#include <itkDeformableSimplexMesh3DFilter.h>

Detailed Description

template<typename TInputMesh, typename TOutputMesh>
class itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >

Three-dimensional deformable model for image segmentation.

DeformableSimplexMesh3DFilter is a discrete three-dimensional deformable model, which can be used to deform a 3-D SimplexMesh.

The mesh deformation is constrained by internal forces. The internal force can be scaled via SetAlpha (typical values are 0.01 < alpha < 0.3). The external force is derived from the image one wants to delineate. Therefore an image of type GradientImageType needs to be set by calling SetGradientImage(...). The external forces are scaled via SetBeta (typical values are 0.01 < beta < 1). One still needs to play around with these values.

To control the smoothness of the mesh a rigidity parameter can be adjusted. Low values (1 or 0) allow areas with high curvature. Higher values (around 7 or 8) will make the mesh smoother.

By setting the gamma parameter the regularity of the mesh is controlled. Low values (< 0.03) produce more regular mesh. Higher values ( 0.3 < gamma < 0.2) will allow to move the vertices to regions of higher curvature.

This approach for segmentation follows that of [31].

This filter currently assumes that the spacing of the input image is 1.

The user has to set the number of iterations for mesh evolution.

Author: Thomas Boettger. Division Medical and Biological Informatics, German Cancer Research Center, Heidelberg.

Definition at line 77 of file itkDeformableSimplexMesh3DFilter.h.

Inheritance diagram for itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >:

Collaboration diagram for itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >:

Public Types
using	BinaryOutput = Image<unsigned char, 3>

using	CellsContainerIterator = typename InputMeshType::CellsContainer::Iterator

using	CellsContainerPointer = typename InputMeshType::CellsContainerPointer

using	ConstPointer = SmartPointer<const Self>

using	CovariantVectorType = CovariantVector<typename VectorType::ValueType, 3>

using	GeometryMapIterator = typename GeometryMapType::Iterator

using	GeometryMapPointer = typename GeometryMapType::Pointer

using	GeometryMapType = typename InputMeshType::GeometryMapType

using	GradientImagePointer = typename GradientImageType::Pointer

using	GradientImageSizeType = typename GradientImageType::SizeType

using	GradientImageType = Image<GradientType, 3>

using	GradientIndexType = typename GradientImageType::IndexType

using	GradientIndexValueType = typename GradientIndexType::IndexValueType

using	GradientPixelType = typename GradientImageType::PixelType

using	GradientType = CovariantVector<PixelType, 3>

using	IndexSetIterator = typename IndexSetType::iterator

using	IndexSetType = std::set<IdentifierType>

using	InputMeshPointer = typename InputMeshType::Pointer

using	InputMeshType = TInputMesh

using	InputNeighbors = typename InputMeshType::NeighborListType

using	InputNeighborsIterator = typename InputMeshType::NeighborListType::iterator

using	InputPointsContainer = typename InputMeshType::PointsContainer

using	InputPointsContainerConstIterator = typename InputMeshType::PointsContainer::ConstIterator

using	InputPointsContainerPointer = typename InputMeshType::PointsContainerPointer

using	MagnitudeOutput = Image<float, 3>

using	MeshPointType = typename InputMeshType::PointType

using	NeighborSetIterator = typename NeighborSetType::iterator

using	NeighborSetType = std::set<IdentifierType>

using	OutputMeshPointer = typename OutputMeshType::Pointer

using	OutputMeshType = TOutputMesh

using	PixelType = typename InputMeshType::PixelType

using	Pointer = SmartPointer<Self>

using	PointType = typename SimplexMeshGeometry::PointType

using	Self = DeformableSimplexMesh3DFilter

using	Superclass = MeshToMeshFilter<TInputMesh, TOutputMesh>

using	VectorType = typename PointType::VectorType

using	VertexNeighborListType = itk::MapContainer<IdentifierType, NeighborSetType>

Public Types inherited from itk::MeshToMeshFilter< TInputMesh, TOutputMesh >
using	ConstPointer = SmartPointer<const Self>

using	InputMeshPointer = typename InputMeshType::Pointer

using	InputMeshType = TInputMesh

using	OutputMeshPointer = typename OutputMeshType::Pointer

using	OutputMeshType = TOutputMesh

using	Pointer = SmartPointer<Self>

using	Self = MeshToMeshFilter

using	Superclass = MeshSource<TOutputMesh>

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

using	DataObjectIdentifierType = Superclass::DataObjectIdentifierType

using	DataObjectPointer = DataObject::Pointer

using	OutputMeshPointer = typename OutputMeshType::Pointer

using	OutputMeshType = TOutputMesh

using	Pointer = SmartPointer<Self>

using	Self = MeshSource

using	Superclass = ProcessObject

using	DataObjectPointerArraySizeType = ProcessObject::DataObjectPointerArraySizeType

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

using	DataObjectIdentifierType = DataObject::DataObjectIdentifierType

using	DataObjectPointer = DataObject::Pointer

using	DataObjectPointerArray = std::vector<DataObjectPointer>

using	DataObjectPointerArraySizeType = DataObjectPointerArray::size_type

using	MultiThreaderType = MultiThreaderBase

using	NameArray = std::vector<DataObjectIdentifierType>

using	Pointer = SmartPointer<Self>

using	Self = ProcessObject

using	Superclass = Object

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

using	Pointer = SmartPointer<Self>

using	Self = Object

using	Superclass = LightObject

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

using	Pointer = SmartPointer<Self>

using	Self = LightObject

Public Member Functions
	ITK_DISALLOW_COPY_AND_MOVE (DeformableSimplexMesh3DFilter)

	itkGetConstMacro (Step, int)

	itkGetModifiableObjectMacro (Data, GeometryMapType)

	itkNewMacro (Self)

	itkOverrideGetNameOfClassMacro (DeformableSimplexMesh3DFilter)

	itkSetObjectMacro (Data, GeometryMapType)


void	SetGradient (const GradientImageType *gradientImage)

const GradientImageType *	GetGradient () const


	itkSetMacro (Iterations, int)

	itkGetConstMacro (Iterations, int)


	itkSetMacro (Alpha, double)

	itkGetConstMacro (Alpha, double)


	itkSetMacro (Beta, double)

	itkGetConstMacro (Beta, double)


	itkSetMacro (Gamma, double)

	itkGetConstMacro (Gamma, double)


	itkSetMacro (Damping, double)

	itkGetConstMacro (Damping, double)


	itkSetMacro (Rigidity, unsigned int)

	itkGetConstMacro (Rigidity, unsigned int)


	itkGetConstMacro (ImageWidth, int)

	itkGetConstMacro (ImageHeight, int)

	itkGetConstMacro (ImageDepth, int)

Public Member Functions inherited from itk::MeshToMeshFilter< TInputMesh, TOutputMesh >
virtual::itk::LightObject::Pointer	CreateAnother () const

const InputMeshType *	GetInput () const

const InputMeshType *	GetInput (unsigned int idx) const

const char *	GetNameOfClass () const override

void	SetInput (const InputMeshType *input)

Public Member Functions inherited from itk::MeshSource< TOutputMesh >
OutputMeshType *	GetOutput ()

OutputMeshType *	GetOutput (unsigned int idx)

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

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

virtual void	GraftOutput (DataObject *graft)

void	SetOutput (TOutputMesh *output)

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

DataObjectPointer	MakeOutput (DataObjectPointerArraySizeType idx) override

virtual DataObjectPointer	MakeOutput (const DataObjectIdentifierType &)

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

virtual void	AbortGenerateDataOn ()

virtual void	EnlargeOutputRequestedRegion (DataObject *output)

virtual const bool &	GetAbortGenerateData () const

DataObjectPointerArray	GetIndexedInputs ()

DataObjectPointerArray	GetIndexedOutputs ()

NameArray	GetInputNames () const

DataObjectPointerArray	GetInputs ()

MultiThreaderType *	GetMultiThreader () const

const char *	GetNameOfClass () const override

DataObjectPointerArraySizeType	GetNumberOfIndexedInputs () const

DataObjectPointerArraySizeType	GetNumberOfIndexedOutputs () const

DataObjectPointerArraySizeType	GetNumberOfInputs () const

DataObjectPointerArraySizeType	GetNumberOfOutputs () const

virtual DataObjectPointerArraySizeType	GetNumberOfValidRequiredInputs () const

NameArray	GetOutputNames () const

DataObjectPointerArray	GetOutputs ()

virtual float	GetProgress () const

NameArray	GetRequiredInputNames () const

bool	HasInput (const DataObjectIdentifierType &key) const

bool	HasOutput (const DataObjectIdentifierType &key) const

void	IncrementProgress (float increment)

virtual void	PrepareOutputs ()

virtual void	PropagateRequestedRegion (DataObject *output)

virtual void	ResetPipeline ()

virtual void	SetAbortGenerateData (bool _arg)

void	SetMultiThreader (MultiThreaderType *threader)

virtual void	Update ()

virtual void	UpdateLargestPossibleRegion ()

virtual void	UpdateOutputData (DataObject *output)

virtual void	UpdateOutputInformation ()

void	UpdateProgress (float progress)

virtual void	SetReleaseDataFlag (bool val)

virtual bool	GetReleaseDataFlag () const

void	ReleaseDataFlagOn ()

void	ReleaseDataFlagOff ()

virtual void	SetReleaseDataBeforeUpdateFlag (bool _arg)

virtual const bool &	GetReleaseDataBeforeUpdateFlag () const

virtual void	ReleaseDataBeforeUpdateFlagOn ()

virtual void	ReleaseDataBeforeUpdateFlagOff ()

virtual void	SetNumberOfWorkUnits (ThreadIdType _arg)

virtual const ThreadIdType &	GetNumberOfWorkUnits () const

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

unsigned long	AddObserver (const EventObject &event, std::function< void(const EventObject &)> function) const

LightObject::Pointer	CreateAnother () const override

virtual void	DebugOff () const

virtual void	DebugOn () const

Command *	GetCommand (unsigned long tag)

bool	GetDebug () const

MetaDataDictionary &	GetMetaDataDictionary ()

const MetaDataDictionary &	GetMetaDataDictionary () 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

void	Register () const override

void	RemoveAllObservers ()

void	RemoveObserver (unsigned long tag) const

void	SetDebug (bool debugFlag) const

void	SetReferenceCount (int) override

void	UnRegister () const noexcept override

void	SetMetaDataDictionary (const MetaDataDictionary &rhs)

void	SetMetaDataDictionary (MetaDataDictionary &&rrhs)

virtual void	SetObjectName (std::string _arg)

virtual const std::string &	GetObjectName () const

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

virtual void	Delete ()

virtual int	GetReferenceCount () const

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

Protected Member Functions
PointType	ComputeBarycentricCoordinates (PointType p, SimplexMeshGeometry *data)

virtual void	ComputeDisplacement ()

virtual void	ComputeExternalForce (SimplexMeshGeometry data, const GradientImageType gradientImage)

virtual void	ComputeGeometry ()

virtual void	ComputeInternalForce (SimplexMeshGeometry *data)

virtual void	ComputeOutput ()

	DeformableSimplexMesh3DFilter ()

void	GenerateData () override

virtual void	Initialize ()

bool	L_Func (const double r, const double d, const double phi, double &output)

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

virtual void	UpdateReferenceMetrics ()

	~DeformableSimplexMesh3DFilter () override=default

Protected Member Functions inherited from itk::MeshToMeshFilter< TInputMesh, TOutputMesh >
void	CopyInputMeshToOutputMeshCellData ()

void	CopyInputMeshToOutputMeshCellLinks ()

void	CopyInputMeshToOutputMeshCells ()

void	CopyInputMeshToOutputMeshPointData ()

void	CopyInputMeshToOutputMeshPoints ()

	MeshToMeshFilter ()

	~MeshToMeshFilter () override=default

Protected Member Functions inherited from itk::MeshSource< TOutputMesh >
void	GenerateInputRequestedRegion () override

	MeshSource ()

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

	~MeshSource () override=default

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

void	AddOptionalInputName (const DataObjectIdentifierType &)

void	AddOptionalInputName (const DataObjectIdentifierType &, DataObjectPointerArraySizeType idx)

virtual void	AddOutput (DataObject *output)

bool	AddRequiredInputName (const DataObjectIdentifierType &)

bool	AddRequiredInputName (const DataObjectIdentifierType &, DataObjectPointerArraySizeType idx)

virtual void	CacheInputReleaseDataFlags ()

virtual void	GenerateOutputInformation ()

virtual void	GenerateOutputRequestedRegion (DataObject *output)

DataObject *	GetInput (const DataObjectIdentifierType &key)

const DataObject *	GetInput (const DataObjectIdentifierType &key) const

virtual const DataObjectPointerArraySizeType &	GetNumberOfRequiredInputs () const

virtual const DataObjectPointerArraySizeType &	GetNumberOfRequiredOutputs () const

bool	IsIndexedInputName (const DataObjectIdentifierType &) const

bool	IsIndexedOutputName (const DataObjectIdentifierType &) const

bool	IsRequiredInputName (const DataObjectIdentifierType &) const

DataObjectPointerArraySizeType	MakeIndexFromInputName (const DataObjectIdentifierType &name) const

DataObjectPointerArraySizeType	MakeIndexFromOutputName (const DataObjectIdentifierType &name) const

DataObjectIdentifierType	MakeNameFromInputIndex (DataObjectPointerArraySizeType idx) const

DataObjectIdentifierType	MakeNameFromOutputIndex (DataObjectPointerArraySizeType idx) const

virtual void	PopBackInput ()

virtual void	PopFrontInput ()

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

	ProcessObject ()

virtual void	PropagateResetPipeline ()

virtual void	PushBackInput (const DataObject *input)

virtual void	PushFrontInput (const DataObject *input)

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 idx, DataObject *input)

virtual void	SetNthOutput (DataObjectPointerArraySizeType idx, DataObject *output)

void	SetNumberOfIndexedInputs (DataObjectPointerArraySizeType num)

void	SetNumberOfIndexedOutputs (DataObjectPointerArraySizeType num)

virtual void	SetNumberOfRequiredInputs (DataObjectPointerArraySizeType)

virtual void	SetNumberOfRequiredOutputs (DataObjectPointerArraySizeType _arg)

virtual void	SetPrimaryInput (DataObject *object)

virtual void	SetPrimaryOutput (DataObject *object)

void	SetRequiredInputNames (const NameArray &)

virtual void	VerifyInputInformation () const

virtual void	VerifyPreconditions () const

	~ProcessObject () override

DataObject *	GetInput (DataObjectPointerArraySizeType idx)

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 i)

const DataObject *	GetOutput (DataObjectPointerArraySizeType i) const

DataObject *	GetPrimaryOutput ()

const DataObject *	GetPrimaryOutput () const

virtual bool	GetThreaderUpdateProgress () const

virtual void	ThreaderUpdateProgressOn ()

virtual void	ThreaderUpdateProgressOff ()

virtual void	SetThreaderUpdateProgress (bool arg)

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

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

virtual void	SetTimeStamp (const TimeStamp &timeStamp)

	~Object () override

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 ()

Protected Attributes
double	m_Alpha {}

double	m_Beta {}

double	m_Damping {}

GeometryMapPointer	m_Data {}

double	m_Gamma {}

int	m_ImageDepth {}

int	m_ImageHeight {}

int	m_ImageWidth {}

int	m_Iterations {}

unsigned int	m_Rigidity {}

int	m_Step {}

Protected Attributes inherited from itk::ProcessObject
TimeStamp	m_OutputInformationMTime {}

bool	m_Updating {}

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

Additional Inherited Members
Static Public Member Functions inherited from itk::MeshToMeshFilter< TInputMesh, TOutputMesh >
static Pointer	New ()

Static Public Member Functions inherited from itk::MeshSource< TOutputMesh >
static Pointer	New ()

Static Public Member Functions inherited from itk::Object
static bool	GetGlobalWarningDisplay ()

static void	GlobalWarningDisplayOff ()

static void	GlobalWarningDisplayOn ()

static Pointer	New ()

static void	SetGlobalWarningDisplay (bool val)

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

static Pointer	New ()

Static Protected Member Functions inherited from itk::ProcessObject
template<typename TSourceObject>
static void	MakeRequiredOutputs (TSourceObject &sourceObject, const DataObjectPointerArraySizeType numberOfRequiredOutputs)

static constexpr float	progressFixedToFloat (uint32_t fixed)

static uint32_t	progressFloatToFixed (float f)

Member Typedef Documentation

◆ BinaryOutput

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::BinaryOutput = Image<unsigned char, 3>

Definition at line 115 of file itkDeformableSimplexMesh3DFilter.h.

◆ CellsContainerIterator

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::CellsContainerIterator = typename InputMeshType::CellsContainer::Iterator

Definition at line 130 of file itkDeformableSimplexMesh3DFilter.h.

◆ CellsContainerPointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::CellsContainerPointer = typename InputMeshType::CellsContainerPointer

Definition at line 129 of file itkDeformableSimplexMesh3DFilter.h.

◆ ConstPointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ConstPointer = SmartPointer<const Self>

Definition at line 90 of file itkDeformableSimplexMesh3DFilter.h.

◆ CovariantVectorType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::CovariantVectorType = CovariantVector<typename VectorType::ValueType, 3>

Definition at line 109 of file itkDeformableSimplexMesh3DFilter.h.

◆ GeometryMapIterator

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GeometryMapIterator = typename GeometryMapType::Iterator

Definition at line 142 of file itkDeformableSimplexMesh3DFilter.h.

◆ GeometryMapPointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GeometryMapPointer = typename GeometryMapType::Pointer

Definition at line 141 of file itkDeformableSimplexMesh3DFilter.h.

◆ GeometryMapType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GeometryMapType = typename InputMeshType::GeometryMapType

Definition at line 140 of file itkDeformableSimplexMesh3DFilter.h.

◆ GradientImagePointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GradientImagePointer = typename GradientImageType::Pointer

Definition at line 118 of file itkDeformableSimplexMesh3DFilter.h.

◆ GradientImageSizeType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GradientImageSizeType = typename GradientImageType::SizeType

Definition at line 122 of file itkDeformableSimplexMesh3DFilter.h.

◆ GradientImageType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GradientImageType = Image<GradientType, 3>

Definition at line 114 of file itkDeformableSimplexMesh3DFilter.h.

◆ GradientIndexType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GradientIndexType = typename GradientImageType::IndexType

Definition at line 119 of file itkDeformableSimplexMesh3DFilter.h.

◆ GradientIndexValueType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GradientIndexValueType = typename GradientIndexType::IndexValueType

Definition at line 121 of file itkDeformableSimplexMesh3DFilter.h.

◆ GradientPixelType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GradientPixelType = typename GradientImageType::PixelType

Definition at line 120 of file itkDeformableSimplexMesh3DFilter.h.

◆ GradientType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GradientType = CovariantVector<PixelType, 3>

Image and Image iterator definition.

Definition at line 113 of file itkDeformableSimplexMesh3DFilter.h.

◆ IndexSetIterator

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::IndexSetIterator = typename IndexSetType::iterator

Definition at line 138 of file itkDeformableSimplexMesh3DFilter.h.

◆ IndexSetType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::IndexSetType = std::set<IdentifierType>

Definition at line 135 of file itkDeformableSimplexMesh3DFilter.h.

◆ InputMeshPointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::InputMeshPointer = typename InputMeshType::Pointer

Definition at line 125 of file itkDeformableSimplexMesh3DFilter.h.

◆ InputMeshType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::InputMeshType = TInputMesh

Some type alias.

Definition at line 99 of file itkDeformableSimplexMesh3DFilter.h.

◆ InputNeighbors

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::InputNeighbors = typename InputMeshType::NeighborListType

Definition at line 131 of file itkDeformableSimplexMesh3DFilter.h.

◆ InputNeighborsIterator

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::InputNeighborsIterator = typename InputMeshType::NeighborListType::iterator

Definition at line 132 of file itkDeformableSimplexMesh3DFilter.h.

◆ InputPointsContainer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::InputPointsContainer = typename InputMeshType::PointsContainer

Definition at line 103 of file itkDeformableSimplexMesh3DFilter.h.

◆ InputPointsContainerConstIterator

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::InputPointsContainerConstIterator = typename InputMeshType::PointsContainer::ConstIterator

Definition at line 104 of file itkDeformableSimplexMesh3DFilter.h.

◆ InputPointsContainerPointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::InputPointsContainerPointer = typename InputMeshType::PointsContainerPointer

Definition at line 102 of file itkDeformableSimplexMesh3DFilter.h.

◆ MagnitudeOutput

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::MagnitudeOutput = Image<float, 3>

Definition at line 116 of file itkDeformableSimplexMesh3DFilter.h.

◆ MeshPointType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::MeshPointType = typename InputMeshType::PointType

Definition at line 128 of file itkDeformableSimplexMesh3DFilter.h.

◆ NeighborSetIterator

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::NeighborSetIterator = typename NeighborSetType::iterator

Definition at line 137 of file itkDeformableSimplexMesh3DFilter.h.

◆ NeighborSetType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::NeighborSetType = std::set<IdentifierType>

Definition at line 134 of file itkDeformableSimplexMesh3DFilter.h.

◆ OutputMeshPointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::OutputMeshPointer = typename OutputMeshType::Pointer

Definition at line 126 of file itkDeformableSimplexMesh3DFilter.h.

◆ OutputMeshType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::OutputMeshType = TOutputMesh

Definition at line 100 of file itkDeformableSimplexMesh3DFilter.h.

◆ PixelType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::PixelType = typename InputMeshType::PixelType

Definition at line 110 of file itkDeformableSimplexMesh3DFilter.h.

◆ Pointer

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::Pointer = SmartPointer<Self>

Smart pointer type alias support

Definition at line 89 of file itkDeformableSimplexMesh3DFilter.h.

◆ PointType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::PointType = typename SimplexMeshGeometry::PointType

Other definitions.

Definition at line 107 of file itkDeformableSimplexMesh3DFilter.h.

◆ Self

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::Self = DeformableSimplexMesh3DFilter

Standard "Self" type alias.

Definition at line 83 of file itkDeformableSimplexMesh3DFilter.h.

◆ Superclass

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::Superclass = MeshToMeshFilter<TInputMesh, TOutputMesh>

Standard "Superclass" type alias.

Definition at line 86 of file itkDeformableSimplexMesh3DFilter.h.

◆ VectorType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::VectorType = typename PointType::VectorType

Definition at line 108 of file itkDeformableSimplexMesh3DFilter.h.

◆ VertexNeighborListType

template<typename TInputMesh, typename TOutputMesh>

using itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::VertexNeighborListType = itk::MapContainer<IdentifierType, NeighborSetType>

Definition at line 136 of file itkDeformableSimplexMesh3DFilter.h.

Constructor & Destructor Documentation

◆ DeformableSimplexMesh3DFilter()

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::DeformableSimplexMesh3DFilter ( )

protected

Referenced by ITK_DISALLOW_COPY_AND_MOVE(), and itkOverrideGetNameOfClassMacro().

◆ ~DeformableSimplexMesh3DFilter()

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::~DeformableSimplexMesh3DFilter ( )

overrideprotecteddefault

Member Function Documentation

◆ ComputeBarycentricCoordinates()

template<typename TInputMesh, typename TOutputMesh>

PointType itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ComputeBarycentricCoordinates	(	PointType	p,
		SimplexMeshGeometry *	data )

protected

Method computes the barycentric coordinates of the passed point

◆ ComputeDisplacement()

template<typename TInputMesh, typename TOutputMesh>

virtual void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ComputeDisplacement ( )

protectedvirtual

Computes the displacement of each point. Therefore internal and external forces are computed and multiplied by the constants (alpha and beta) set by the user.

◆ ComputeExternalForce()

template<typename TInputMesh, typename TOutputMesh>

virtual void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ComputeExternalForce	(	SimplexMeshGeometry *	data,
		const GradientImageType *	gradientImage )

protectedvirtual

Compute the external force component. Computes the model displacement according to image gradient forces. Passes in the gradient image, to avoid inner loop calls to GetGradient().

Reimplemented in itk::DeformableSimplexMesh3DBalloonForceFilter< TInputMesh, TOutputMesh >, and itk::DeformableSimplexMesh3DGradientConstraintForceFilter< TInputMesh, TOutputMesh >.

◆ ComputeGeometry()

template<typename TInputMesh, typename TOutputMesh>

virtual void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ComputeGeometry ( )

protectedvirtual

Compute geometric properties like curvature and normals, which are necessary for the computation of the internal force components for each point of the mesh.

◆ ComputeInternalForce()

template<typename TInputMesh, typename TOutputMesh>

virtual void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ComputeInternalForce ( SimplexMeshGeometry * data )

protectedvirtual

Compute the internal force component

◆ ComputeOutput()

template<typename TInputMesh, typename TOutputMesh>

virtual void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ComputeOutput ( )

protectedvirtual

At the and of the deformation the output mesh is created by creating a new mesh

◆ GenerateData()

template<typename TInputMesh, typename TOutputMesh>

void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GenerateData ( )

overrideprotectedvirtual

This method causes the filter to generate its output.

Reimplemented from itk::ProcessObject.

◆ GetGradient()

template<typename TInputMesh, typename TOutputMesh>

const GradientImageType * itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::GetGradient ( ) const

Set/Get the gradient image as an input.

◆ Initialize()

template<typename TInputMesh, typename TOutputMesh>

virtual void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::Initialize ( )

protectedvirtual

Initializes the data structures necessary for mesh deformation with the values from the passed input mesh.

◆ ITK_DISALLOW_COPY_AND_MOVE()

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::ITK_DISALLOW_COPY_AND_MOVE ( DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh > )

References DeformableSimplexMesh3DFilter().

◆ itkGetConstMacro() [1/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	Alpha	,
		double	)

Set/Get internal force scaling factor.

◆ itkGetConstMacro() [2/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	Beta	,
		double	)

Set/Get external force scaling factor.

◆ itkGetConstMacro() [3/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	Damping	,
		double	)

Set/Get reference metrics update scaling factor.

◆ itkGetConstMacro() [4/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	Gamma	,
		double	)

Set/Get reference metrics update scaling factor.

◆ itkGetConstMacro() [5/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	ImageDepth	,
		int	)

Get the width, height and depth of image.

◆ itkGetConstMacro() [6/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	ImageHeight	,
		int	)

Get the width, height and depth of image.

◆ itkGetConstMacro() [7/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	ImageWidth	,
		int	)

Get the width, height and depth of image.

◆ itkGetConstMacro() [8/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	Iterations	,
		int	)

Set/Get the number of iterations for the deformation process.

Referenced by itk::DeformableSimplexMesh3DGradientConstraintForceFilter< TInputMesh, TOutputMesh >::GetRange().

◆ itkGetConstMacro() [9/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	Rigidity	,
		unsigned int	)

Set/Get the mesh smoothness value.

◆ itkGetConstMacro() [10/10]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetConstMacro	(	Step	,
		int	)

Get the current iteration number.

◆ itkGetModifiableObjectMacro()

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkGetModifiableObjectMacro	(	Data	,
		GeometryMapType	)

◆ itkNewMacro()

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkNewMacro ( Self )

Method of creation through the object factory.

Referenced by itk::DeformableSimplexMesh3DGradientConstraintForceFilter< TInputMesh, TOutputMesh >::CreateAnother().

◆ itkOverrideGetNameOfClassMacro()

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkOverrideGetNameOfClassMacro ( DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh > )

See also: LightObject::GetNameOfClass()

References DeformableSimplexMesh3DFilter().

Referenced by itk::DeformableSimplexMesh3DGradientConstraintForceFilter< TInputMesh, TOutputMesh >::GetNameOfClass().

◆ itkSetMacro() [1/6]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkSetMacro	(	Alpha	,
		double	)

Set/Get internal force scaling factor.

◆ itkSetMacro() [2/6]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkSetMacro	(	Beta	,
		double	)

Set/Get external force scaling factor.

◆ itkSetMacro() [3/6]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkSetMacro	(	Damping	,
		double	)

Set/Get reference metrics update scaling factor.

◆ itkSetMacro() [4/6]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkSetMacro	(	Gamma	,
		double	)

Set/Get reference metrics update scaling factor.

◆ itkSetMacro() [5/6]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkSetMacro	(	Iterations	,
		int	)

Set/Get the number of iterations for the deformation process.

Referenced by itk::DeformableSimplexMesh3DGradientConstraintForceFilter< TInputMesh, TOutputMesh >::SetRange().

◆ itkSetMacro() [6/6]

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkSetMacro	(	Rigidity	,
		unsigned int	)

Set/Get the mesh smoothness value.

◆ itkSetObjectMacro()

template<typename TInputMesh, typename TOutputMesh>

itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::itkSetObjectMacro	(	Data	,
		GeometryMapType	)

◆ L_Func()

template<typename TInputMesh, typename TOutputMesh>

bool itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::L_Func	(	const double	r,
		const double	d,
		const double	phi,
		double &	output )

protected

L function implemented following the paper of Delingette

◆ PrintSelf()

template<typename TInputMesh, typename TOutputMesh>

void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::PrintSelf	(	std::ostream &	os,
		Indent	indent ) const

overrideprotectedvirtual

Methods invoked by Print() to print information about the object including superclasses. Typically not called by the user (use Print() instead) but used in the hierarchical print process to combine the output of several classes.

Reimplemented from itk::LightObject.

Reimplemented in itk::DeformableSimplexMesh3DGradientConstraintForceFilter< TInputMesh, TOutputMesh >.

◆ SetGradient()

template<typename TInputMesh, typename TOutputMesh>

void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::SetGradient ( const GradientImageType * gradientImage )

Set/Get the gradient image as an input.

◆ UpdateReferenceMetrics()

template<typename TInputMesh, typename TOutputMesh>

virtual void itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::UpdateReferenceMetrics ( )

protectedvirtual

Method updates the reference metrics for each mesh point

Member Data Documentation

◆ m_Alpha

template<typename TInputMesh, typename TOutputMesh>

double itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Alpha {}

protected

Parameters definitions. Scalar defining the influence of the internal forces Values should lie between 0.001 and 0.3. Higher values increase the stiffness of the mesh

Definition at line 274 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_Beta

template<typename TInputMesh, typename TOutputMesh>

double itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Beta {}

protected

Scalar defining the influence of the external force components The choice for this parameter strongly depends on the underlying data. Typical value range from 0.00001 to 0.3

Definition at line 282 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_Damping

template<typename TInputMesh, typename TOutputMesh>

double itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Damping {}

protected

Definition at line 291 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_Data

template<typename TInputMesh, typename TOutputMesh>

GeometryMapPointer itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Data {}

protected

map stores a Geometry object for every mesh point

Definition at line 320 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_Gamma

template<typename TInputMesh, typename TOutputMesh>

double itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Gamma {}

protected

Gamma influences the distribution of the mesh points. It should lie between 0.01 and 0.2. Smaller values force the mesh to be more regular. When increasing gamma, mesh points will have higher density in places of high curvature.

Definition at line 290 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_ImageDepth

template<typename TInputMesh, typename TOutputMesh>

int itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_ImageDepth {}

protected

Image size

Definition at line 312 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_ImageHeight

template<typename TInputMesh, typename TOutputMesh>

int itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_ImageHeight {}

protected

Image size

Definition at line 309 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_ImageWidth

template<typename TInputMesh, typename TOutputMesh>

int itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_ImageWidth {}

protected

Image size

Definition at line 306 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_Iterations

template<typename TInputMesh, typename TOutputMesh>

int itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Iterations {}

protected

This threshold decides when to stop the model.

Definition at line 315 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_Rigidity

template<typename TInputMesh, typename TOutputMesh>

unsigned int itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Rigidity {}

protected

This scalar determines the smoothness of the surface model. Values should range from 0 to 10. It determines the radius of the neighborhood during internal force computation using the curvature shape constraint. The higher the rigidity the higher the smoothness.

Definition at line 299 of file itkDeformableSimplexMesh3DFilter.h.

◆ m_Step

template<typename TInputMesh, typename TOutputMesh>

int itk::DeformableSimplexMesh3DFilter< TInputMesh, TOutputMesh >::m_Step {}

protected

Number of iterations

Definition at line 303 of file itkDeformableSimplexMesh3DFilter.h.

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

itkDeformableSimplexMesh3DFilter.h

Detailed Description

Public Types

Public Member Functions

Protected Member Functions

Protected Attributes

Additional Inherited Members

Member Typedef Documentation

◆ BinaryOutput

◆ CellsContainerIterator

◆ CellsContainerPointer

◆ ConstPointer

◆ CovariantVectorType

◆ GeometryMapIterator

◆ GeometryMapPointer

◆ GeometryMapType

◆ GradientImagePointer

◆ GradientImageSizeType

◆ GradientImageType

◆ GradientIndexType

◆ GradientIndexValueType

◆ GradientPixelType

◆ GradientType

◆ IndexSetIterator

◆ IndexSetType

◆ InputMeshPointer

◆ InputMeshType

◆ InputNeighbors

◆ InputNeighborsIterator

◆ InputPointsContainer

◆ InputPointsContainerConstIterator

◆ InputPointsContainerPointer

◆ MagnitudeOutput

◆ MeshPointType

◆ NeighborSetIterator

◆ NeighborSetType

◆ OutputMeshPointer

◆ OutputMeshType

◆ PixelType

◆ Pointer

◆ PointType

◆ Self

◆ Superclass

◆ VectorType

◆ VertexNeighborListType

Constructor & Destructor Documentation

◆ DeformableSimplexMesh3DFilter()

◆ ~DeformableSimplexMesh3DFilter()

Member Function Documentation

◆ ComputeBarycentricCoordinates()

◆ ComputeDisplacement()

◆ ComputeExternalForce()

◆ ComputeGeometry()

◆ ComputeInternalForce()

◆ ComputeOutput()

◆ GenerateData()

◆ GetGradient()

◆ Initialize()

◆ ITK_DISALLOW_COPY_AND_MOVE()

◆ itkGetConstMacro() [1/10]

◆ itkGetConstMacro() [2/10]

◆ itkGetConstMacro() [3/10]

◆ itkGetConstMacro() [4/10]

◆ itkGetConstMacro() [5/10]

◆ itkGetConstMacro() [6/10]

◆ itkGetConstMacro() [7/10]

◆ itkGetConstMacro() [8/10]

◆ itkGetConstMacro() [9/10]

◆ itkGetConstMacro() [10/10]

◆ itkGetModifiableObjectMacro()

◆ itkNewMacro()

◆ itkOverrideGetNameOfClassMacro()

◆ itkSetMacro() [1/6]

◆ itkSetMacro() [2/6]

◆ itkSetMacro() [3/6]

◆ itkSetMacro() [4/6]

◆ itkSetMacro() [5/6]

◆ itkSetMacro() [6/6]

◆ itkSetObjectMacro()

◆ L_Func()

◆ PrintSelf()