#include <itkScalarRegionBasedLevelSetFunction.h>

Inheritance diagram for itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >:

Collaboration diagram for itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >:

Detailed Description

template<typename TInputImage, typename TFeatureImage, typename TSharedData>
class itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >

LevelSet function that computes a speed image based on regional integrals.

This class implements a level set function that computes the speed image by integrating values on the image domain. NOTE: The convention followed is inside of the level-set function is negative and outside is positive.

Based on the paper:

   "An active contour model without edges"
    T. Chan and L. Vese.
    In Scale-Space Theories in Computer Vision, pages 141-151, 1999.

Author: Mosaliganti K., Smith B., Gelas A., Gouaillard A., Megason S.

This code was taken from the Insight Journal paper:

"Cell Tracking using Coupled Active Surfaces for Nuclei and Membranes"
http://www.insight-journal.org/browse/publication/642
https://hdl.handle.net/10380/3055

That is based on the papers:

"Level Set Segmentation: Active Contours without edge"
http://www.insight-journal.org/browse/publication/322
https://hdl.handle.net/1926/1532

and

"Level set segmentation using coupled active surfaces"
http://www.insight-journal.org/browse/publication/323
https://hdl.handle.net/1926/1533

Definition at line 66 of file itkScalarRegionBasedLevelSetFunction.h.

Public Types
using	ConstFeatureIteratorType = ImageRegionConstIterator< FeatureImageType >

using	ConstImageIteratorType = ImageRegionConstIteratorWithIndex< InputImageType >

using	ConstPointer = SmartPointer< const Self >

using	FeatureImageConstPointer = typename FeatureImageType::ConstPointer

using	FeatureImageIteratorType = ImageRegionIteratorWithIndex< FeatureImageType >

using	FeatureImageType = typename Superclass::FeatureImageType

using	FeatureIndexType = typename Superclass::FeatureIndexType

using	FeatureOffsetType = typename Superclass::FeatureOffsetType

using	FeaturePixelType = typename Superclass::FeaturePixelType

using	FloatOffsetType = typename Superclass::FloatOffsetType

using	GlobalDataStruct = typename Superclass::GlobalDataStruct

using	ImageIteratorType = ImageRegionIteratorWithIndex< InputImageType >

using	InputImageConstPointer = typename Superclass::InputImageConstPointer

using	InputImagePointer = typename Superclass::InputImagePointer

using	InputImageType = typename Superclass::InputImageType

using	InputIndexType = typename Superclass::InputIndexType

using	InputIndexValueType = typename Superclass::InputIndexValueType

using	InputPixelType = typename Superclass::InputPixelType

using	InputPointType = typename Superclass::InputPointType

using	InputRegionType = typename Superclass::InputRegionType

using	InputSizeType = typename Superclass::InputSizeType

using	InputSizeValueType = typename Superclass::InputSizeValueType

using	ListImageType = Image< ListPixelType, Self::ImageDimension >

using	ListPixelConstIterator = typename ListPixelType::const_iterator

using	ListPixelIterator = typename ListPixelType::iterator

using	ListPixelType = std::list< unsigned int >

using	NeighborhoodType = typename Superclass::NeighborhoodType

using	PixelType = typename Superclass::PixelType

using	Pointer = SmartPointer< Self >

using	RadiusType = typename Superclass::RadiusType

using	ScalarValueType = typename Superclass::ScalarValueType

using	Self = ScalarRegionBasedLevelSetFunction

using	SharedDataPointer = typename Superclass::SharedDataPointer

using	SharedDataType = typename Superclass::SharedDataType

using	Superclass = RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >

using	TimeStepType = typename Superclass::TimeStepType

using	VectorType = typename Superclass::VectorType

Public Types inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
using	ConstPointer = SmartPointer< const Self >

using	FeatureImageConstPointer = typename FeatureImageType::ConstPointer

using	FeatureImageType = TFeatureImage

using	FeatureIndexType = typename FeatureImageType::IndexType

using	FeatureOffsetType = typename FeatureImageType::OffsetType

using	FeaturePixelType = typename FeatureImageType::PixelType

using	FeatureSpacingType = typename FeatureImageType::SpacingType

using	FloatOffsetType = typename Superclass::FloatOffsetType

using	HeavisideFunctionConstPointer = typename HeavisideFunctionType::ConstPointer

using	HeavisideFunctionType = HeavisideStepFunctionBase< InputPixelType, InputPixelType >

using	ImageType = typename Superclass::ImageType

using	InputImageConstPointer = typename InputImageType::ConstPointer

using	InputImagePointer = typename InputImageType::Pointer

using	InputImageType = TInputImage

using	InputIndexType = typename InputImageType::IndexType

using	InputIndexValueType = typename InputImageType::IndexValueType

using	InputPixelType = typename InputImageType::PixelType

using	InputPointType = typename InputImageType::PointType

using	InputRegionType = typename InputImageType::RegionType

using	InputSizeType = typename InputImageType::SizeType

using	InputSizeValueType = typename InputImageType::SizeValueType

using	NeighborhoodScalesType = typename Superclass::NeighborhoodScalesType

using	NeighborhoodType = typename Superclass::NeighborhoodType

using	PixelType = typename Superclass::PixelType

using	Pointer = SmartPointer< Self >

using	RadiusType = typename Superclass::RadiusType

using	ScalarValueType = PixelType

using	Self = RegionBasedLevelSetFunction

using	SharedDataPointer = typename SharedDataType::Pointer

using	SharedDataType = TSharedData

using	Superclass = FiniteDifferenceFunction< TInputImage >

using	TimeStepType = double

using	VectorType = FixedArray< ScalarValueType, Self::ImageDimension >

Public Types inherited from itk::FiniteDifferenceFunction< TInputImage >
using	ConstPointer = SmartPointer< const Self >

using	DefaultBoundaryConditionType = ZeroFluxNeumannBoundaryCondition< ImageType >

using	FloatOffsetType = Vector< float, Self::ImageDimension >

using	ImageType = TInputImage

using	NeighborhoodScalesType = Vector< PixelRealType, Self::ImageDimension >

using	NeighborhoodType = ConstNeighborhoodIterator< TInputImage, DefaultBoundaryConditionType >

using	PixelRealType = double

using	PixelType = typename ImageType::PixelType

using	Pointer = SmartPointer< Self >

using	RadiusType = typename ConstNeighborhoodIterator< TInputImage >::RadiusType

using	Self = FiniteDifferenceFunction

using	Superclass = LightObject

using	TimeStepType = double

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

using	Pointer = SmartPointer< Self >

using	Self = LightObject

Public Member Functions
virtual const char *	GetNameOfClass () const

void	UpdatePixel (const unsigned int &idx, NeighborhoodIterator< TInputImage > &iterator, InputPixelType &newValue, bool &status)

Public Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
virtual VectorType	AdvectionField (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

virtual void	CalculateAdvectionImage ()

virtual ScalarValueType	ComputeCurvature (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *gd)

TimeStepType	ComputeGlobalTimeStep (void *GlobalData) const override

PixelType	ComputeUpdate (const NeighborhoodType &neighborhood, void *globalData, const FloatOffsetType &=FloatOffsetType(0.0)) override

virtual ScalarValueType	CurvatureSpeed (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

ScalarValueType	GetAdvectionWeight () const

virtual const FeatureImageType *	GetFeatureImage () const

void *	GetGlobalDataPointer () const override

virtual void	Initialize (const RadiusType &r)

virtual ScalarValueType	LaplacianSmoothingSpeed (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

void	ReleaseGlobalDataPointer (void *GlobalData) const override

void	SetAdvectionWeight (const ScalarValueType &iA)

void	SetDomainFunction (const HeavisideFunctionType *f)

virtual void	SetFeatureImage (const FeatureImageType *f)

void	SetFunctionId (const unsigned int &iFid)

void	SetInitialImage (InputImageType *f)

void	SetSharedData (SharedDataPointer sharedDataIn)

void	UpdateSharedData (bool forceUpdate)

void	SetAreaWeight (const ScalarValueType &nu)

ScalarValueType	GetAreaWeight () const

void	SetLambda1 (const ScalarValueType &lambda1)

ScalarValueType	GetLambda1 () const

void	SetLambda2 (const ScalarValueType &lambda2)

ScalarValueType	GetLambda2 () const

void	SetOverlapPenaltyWeight (const ScalarValueType &gamma)

ScalarValueType	GetOverlapPenaltyWeight () const

virtual void	SetCurvatureWeight (const ScalarValueType c)

ScalarValueType	GetCurvatureWeight () const

void	SetReinitializationSmoothingWeight (const ScalarValueType c)

ScalarValueType	GetReinitializationSmoothingWeight () const

void	SetVolumeMatchingWeight (const ScalarValueType &tau)

ScalarValueType	GetVolumeMatchingWeight () const

void	SetVolume (const ScalarValueType &volume)

ScalarValueType	GetVolume () const

Public Member Functions inherited from itk::FiniteDifferenceFunction< TInputImage >
const NeighborhoodScalesType	ComputeNeighborhoodScales () const

const RadiusType &	GetRadius () const

void	GetScaleCoefficients (PixelRealType vals[ImageDimension]) const

virtual void	InitializeIteration ()

void	SetRadius (const RadiusType &r)

void	SetScaleCoefficients (PixelRealType vals[ImageDimension])

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

virtual void	Delete ()

virtual int	GetReferenceCount () const

	itkCloneMacro (Self)

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

virtual void	Register () const

virtual void	SetReferenceCount (int)

virtual void	UnRegister () const noexcept

Static Public Attributes
static constexpr unsigned int	ImageDimension = TFeatureImage::ImageDimension

Static Public Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static constexpr unsigned int	ImageDimension

Static Public Attributes inherited from itk::FiniteDifferenceFunction< TInputImage >
static constexpr unsigned int	ImageDimension

Protected Member Functions
ScalarValueType	ComputeOverlapParameters (const FeatureIndexType &featIndex, ScalarValueType &product) override

	ScalarRegionBasedLevelSetFunction ()

virtual void	UpdateSharedDataInsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)=0

virtual void	UpdateSharedDataOutsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)=0

	~ScalarRegionBasedLevelSetFunction () override

Protected Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
virtual ScalarValueType	ComputeExternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)=0

ScalarValueType	ComputeGlobalTerm (const ScalarValueType &imagePixel, const InputIndexType &inputIndex)

void	ComputeHessian (const NeighborhoodType &it, GlobalDataStruct *globalData)

void	ComputeHImage ()

virtual ScalarValueType	ComputeInternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)=0

ScalarValueType	ComputeLaplacian (GlobalDataStruct *gd)

virtual ScalarValueType	ComputeOverlapParameters (const FeatureIndexType &featIndex, ScalarValueType &pr)=0

virtual void	ComputeParameters ()=0

ScalarValueType	ComputeVolumeRegularizationTerm ()

	RegionBasedLevelSetFunction ()

virtual void	UpdateSharedDataParameters ()=0

	~RegionBasedLevelSetFunction () override

Protected Member Functions inherited from itk::FiniteDifferenceFunction< TInputImage >
	FiniteDifferenceFunction ()

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

	~FiniteDifferenceFunction () override=default

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 ()

Additional Inherited Members
Static Public Member Functions inherited from itk::LightObject
static void	BreakOnError ()

static Pointer	New ()

Static Protected Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static VectorType	InitializeZeroVectorConstant ()

Protected Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
ScalarValueType	m_AdvectionWeight

ScalarValueType	m_AreaWeight

OffsetValueType	m_Center

ScalarValueType	m_CurvatureWeight

HeavisideFunctionConstPointer	m_DomainFunction

FeatureImageConstPointer	m_FeatureImage

unsigned int	m_FunctionId

InputImageConstPointer	m_InitialImage

double	m_InvSpacing [Self::ImageDimension]

ScalarValueType	m_Lambda1

ScalarValueType	m_Lambda2

ScalarValueType	m_OverlapPenaltyWeight

ScalarValueType	m_ReinitializationSmoothingWeight

SharedDataPointer	m_SharedData

bool	m_UpdateC

ScalarValueType	m_Volume

ScalarValueType	m_VolumeMatchingWeight

OffsetValueType	m_xStride [Self::ImageDimension]

std::slice	x_slice [Self::ImageDimension]

Protected Attributes inherited from itk::FiniteDifferenceFunction< TInputImage >
RadiusType	m_Radius

PixelRealType	m_ScaleCoefficients [ImageDimension]

Protected Attributes inherited from itk::LightObject
std::atomic< int >	m_ReferenceCount

Static Protected Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static double	m_DT

static double	m_WaveDT

static VectorType	m_ZeroVectorConstant