasSegmenter::ErrorMessage [protected]
int vtkImageEMAtlasSegmenter::Extent[6] [protected]

Referenced by CheckInputImage(), ExecuteData(), HierarchicalSegmentation(), PrintIntermediateResultsToFile(), PrintSelf(), and vtkImageEMAtlasSegmenter().

vtkImageEMAtlasSuperClass* vtkImageEMAtlasSegmenter::HeadClass [protected]

Referenced by ExecuteData(), GetDimensionX(), GetDimensionY(), GetDimensionZ(), GetSegmentationBoundaryMax(), GetSegmentationBoundaryMin(), PrintSelf(), and vtkImageEMAtlasSegmenter().

int vtkImageEMAtlasSegmenter::ImageProd [protected]

Referenced by ExecuteData(), HierarchicalSegmentation(), MF_Approx_Workpile(), PrintIntermediateResultsToFile(), and vtkImageEMAtlasSegmenter().

int vtkImageEMAtlasSegmenter::NumberOfTrainingSamples [protected]

Referenced by ExecuteData(), PrintSelf(), and vtkImageEMAtlasSegmenter().

int vtkImageEMAtlasSegmenter::NumInputImages [protected]

Referenced by DeleteVariables(), ExecuteData(), MF_Approx_Workpile(), PrintIntermediateResultsToFile(), PrintSelf(), SetNumInputImages(), and vtkImageEMAtlasSegmenter().

int vtkImageEMAtlasSegmenter::NumIter [protected]

Referenced by PrintSelf(), and vtkImageEMAtlasSegmenter().

int vtkImageEMAtlasSegmenter::NumRegIter [protected]

Referenced by PrintSelf(), and vtkImageEMAtlasSegmenter().

char* vtkImageEMAtlasSegmenter::PrintDir [protected]

Referenced by DeleteVariables(), PrintIntermediateResultsToFile(), PrintSelf(), and vtkImageEMAtlasSegmenter().

int vtkImageEMAtlasSegmenter::SmoothingSigma [protected]

Referenced by PrintSelf(), and vtkImageEMAtlasSegmenter().

int vtkImageEMAtlasSegmenter::SmoothingWidth [protected]

Referenced by PrintSelf(), and vtkImageEMAtlasSegmenter().

ProtocolMessages vtkImageEMAtlasSegmenter::WarningMessage [protected]
The documentation for this class was generated from the following files:
Generated on 6 Apr 2011 for Slicer3 by  doxygen 1.6.1