#include <itkRGBGibbsPriorFilter.h>

Inheritance diagram for itk::RGBGibbsPriorFilter< TInputImage, TClassifiedImage >:

Collaboration diagram for itk::RGBGibbsPriorFilter< TInputImage, TClassifiedImage >:

Detailed Description

template<class TInputImage, class TClassifiedImage>
class itk::RGBGibbsPriorFilter< TInputImage, TClassifiedImage >

The RGBGibbsPriorFilter applies Gibbs Prior model for the segmentation of MRF images.

The core of the method is based on the minimization of a Gibbsian energy function. This energy function f can be divided into three part: f = f_1 + f_2 + f_3; f_1 is related to the object homogeneity, f_2 is related to the boundary smoothness, f_3 is related to the constraint of the observation (or the noise model). The two force components f_1 and f_3 are minimized by the GradientEnergy method while f_2 is minized by the GibbsTotalEnergy method.

This filter only works with 3D images.

Definition at line 47 of file itkRGBGibbsPriorFilter.h.

Public Types
typedef TClassifiedImage	ClassifiedImageType

typedef ImageClassifierBase < TInputImage, TClassifiedImage >	ClassifierType

typedef SmartPointer< const Self >	ConstPointer

typedef TInputImage::IndexType	IndexType

typedef Superclass::IndexValueType	IndexValueType

typedef TInputImage::ConstPointer	InputImageConstPointer

typedef Superclass::InputImagePixelType	InputImagePixelType

typedef TInputImage::Pointer	InputImagePointer

typedef Superclass::InputImageRegionConstIterator	InputImageRegionConstIterator

typedef Superclass::InputImageRegionIterator	InputImageRegionIterator

typedef TInputImage	InputImageType

typedef TInputImage::PixelType	InputImageVecType

typedef TInputImage::PixelType	InputPixelType

typedef TClassifiedImage::IndexType	LabelledImageIndexType

typedef Superclass::LabelledImagePixelType	LabelledImagePixelType

typedef Superclass::LabelledImageRegionIterator	LabelledImageRegionIterator

typedef TClassifiedImage::Pointer	LabelledImageType

typedef unsigned int	LabelType

typedef vnl_matrix< double >	MatrixType

typedef SmartPointer< Self >	Pointer

typedef RGBGibbsPriorFilter	Self

typedef MRFImageFilter < TInputImage, TClassifiedImage >	Superclass

typedef TClassifiedImage::Pointer	TrainingImageType

Public Types inherited from itk::MRFImageFilter< TInputImage, TClassifiedImage >
typedef ImageClassifierBase < TInputImage, TClassifiedImage >	ClassifierType

typedef SmartPointer< const Self >	ConstPointer

typedef LabelledImageIndexType::IndexValueType	IndexValueType

typedef TInputImage::ConstPointer	InputImageConstPointer

typedef InputImageFaceListType::iterator	InputImageFaceListIterator

typedef InputImageFacesCalculator::FaceListType	InputImageFaceListType

typedef NeighborhoodAlgorithm::ImageBoundaryFacesCalculator < TInputImage >	InputImageFacesCalculator

typedef ConstNeighborhoodIterator < TInputImage >	InputImageNeighborhoodIterator

typedef InputImageNeighborhoodIterator::RadiusType	InputImageNeighborhoodRadiusType

typedef TInputImage::PixelType	InputImagePixelType

typedef TInputImage::Pointer	InputImagePointer

typedef ImageRegionConstIterator < TInputImage >	InputImageRegionConstIterator

typedef ImageRegionIterator < TInputImage >	InputImageRegionIterator

typedef TInputImage::RegionType	InputImageRegionType

typedef TInputImage	InputImageType

typedef LabelledImageFaceListType::iterator	LabelledImageFaceListIterator

typedef LabelledImageFacesCalculator::FaceListType	LabelledImageFaceListType

typedef NeighborhoodAlgorithm::ImageBoundaryFacesCalculator < TClassifiedImage >	LabelledImageFacesCalculator

typedef TClassifiedImage::IndexType	LabelledImageIndexType

typedef NeighborhoodIterator < TClassifiedImage >	LabelledImageNeighborhoodIterator

typedef LabelledImageNeighborhoodIterator::RadiusType	LabelledImageNeighborhoodRadiusType

typedef TClassifiedImage::OffsetType	LabelledImageOffsetType

typedef TClassifiedImage::PixelType	LabelledImagePixelType

typedef TClassifiedImage::Pointer	LabelledImagePointer

typedef ImageRegionIterator < TClassifiedImage >	LabelledImageRegionIterator

typedef TClassifiedImage::RegionType	LabelledImageRegionType

typedef TInputImage::SizeType	NeighborhoodRadiusType

typedef Superclass::OutputImagePointer	OutputImagePointer

typedef SmartPointer< Self >	Pointer

typedef MRFImageFilter	Self

typedef TInputImage::SizeType	SizeType

enum	StopConditionType { MaximumNumberOfIterations = 1, ErrorTolerance }

typedef ImageToImageFilter < TInputImage, TClassifiedImage >	Superclass

typedef TClassifiedImage::PixelType	TrainingImagePixelType

typedef TClassifiedImage::Pointer	TrainingImagePointer

Public Types inherited from itk::ImageToImageFilter< TInputImage, TClassifiedImage >
typedef SmartPointer< const Self >	ConstPointer

typedef InputImageType::ConstPointer	InputImageConstPointer

typedef InputImageType::PixelType	InputImagePixelType

typedef InputImageType::Pointer	InputImagePointer

typedef InputImageType::RegionType	InputImageRegionType

typedef TInputImage	InputImageType

typedef Superclass::OutputImagePixelType	OutputImagePixelType

typedef Superclass::OutputImageRegionType	OutputImageRegionType

typedef SmartPointer< Self >	Pointer

typedef ImageToImageFilter	Self

typedef ImageSource < TClassifiedImage >	Superclass

Public Types inherited from itk::ImageSource< TClassifiedImage >
typedef SmartPointer< const Self >	ConstPointer

typedef Superclass::DataObjectIdentifierType	DataObjectIdentifierType

typedef DataObject::Pointer	DataObjectPointer

typedef Superclass::DataObjectPointerArraySizeType	DataObjectPointerArraySizeType

typedef OutputImageType::PixelType	OutputImagePixelType

typedef OutputImageType::Pointer	OutputImagePointer

typedef OutputImageType::RegionType	OutputImageRegionType

typedef TClassifiedImage	OutputImageType

typedef SmartPointer< Self >	Pointer

typedef ImageSource	Self

typedef ProcessObject	Superclass

Public Types inherited from itk::ProcessObject
typedef SmartPointer< const Self >	ConstPointer

typedef DataObject::DataObjectIdentifierType	DataObjectIdentifierType

typedef DataObject::Pointer	DataObjectPointer

typedef std::vector < DataObjectPointer >	DataObjectPointerArray

typedef DataObjectPointerArray::size_type	DataObjectPointerArraySizeType

typedef std::vector < DataObjectIdentifierType >	NameArray

typedef SmartPointer< Self >	Pointer

typedef ProcessObject	Self

typedef Object	Superclass

Public Types inherited from itk::Object
typedef SmartPointer< const Self >	ConstPointer

typedef SmartPointer< Self >	Pointer

typedef Object	Self

typedef LightObject	Superclass

Public Types inherited from itk::LightObject
typedef SmartPointer< const Self >	ConstPointer

typedef SmartPointer< Self >	Pointer

typedef LightObject	Self

Public Member Functions
virtual ::itk::LightObject::Pointer	CreateAnother (void) const

LabelledImageType	GetLabelledImage ()

virtual unsigned int	GetMaximumNumberOfIterations () const

virtual const char *	GetNameOfClass () const

virtual unsigned int	GetNumberOfClasses () const

virtual void	SetBoundaryGradient (unsigned int _arg)

void	SetClassifier (typename ClassifierType::Pointer ptrToClassifier)

virtual void	SetClusterSize (unsigned int _arg)

void	SetLabelledImage (LabelledImageType LabelledImage)

virtual void	SetMaximumNumberOfIterations (unsigned int _arg)

virtual void	SetNumberOfClasses (unsigned int _arg)

virtual void	SetObjectLabel (LabelType _arg)

virtual void	SetObjectThreshold (double _arg)

virtual void	SetStartPoint (IndexType _arg)

void	SetTrainingImage (TrainingImageType image)


virtual void	SetCliqueWeight_1 (double _arg)

virtual double	GetCliqueWeight_1 () const

virtual void	SetCliqueWeight_2 (double _arg)

virtual double	GetCliqueWeight_2 () const

virtual void	SetCliqueWeight_3 (double _arg)

virtual double	GetCliqueWeight_3 () const

virtual void	SetCliqueWeight_4 (double _arg)

virtual double	GetCliqueWeight_4 () const

virtual void	SetCliqueWeight_5 (double _arg)

virtual double	GetCliqueWeight_5 () const

virtual void	SetCliqueWeight_6 (double _arg)

virtual double	GetCliqueWeight_6 () const

Public Member Functions inherited from itk::MRFImageFilter< TInputImage, TClassifiedImage >
virtual std::vector< double >	GetMRFNeighborhoodWeight ()

const NeighborhoodRadiusType	GetNeighborhoodRadius () const

virtual const unsigned int &	GetNumberOfIterations ()

virtual const StopConditionType &	GetStopCondition ()

void	SetClassifier (typename ClassifierType::Pointer ptrToClassifier)

virtual void	SetMRFNeighborhoodWeight (std::vector< double > BetaMatrix)

void	SetNeighborhoodRadius (const NeighborhoodRadiusType &)

void	SetNeighborhoodRadius (const SizeValueType)

void	SetNeighborhoodRadius (const SizeValueType *radiusArray)

	typedef (Concept::Convertible< unsigned int, LabelledImagePixelType >) UnsignedIntConvertibleToClassifiedCheck

	typedef (Concept::Convertible< LabelledImagePixelType, unsigned int >) ClassifiedConvertibleToUnsignedIntCheck

	typedef (Concept::Convertible< LabelledImagePixelType, int >) ClassifiedConvertibleToIntCheck

	typedef (Concept::Convertible< int, LabelledImagePixelType >) IntConvertibleToClassifiedCheck

	typedef (Concept::SameDimension< InputImageDimension, ClassifiedImageDimension >) SameDimensionCheck

virtual void	SetErrorTolerance (double _arg)

virtual double	GetErrorTolerance () const

virtual void	SetSmoothingFactor (double _arg)

virtual double	GetSmoothingFactor () const

Public Member Functions inherited from itk::ImageToImageFilter< TInputImage, TClassifiedImage >
virtual double	GetCoordinateTolerance ()

const InputImageType *	GetInput (void) const

const InputImageType *	GetInput (unsigned int idx) const

virtual void	PopBackInput ()

virtual void	PopFrontInput ()

virtual void	PushBackInput (const InputImageType *image)

virtual void	PushFrontInput (const InputImageType *image)

virtual void	SetCoordinateTolerance (double _arg)

virtual void	SetInput (const InputImageType *image)

virtual void	SetInput (unsigned int, const TInputImage *image)

virtual void	SetDirectionTolerance (double _arg)

virtual double	GetDirectionTolerance ()

Public Member Functions inherited from itk::ImageSource< TClassifiedImage >
OutputImageType *	GetOutput (unsigned int idx)

virtual void	GraftNthOutput (unsigned int idx, DataObject *output)

virtual void	GraftOutput (DataObject *output)

virtual void	GraftOutput (const DataObjectIdentifierType &key, DataObject *output)

OutputImageType *	GetOutput (void)

const OutputImageType *	GetOutput (void) const

virtual ProcessObject::DataObjectPointer	MakeOutput (ProcessObject::DataObjectPointerArraySizeType idx)

Public Member Functions inherited from itk::ProcessObject
virtual void	AbortGenerateDataOff ()

virtual void	AbortGenerateDataOn ()

virtual const bool &	GetAbortGenerateData ()

NameArray	GetInputNames () const

MultiThreader *	GetMultiThreader () const

DataObjectPointerArraySizeType	GetNumberOfIndexedInputs () const

DataObjectPointerArraySizeType	GetNumberOfInputs () const

DataObjectPointerArraySizeType	GetNumberOfOutputs () const

virtual DataObjectPointerArraySizeType	GetNumberOfValidRequiredInputs () const

NameArray	GetOutputNames () const

virtual const float &	GetProgress ()

NameArray	GetRequiredInputNames () const

bool	HasInput (const DataObjectIdentifierType &key) const

bool	HasOutput (const DataObjectIdentifierType &key) const

virtual DataObjectPointer	MakeOutput (const DataObjectIdentifierType &)

virtual void	PrepareOutputs ()

virtual void	PropagateRequestedRegion (DataObject *output)

virtual void	ResetPipeline ()

virtual void	SetAbortGenerateData (bool _arg)

virtual void	SetProgress (float _arg)

virtual void	Update ()

virtual void	UpdateLargestPossibleRegion ()

virtual void	UpdateOutputData (DataObject *output)

virtual void	UpdateOutputInformation ()

void	UpdateProgress (float amount)

DataObjectPointerArray	GetInputs ()

DataObjectPointerArray	GetOutputs ()

DataObjectPointerArray	GetIndexedInputs ()

DataObjectPointerArray	GetIndexedOutputs ()

DataObjectPointerArraySizeType	GetNumberOfIndexedOutputs () const

virtual void	SetReleaseDataFlag (bool flag)

virtual bool	GetReleaseDataFlag () const

void	ReleaseDataFlagOn ()

void	ReleaseDataFlagOff ()

virtual void	SetReleaseDataBeforeUpdateFlag (bool _arg)

virtual const bool &	GetReleaseDataBeforeUpdateFlag ()

virtual void	ReleaseDataBeforeUpdateFlagOn ()

virtual void	ReleaseDataBeforeUpdateFlagOff ()

virtual void	SetNumberOfThreads (ThreadIdType _arg)

virtual const ThreadIdType &	GetNumberOfThreads ()

Public Member Functions inherited from itk::Object
unsigned long	AddObserver (const EventObject &event, Command *)

unsigned long	AddObserver (const EventObject &event, Command *) const

virtual void	DebugOff () const

virtual void	DebugOn () const

Command *	GetCommand (unsigned long tag)

bool	GetDebug () const

MetaDataDictionary &	GetMetaDataDictionary (void)

const MetaDataDictionary &	GetMetaDataDictionary (void) const

virtual ModifiedTimeType	GetMTime () const

virtual const TimeStamp &	GetTimeStamp () const

bool	HasObserver (const EventObject &event) const

void	InvokeEvent (const EventObject &)

void	InvokeEvent (const EventObject &) const

virtual void	Modified () const

virtual void	Register () const

void	RemoveAllObservers ()

void	RemoveObserver (unsigned long tag)

void	SetDebug (bool debugFlag) const

void	SetMetaDataDictionary (const MetaDataDictionary &rhs)

virtual void	SetReferenceCount (int)

virtual void	UnRegister () const

Public Member Functions inherited from itk::LightObject
virtual void	Delete ()

virtual int	GetReferenceCount () const

	itkCloneMacro (Self)

void	Print (std::ostream &os, Indent indent=0) const

Static Public Member Functions
static Pointer	New ()

Static Public Member Functions inherited from itk::MRFImageFilter< TInputImage, TClassifiedImage >
static Pointer	New ()

Static Public Attributes
static const unsigned int	ImageDimension = TInputImage::ImageDimension

Static Public Attributes inherited from itk::MRFImageFilter< TInputImage, TClassifiedImage >
static const unsigned int	ClassifiedImageDimension = TClassifiedImage::ImageDimension

static const unsigned int	InputImageDimension = TInputImage::ImageDimension

Static Public Attributes inherited from itk::ImageToImageFilter< TInputImage, TClassifiedImage >
static const unsigned int	InputImageDimension

static const unsigned int	OutputImageDimension

Static Public Attributes inherited from itk::ImageSource< TClassifiedImage >
static const unsigned int	OutputImageDimension

Protected Member Functions
virtual void	ApplyGibbsLabeller ()

virtual void	ApplyGPImageFilter ()

virtual void	GenerateData ()

virtual void	MinimizeFunctional ()

void	PrintSelf (std::ostream &os, Indent indent) const

	RGBGibbsPriorFilter ()

	typedef (Concept::SameDimension< itkGetStaticConstMacro(InputImageType::ImageDimension), itkGetStaticConstMacro(ClassifiedImageType::ImageDimension) >) SameDimension

	typedef (Concept::SameDimension< itkGetStaticConstMacro(InputImageType::ImageDimension), 3 >) DimensionShouldBe3

	~RGBGibbsPriorFilter ()

Protected Member Functions inherited from itk::MRFImageFilter< TInputImage, TClassifiedImage >
void	Allocate ()

virtual void	ApplyMRFImageFilter ()

virtual void	DoNeighborhoodOperation (const InputImageNeighborhoodIterator &imageIter, LabelledImageNeighborhoodIterator &labelledIter, LabelStatusImageNeighborhoodIterator &labelStatusIter)

virtual void	EnlargeOutputRequestedRegion (DataObject *)

virtual void	GenerateInputRequestedRegion ()

virtual void	GenerateOutputInformation ()

	MRFImageFilter ()

	~MRFImageFilter ()

Protected Member Functions inherited from itk::ImageToImageFilter< TInputImage, TClassifiedImage >
virtual void	CallCopyInputRegionToOutputRegion (OutputImageRegionType &destRegion, const InputImageRegionType &srcRegion)

virtual void	CallCopyOutputRegionToInputRegion (InputImageRegionType &destRegion, const OutputImageRegionType &srcRegion)

virtual void	VerifyInputInformation ()

void	PushBackInput (const DataObject *input)

void	PushFrontInput (const DataObject *input)

	ImageToImageFilter ()

	~ImageToImageFilter ()

Protected Member Functions inherited from itk::ImageSource< TClassifiedImage >
virtual void	AfterThreadedGenerateData ()

virtual void	AllocateOutputs ()

virtual void	BeforeThreadedGenerateData ()

	ImageSource ()

virtual unsigned int	SplitRequestedRegion (unsigned int i, unsigned int num, OutputImageRegionType &splitRegion)

virtual void	ThreadedGenerateData (const OutputImageRegionType &outputRegionForThread, ThreadIdType threadId)

virtual	~ImageSource ()

Protected Member Functions inherited from itk::ProcessObject
virtual void	AddInput (DataObject *input)

virtual void	AddOutput (DataObject *output)

bool	AddRequiredInputName (const DataObjectIdentifierType &)

virtual void	CacheInputReleaseDataFlags ()

virtual void	GenerateOutputRequestedRegion (DataObject *output)

virtual const DataObjectPointerArraySizeType &	GetNumberOfRequiredOutputs ()

bool	IsIndexedInputName (const DataObjectIdentifierType &) const

bool	IsIndexedOutputName (const DataObjectIdentifierType &) const

bool	IsRequiredInputName (const DataObjectIdentifierType &) const

	itkLegacyMacro (virtual void RemoveInput(DataObject *input))

	itkLegacyMacro (virtual void RemoveOutput(DataObject *output))

	itkLegacyMacro (void SetNumberOfInputs(DataObjectPointerArraySizeType num))

	itkLegacyMacro (void SetNumberOfOutputs(DataObjectPointerArraySizeType num))

DataObjectPointerArraySizeType	MakeIndexFromInputName (const DataObjectIdentifierType &name) const

DataObjectPointerArraySizeType	MakeIndexFromOutputName (const DataObjectIdentifierType &name) const

DataObjectIdentifierType	MakeNameFromInputIndex (DataObjectPointerArraySizeType idx) const

DataObjectIdentifierType	MakeNameFromOutputIndex (DataObjectPointerArraySizeType idx) const

	ProcessObject ()

virtual void	PropagateResetPipeline ()

virtual void	ReleaseInputs ()

virtual void	RemoveInput (const DataObjectIdentifierType &key)

virtual void	RemoveInput (DataObjectPointerArraySizeType)

virtual void	RemoveOutput (const DataObjectIdentifierType &key)

virtual void	RemoveOutput (DataObjectPointerArraySizeType idx)

bool	RemoveRequiredInputName (const DataObjectIdentifierType &)

virtual void	RestoreInputReleaseDataFlags ()

virtual void	SetInput (const DataObjectIdentifierType &key, DataObject *input)

virtual void	SetNthInput (DataObjectPointerArraySizeType num, DataObject *input)

virtual void	SetNthOutput (DataObjectPointerArraySizeType num, DataObject *output)

void	SetNumberOfIndexedInputs (DataObjectPointerArraySizeType num)

void	SetNumberOfIndexedOutputs (DataObjectPointerArraySizeType num)

virtual void	SetNumberOfRequiredOutputs (DataObjectPointerArraySizeType _arg)

virtual void	SetOutput (const DataObjectIdentifierType &key, DataObject *output)

virtual void	SetPrimaryInput (DataObject *input)

virtual void	SetPrimaryOutput (DataObject *output)

void	SetRequiredInputNames (const NameArray &)

virtual void	VerifyPreconditions ()

	~ProcessObject ()

DataObject *	GetInput (const DataObjectIdentifierType &key)

const DataObject *	GetInput (const DataObjectIdentifierType &key) const

DataObject *	GetInput (DataObjectPointerArraySizeType)

const DataObject *	GetInput (DataObjectPointerArraySizeType idx) const

DataObject *	GetPrimaryInput ()

const DataObject *	GetPrimaryInput () const

virtual void	SetPrimaryInputName (const DataObjectIdentifierType &key)

virtual const char *	GetPrimaryInputName () const

DataObject *	GetOutput (const DataObjectIdentifierType &key)

const DataObject *	GetOutput (const DataObjectIdentifierType &key) const

virtual void	SetPrimaryOutputName (const DataObjectIdentifierType &key)

virtual const char *	GetPrimaryOutputName () const

DataObject *	GetOutput (DataObjectPointerArraySizeType idx)

const DataObject *	GetOutput (DataObjectPointerArraySizeType idx) const

DataObject *	GetPrimaryOutput ()

const DataObject *	GetPrimaryOutput () const

virtual void	SetNumberOfRequiredInputs (DataObjectPointerArraySizeType)

virtual const DataObjectPointerArraySizeType &	GetNumberOfRequiredInputs ()

Protected Member Functions inherited from itk::Object
	Object ()

bool	PrintObservers (std::ostream &os, Indent indent) const

virtual void	SetTimeStamp (const TimeStamp &time)

virtual	~Object ()

Protected Member Functions inherited from itk::LightObject
virtual LightObject::Pointer	InternalClone () const

	LightObject ()

virtual void	PrintHeader (std::ostream &os, Indent indent) const

virtual void	PrintTrailer (std::ostream &os, Indent indent) const

virtual	~LightObject ()

Private Types
typedef TInputImage::SizeType	InputImageSizeType

Private Member Functions
double	GibbsEnergy (unsigned int i, unsigned int k, unsigned int k1)

void	GibbsTotalEnergy (int i)

void	operator= (const Self &)

	RGBGibbsPriorFilter (const Self &)

Private Attributes
ClassifierType::Pointer	m_ClassifierPtr

unsigned int	m_ImageDepth

unsigned int	m_ImageHeight

double	m_ObjectThreshold

Additional Inherited Members
Protected Types inherited from itk::MRFImageFilter< TInputImage, TClassifiedImage >
typedef ImageRegionIterator < LabelStatusImageType >	LabelStatusImageIterator

typedef NeighborhoodIterator < LabelStatusImageType >	LabelStatusImageNeighborhoodIterator

typedef LabelStatusImageType::Pointer	LabelStatusImagePointer

typedef Image< int, itkGetStaticConstMacro(InputImageDimension) >	LabelStatusImageType

typedef LabelStatusImageType::IndexType	LabelStatusIndexType

typedef LabelStatusImageType::RegionType	LabelStatusRegionType

Static Protected Member Functions inherited from itk::ImageSource< TClassifiedImage >
static ITK_THREAD_RETURN_TYPE	ThreaderCallback (void *arg)

Protected Attributes inherited from itk::ProcessObject
TimeStamp	m_OutputInformationMTime

bool	m_Updating