#include <elxSplineKernelTransform.h>

Detailed Description

template<class TElastix>
class elastix::SplineKernelTransform< TElastix >

A transform based on the itk::KernelTransform2.

This transform is a nonrigid transformation, based on thin-plate-spline-like kernels.

The ITK code for this class is largely based on code by Rupert Brooks. For elastix a few modifications were made (making the transform thread safe, and make it support the AdvancedTransform framework).

This nonrigid transformation model allows the user to place control points at application-specific positions, unlike the BSplineTransform, which always uses a regular grid of control points.

NB: in order to use this class for registration, the -fp command line argument is mandatory! It is used to place the fixed image landmarks.

The parameters used in this class are:

Parameters

Transform: Select this transform as follows:
(Transform "SplineKernelTransform")

SplineKernelType: Select the deformation model, which must be one of { ThinPlateSpline, ThinPlateR2LogRSpline, VolumeSpline, ElasticBodySpline, ElasticBodyReciprocalSpline). In 2D this option is ignored and a ThinPlateSpline will always be used.
example: (SplineKernelType "ElasticBodySpline")
Default: ThinPlateSpline. You cannot specify this parameter for each resolution differently.

SplineRelaxationFactor: make the spline interpolating or approximating. A value of 0.0 gives an interpolating transform. Higher values result in approximating splines.
example: (SplineRelaxationFactor 0.01 )
Default: 0.0. You cannot specify this parameter for each resolution differently.

SplinePoissonRatio: Set the poisson ratio for the ElasticBodySpline and the ElastixBodyReciprocalSpline. For other SplineKernelTypes this parameters is ignored.
example: (SplinePoissonRatio 0.3 )
Default: 0.3. You cannot specify this parameter for each resolution differently.
Valid values are withing -1.0 and 0.5. 0.5 means incompressible. Negative values are a bit odd, but possible. See Wikipedia on PoissonRatio.

Command line arguments

-fp: a file specifying a set of points that will serve as fixed image landmarks.
example: -fp fixedImagePoints.txt
The fixedImagePoints.txt file should be structured: first line should be "index" or "point", depending if the user supplies voxel indices or real world coordinates. The second line should be the number of points that should be transformed. The third and following lines give the indices or points. The same structure thus as used for transformix.

-mp: an optional file specifying a set of points that will serve as moving image landmarks, used to initialize the transformation.
example: -mp movingImagePoints.txt
The movingImagePoints.txt should be structured like the fixedImagePoints.txt. The moving landmarks should be corresponding to the fixed landmarks. If no file is provided, the transformation is initialized to be the identity, i.e. the moving landmarks are chosen identical to the fixed landmarks.

Transform Parameters

Transform: Select this transform as follows:
(Transform "SplineKernelTransform")

SplineKernelType: Select the deformation model, which must be one of { ThinPlateSpline, ThinPlateR2LogRSpline, VolumeSpline, ElasticBodySpline, ElasticBodyReciprocalSpline). In 2D this option is ignored and a ThinPlateSpline will always be used.
example: (SplineKernelType "ElasticBodySpline")
*

SplineRelaxationFactor: make the spline interpolating or approximating. A value of 0.0 gives an interpolating transform. Higher values result in approximating splines.
example: (SplineRelaxationFactor 0.01 )
*

SplinePoissonRatio: Set the Poisson ratio for the ElasticBodySpline and the ElastixBodyReciprocalSpline. For other SplineKernelTypes this parameters is ignored.
example: (SplinePoissonRatio 0.3 )
Valid values are withing -1.0 and 0.5. 0.5 means incompressible. Negative values are a bit odd, but possible. See Wikipedia on PoissonRatio.

FixedImageLandmarks: The landmark positions in the fixed image, in world coordinates. Positions written as x1 y1 [z1] x2 y2 [z2] etc.
example: (FixedImageLandmarks 10.0 11.0 12.0 4.0 4.0 4.0 6.0 6.0 6.0 )

Definition at line 115 of file elxSplineKernelTransform.h.

Inheritance diagram for elastix::SplineKernelTransform< TElastix >:

[legend]

Public Types
using	CombinationTransformType = typename Superclass2::CombinationTransformType

using	ConstPointer = itk::SmartPointer<const Self>

using	CoordRepType

using	FixedImageType

using	ITKBaseType = typename Superclass2::ITKBaseType

using	KernelTransformPointer = typename KernelTransformType::Pointer

using	KernelTransformType

using	MovingImageType

using	ParameterMapType

using	Pointer = itk::SmartPointer<Self>

using	PointSetPointer = typename PointSetType::Pointer

using	PointSetType = typename KernelTransformType::PointSetType

using	Self = SplineKernelTransform

using	Superclass1

using	Superclass2 = elx::TransformBase<TElastix>

Public Types inherited from itk::AdvancedCombinationTransform< TScalarType, NDimensions >
using	ConstPointer = SmartPointer<const Self>

using	CurrentTransformConstPointer = typename CurrentTransformType::ConstPointer

using	CurrentTransformInverseTransformBasePointer = typename CurrentTransformType::InverseTransformBasePointer

using	CurrentTransformInverseTransformBaseType = typename CurrentTransformType::InverseTransformBaseType

using	CurrentTransformPointer = typename CurrentTransformType::Pointer

using	CurrentTransformType = Superclass

using	InitialTransformConstPointer = typename InitialTransformType::ConstPointer

using	InitialTransformInverseTransformBasePointer = typename InitialTransformType::InverseTransformBasePointer

using	InitialTransformInverseTransformBaseType = typename InitialTransformType::InverseTransformBaseType

using	InitialTransformPointer = typename InitialTransformType::Pointer

using	InitialTransformType = Superclass

using	InverseTransformBaseType = typename Superclass::InverseTransformBaseType

using	Pointer = SmartPointer<Self>

using	Self = AdvancedCombinationTransform

using	Superclass = AdvancedTransform<TScalarType, NDimensions, NDimensions>

using	TransformType = typename Superclass::TransformType

using	TransformTypeConstPointer = typename TransformType::ConstPointer

using	TransformTypePointer = typename TransformType::Pointer

Public Types inherited from itk::AdvancedTransform< TScalarType, 3, 3 >
using	ConstPointer

using	InternalMatrixType

using	InverseTransformBaseType

using	JacobianOfSpatialHessianType

using	JacobianOfSpatialJacobianType

using	MovingImageGradientType

using	MovingImageGradientValueType

using	NonZeroJacobianIndicesType

using	Pointer

using	Self

using	SpatialHessianType

using	SpatialJacobianType

using	Superclass

using	TransformType

using	TransformTypeConstPointer

using	TransformTypePointer

Public Types inherited from elastix::TransformBase< TElastix >
using	CombinationTransformType = itk::AdvancedCombinationTransform<CoordRepType, Self::FixedImageDimension>

using	CommandLineArgumentMapType = Configuration ::CommandLineArgumentMapType

using	CommandLineEntryType = Configuration ::CommandLineEntryType

using	ComponentDescriptionType = ComponentDatabase::ComponentDescriptionType

using	CoordRepType = ElastixBase::CoordRepType

using	DeformationFieldImageType = itk::Image<VectorPixelType, FixedImageDimension>

using	FixedImageType = typename TElastix::FixedImageType

using	InitialTransformType = typename CombinationTransformType::InitialTransformType

using	InputPointType = typename ITKBaseType::InputPointType

using	ITKBaseType = CombinationTransformType

using	ITKRegistrationType = typename RegistrationType::ITKBaseType

using	MovingImageType = typename TElastix::MovingImageType

using	OptimizerType = typename ITKRegistrationType::OptimizerType

using	OutputPointType = typename ITKBaseType::OutputPointType

using	ParameterMapType = typename TElastix::ParameterMapType

using	ParametersType = itk::OptimizerParameters<ValueType>

using	PtrToCreator = ComponentDatabase::PtrToCreator

using	RegistrationType

using	ScalesType = itk::Optimizer::ScalesType

using	Self = TransformBase

using	SpatialJacobianDeterminantImageType = itk::Image<float, FixedImageDimension>

using	SpatialJacobianMatrixImageType

using	Superclass = BaseComponentSE<TElastix>

using	ValueType = double

using	VectorPixelType = itk::Vector<float, FixedImageDimension>

Public Types inherited from elastix::BaseComponentSE< TElastix >
using	ElastixType = TElastix

using	RegistrationType = typename ElastixType::RegistrationBaseType

using	Self = BaseComponentSE

using	Superclass = BaseComponent

Public Member Functions
int	BeforeAll () override

void	BeforeRegistration () override

	elxClassNameMacro ("SplineKernelTransform")

virtual const char *	GetClassName () const

	ITK_DISALLOW_COPY_AND_MOVE (SplineKernelTransform)

	itkStaticConstMacro (SpaceDimension, unsigned int, Superclass2::FixedImageDimension)

void	ReadFromFile () override

Public Member Functions inherited from itk::AdvancedCombinationTransform< TScalarType, NDimensions >
void	EvaluateJacobianWithImageGradientProduct (const InputPointType &inputPoint, const MovingImageGradientType &movingImageGradient, DerivativeType &imageJacobian, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const override

const FixedParametersType &	GetFixedParameters () const override

bool	GetHasNonZeroSpatialHessian () const override

bool	GetInverse (Self *inverse) const

void	GetJacobian (const InputPointType &inputPoint, JacobianType &j, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const override

void	GetJacobianOfSpatialHessian (const InputPointType &inputPoint, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const override

void	GetJacobianOfSpatialHessian (const InputPointType &inputPoint, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const override

void	GetJacobianOfSpatialJacobian (const InputPointType &inputPoint, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const override

void	GetJacobianOfSpatialJacobian (const InputPointType &inputPoint, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const override

const TransformTypePointer	GetNthTransform (SizeValueType n) const

NumberOfParametersType	GetNumberOfNonZeroJacobianIndices () const override

NumberOfParametersType	GetNumberOfParameters () const override

SizeValueType	GetNumberOfTransforms () const

const ParametersType &	GetParameters () const override

void	GetSpatialHessian (const InputPointType &inputPoint, SpatialHessianType &sh) const override

void	GetSpatialJacobian (const InputPointType &inputPoint, SpatialJacobianType &sj) const override

TransformCategoryEnum	GetTransformCategory () const override

virtual bool	GetUseAddition () const

virtual bool	GetUseComposition () const

bool	HasNonZeroJacobianOfSpatialHessian () const

bool	IsLinear () const override

	ITK_DISALLOW_COPY_AND_MOVE (AdvancedCombinationTransform)

	itkGetModifiableObjectMacro (CurrentTransform, CurrentTransformType)

	itkGetModifiableObjectMacro (InitialTransform, InitialTransformType)

	itkStaticConstMacro (SpaceDimension, unsigned int, NDimensions)

void	SetCurrentTransform (CurrentTransformType *_arg)

void	SetFixedParameters (const FixedParametersType &fixedParam) override

void	SetInitialTransform (InitialTransformType *_arg)

void	SetParameters (const ParametersType &param) override

void	SetParametersByValue (const ParametersType &param) override

void	SetUseAddition (bool _arg)

void	SetUseComposition (bool _arg)

OutputCovariantVectorType	TransformCovariantVector (const InputCovariantVectorType &) const override

OutputPointType	TransformPoint (const InputPointType &point) const override

OutputVectorType	TransformVector (const InputVectorType &) const override

OutputVnlVectorType	TransformVector (const InputVnlVectorType &) const override

Public Member Functions inherited from itk::AdvancedTransform< TScalarType, 3, 3 >
void	ComputeJacobianWithRespectToParameters (const InputPointType &, JacobianType &) const override

virtual bool	GetHasNonZeroJacobianOfSpatialHessian () const

	ITK_DISALLOW_COPY_AND_MOVE (AdvancedTransform)

	itkStaticConstMacro (InputSpaceDimension, unsigned int, NInputDimensions)

	itkStaticConstMacro (OutputSpaceDimension, unsigned int, NOutputDimensions)

Public Member Functions inherited from elastix::TransformBase< TElastix >
int	BeforeAllTransformix ()

void	ComputeAndWriteSpatialJacobianDeterminantImage () const

void	ComputeAndWriteSpatialJacobianMatrixImage () const

SpatialJacobianDeterminantImageType::Pointer	ComputeSpatialJacobianDeterminantImage () const

SpatialJacobianMatrixImageType::Pointer	ComputeSpatialJacobianMatrixImage () const

void	CreateTransformParameterMap (const ParametersType &param, ParameterMapType &parameterMap, const bool includeDerivedTransformParameters=true) const

ITKBaseType *	GetAsITKBaseType ()

const ITKBaseType *	GetAsITKBaseType () const

	ITK_DISALLOW_COPY_AND_MOVE (TransformBase)

	itkStaticConstMacro (FixedImageDimension, unsigned int, FixedImageType::ImageDimension)

	itkStaticConstMacro (MovingImageDimension, unsigned int, MovingImageType::ImageDimension)

void	ReadInitialTransformFromFile (const std::string &transformParameterFileName)

void	SetFinalParameters ()

void	SetInitialTransform (InitialTransformType *_arg)

void	SetReadWriteTransformParameters (const bool _arg)

void	SetTransformParameterFileName (const std::string &filename)

template<typename TMesh >
TMesh::Pointer	TransformMesh (const TMesh &mesh) const

void	TransformPoints () const

void	WriteToFile (std::ostream &transformationParameterInfo, const ParametersType &param) const

Public Member Functions inherited from elastix::BaseComponentSE< TElastix >
void	AddTargetCellToIterationInfo (const char *const name)

const Configuration *	GetConfiguration () const

ElastixType *	GetElastix () const

auto &	GetIterationInfoAt (const char *const name)

RegistrationType *	GetRegistration () const

	ITK_DISALLOW_COPY_AND_MOVE (BaseComponentSE)

void	RemoveTargetCellFromIterationInfo (const char *const name)

void	SetConfiguration (const Configuration *_arg)

void	SetElastix (ElastixType *_arg)

Public Member Functions inherited from elastix::BaseComponent
virtual void	AfterEachIteration ()

virtual void	AfterEachIterationBase ()

virtual void	AfterEachResolution ()

virtual void	AfterEachResolutionBase ()

virtual void	AfterRegistration ()

virtual void	BeforeEachResolution ()

virtual void	BeforeEachResolutionBase ()

virtual const char *	elxGetClassName () const

const char *	GetComponentLabel () const

	ITK_DISALLOW_COPY_AND_MOVE (BaseComponent)

	itkTypeMacroNoParent (BaseComponent)

void	SetComponentLabel (const char *label, unsigned int idx)

Static Public Member Functions
static Pointer	New ()

Static Public Member Functions inherited from itk::AdvancedCombinationTransform< TScalarType, NDimensions >
static Pointer	New ()

Static Public Member Functions inherited from elastix::BaseComponent
template<typename TBaseComponent >
static auto	AsITKBaseType (TBaseComponent *const baseComponent) -> decltype(baseComponent->GetAsITKBaseType())

static void	InitializeElastixExecutable ()

static bool	IsElastixLibrary ()

Protected Types
using	EBKernelTransformType = itk::ElasticBodySplineKernelTransform2<CoordRepType, Self::SpaceDimension>

using	EBRKernelTransformType = itk::ElasticBodyReciprocalSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

using	TPKernelTransformType = itk::ThinPlateSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

using	TPRKernelTransformType = itk::ThinPlateR2LogRSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

using	VKernelTransformType = itk::VolumeSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

Protected Member Functions
virtual void	DetermineSourceLandmarks ()

virtual bool	DetermineTargetLandmarks ()

void	ReadLandmarkFile (const std::string &filename, PointSetPointer &landmarkPointSet, const bool landmarksInFixedImage)

virtual bool	SetKernelType (const std::string &kernelType)

	SplineKernelTransform ()

	~SplineKernelTransform () override=default

Protected Member Functions inherited from itk::AdvancedCombinationTransform< TScalarType, NDimensions >
	AdvancedCombinationTransform ()

void	EvaluateJacobianWithImageGradientProductNoCurrentTransform (const InputPointType &, const MovingImageGradientType &, DerivativeType &, NonZeroJacobianIndicesType &) const

void	EvaluateJacobianWithImageGradientProductNoInitialTransform (const InputPointType &, const MovingImageGradientType &, DerivativeType &, NonZeroJacobianIndicesType &) const

void	EvaluateJacobianWithImageGradientProductUseAddition (const InputPointType &, const MovingImageGradientType &, DerivativeType &, NonZeroJacobianIndicesType &) const

void	EvaluateJacobianWithImageGradientProductUseComposition (const InputPointType &, const MovingImageGradientType &, DerivativeType &, NonZeroJacobianIndicesType &) const

void	GetJacobianNoCurrentTransform (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const

void	GetJacobianNoInitialTransform (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const

void	GetJacobianOfSpatialHessianNoCurrentTransform (const InputPointType &inputPoint, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialHessianNoCurrentTransform (const InputPointType &inputPoint, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialHessianNoInitialTransform (const InputPointType &inputPoint, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialHessianNoInitialTransform (const InputPointType &inputPoint, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialHessianUseAddition (const InputPointType &inputPoint, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialHessianUseAddition (const InputPointType &inputPoint, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialHessianUseComposition (const InputPointType &inputPoint, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialHessianUseComposition (const InputPointType &inputPoint, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianNoCurrentTransform (const InputPointType &inputPoint, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianNoCurrentTransform (const InputPointType &inputPoint, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianNoInitialTransform (const InputPointType &inputPoint, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianNoInitialTransform (const InputPointType &inputPoint, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianUseAddition (const InputPointType &inputPoint, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianUseAddition (const InputPointType &inputPoint, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianUseComposition (const InputPointType &inputPoint, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianOfSpatialJacobianUseComposition (const InputPointType &inputPoint, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const

void	GetJacobianUseAddition (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const

void	GetJacobianUseComposition (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const

void	GetSpatialHessianNoCurrentTransform (const InputPointType &inputPoint, SpatialHessianType &sh) const

void	GetSpatialHessianNoInitialTransform (const InputPointType &inputPoint, SpatialHessianType &sh) const

void	GetSpatialHessianUseAddition (const InputPointType &inputPoint, SpatialHessianType &sh) const

void	GetSpatialHessianUseComposition (const InputPointType &inputPoint, SpatialHessianType &sh) const

void	GetSpatialJacobianNoCurrentTransform (const InputPointType &inputPoint, SpatialJacobianType &sj) const

void	GetSpatialJacobianNoInitialTransform (const InputPointType &inputPoint, SpatialJacobianType &sj) const

void	GetSpatialJacobianUseAddition (const InputPointType &inputPoint, SpatialJacobianType &sj) const

void	GetSpatialJacobianUseComposition (const InputPointType &inputPoint, SpatialJacobianType &sj) const

OutputPointType	TransformPointNoCurrentTransform (const InputPointType &point) const

OutputPointType	TransformPointNoInitialTransform (const InputPointType &point) const

OutputPointType	TransformPointUseAddition (const InputPointType &point) const

OutputPointType	TransformPointUseComposition (const InputPointType &point) const

void	UpdateCombinationMethod ()

	~AdvancedCombinationTransform () override=default

Protected Member Functions inherited from itk::AdvancedTransform< TScalarType, 3, 3 >
	AdvancedTransform ()=default

	~AdvancedTransform () override=default

Protected Member Functions inherited from elastix::TransformBase< TElastix >
void	AutomaticScalesEstimation (ScalesType &scales) const

void	AutomaticScalesEstimationStackTransform (const unsigned int numSubTransforms, ScalesType &scales) const

bool	HasITKTransformParameters () const

	TransformBase ()=default

	~TransformBase () override=default

Protected Member Functions inherited from elastix::BaseComponentSE< TElastix >
	BaseComponentSE ()=default

	~BaseComponentSE () override=default

Protected Member Functions inherited from elastix::BaseComponent
	BaseComponent ()=default

virtual	~BaseComponent ()=default

Protected Attributes
KernelTransformPointer	m_KernelTransform

Protected Attributes inherited from itk::AdvancedTransform< TScalarType, 3, 3 >
bool	m_HasNonZeroJacobianOfSpatialHessian

bool	m_HasNonZeroSpatialHessian

Protected Attributes inherited from elastix::BaseComponentSE< TElastix >
Configuration::ConstPointer	m_Configuration {}

itk::WeakPointer< TElastix >	m_Elastix {}

RegistrationType *	m_Registration {}

Private Member Functions
ParameterMapType	CreateDerivedTransformParameterMap () const override

Private Attributes
	elxOverrideGetSelfMacro

std::string	m_SplineKernelType

Member Typedef Documentation

◆ CombinationTransformType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::CombinationTransformType = typename Superclass2::CombinationTransformType

Definition at line 174 of file elxSplineKernelTransform.h.

◆ ConstPointer

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::ConstPointer = itk::SmartPointer<const Self>

Definition at line 135 of file elxSplineKernelTransform.h.

◆ CoordRepType

template<class TElastix >

using elastix::TransformBase< TElastix >::CoordRepType

Elastix typedef's.

Definition at line 156 of file elxTransformBase.h.

◆ EBKernelTransformType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::EBKernelTransformType = itk::ElasticBodySplineKernelTransform2<CoordRepType, Self::SpaceDimension>

protected

Definition at line 210 of file elxSplineKernelTransform.h.

◆ EBRKernelTransformType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::EBRKernelTransformType = itk::ElasticBodyReciprocalSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

protected

Definition at line 211 of file elxSplineKernelTransform.h.

◆ FixedImageType

template<class TElastix >

using elastix::TransformBase< TElastix >::FixedImageType

Definition at line 157 of file elxTransformBase.h.

◆ ITKBaseType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::ITKBaseType = typename Superclass2::ITKBaseType

Definition at line 173 of file elxSplineKernelTransform.h.

◆ KernelTransformPointer

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::KernelTransformPointer = typename KernelTransformType::Pointer

Extra typedefs

Definition at line 177 of file elxSplineKernelTransform.h.

◆ KernelTransformType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::KernelTransformType

Initial value:

itk::KernelTransform2<typename elx::TransformBase<TElastix>::CoordRepType,

elx::TransformBase<TElastix>::FixedImageDimension>

elastix::TransformBase

This class is the elastix base class for all Transforms.

Definition elxTransformBase.h:138

itk::KernelTransform2

Definition itkKernelTransform2.h:98

The ITK-class that provides most of the functionality, and that is set as the "CurrentTransform" in the CombinationTransform.

Definition at line 132 of file elxSplineKernelTransform.h.

◆ MovingImageType

template<class TElastix >

using elastix::TransformBase< TElastix >::MovingImageType

Definition at line 158 of file elxTransformBase.h.

◆ ParameterMapType

template<class TElastix >

using elastix::TransformBase< TElastix >::ParameterMapType

Typedef that is used in the elastix dll version.

Definition at line 199 of file elxTransformBase.h.

◆ Pointer

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::Pointer = itk::SmartPointer<Self>

Definition at line 134 of file elxSplineKernelTransform.h.

◆ PointSetPointer

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::PointSetPointer = typename PointSetType::Pointer

Definition at line 179 of file elxSplineKernelTransform.h.

◆ PointSetType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::PointSetType = typename KernelTransformType::PointSetType

Definition at line 178 of file elxSplineKernelTransform.h.

◆ Self

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::Self = SplineKernelTransform

Standard ITK-stuff.

Definition at line 124 of file elxSplineKernelTransform.h.

◆ Superclass1

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::Superclass1

Initial value:

itk::AdvancedCombinationTransform<typename elx::TransformBase<TElastix>::CoordRepType,

elx::TransformBase<TElastix>::FixedImageDimension>

itk::AdvancedCombinationTransform

This class combines two transforms: an 'initial transform' with a 'current transform'.

Definition itkAdvancedCombinationTransform.h:57

Definition at line 125 of file elxSplineKernelTransform.h.

◆ Superclass2

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::Superclass2 = elx::TransformBase<TElastix>

Definition at line 127 of file elxSplineKernelTransform.h.

◆ TPKernelTransformType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::TPKernelTransformType = itk::ThinPlateSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

protected

Definition at line 207 of file elxSplineKernelTransform.h.

◆ TPRKernelTransformType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::TPRKernelTransformType = itk::ThinPlateR2LogRSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

protected

Definition at line 208 of file elxSplineKernelTransform.h.

◆ VKernelTransformType

template<class TElastix >

using elastix::SplineKernelTransform< TElastix >::VKernelTransformType = itk::VolumeSplineKernelTransform2<CoordRepType, Self::SpaceDimension>

protected

Definition at line 209 of file elxSplineKernelTransform.h.

Constructor & Destructor Documentation

◆ SplineKernelTransform()

template<class TElastix >

elastix::SplineKernelTransform< TElastix >::SplineKernelTransform ( )

protected

The constructor.

◆ ~SplineKernelTransform()

template<class TElastix >

elastix::SplineKernelTransform< TElastix >::~SplineKernelTransform ( )

overrideprotecteddefault

The destructor.

Member Function Documentation

◆ BeforeAll()

template<class TElastix >

int elastix::SplineKernelTransform< TElastix >::BeforeAll ( )

overridevirtual

Execute stuff before everything else:

Check if -fp command line argument was given
Check if -mp command line argument was given

Reimplemented from elastix::BaseComponent.

◆ BeforeRegistration()

template<class TElastix >

void elastix::SplineKernelTransform< TElastix >::BeforeRegistration ( )

overridevirtual

Execute stuff before the actual registration:

Setup transform
Determine fixed image (source) landmarks
Determine moving image (target) landmarks
Call InitializeTransform.

Reimplemented from elastix::BaseComponent.

◆ CreateDerivedTransformParameterMap()

template<class TElastix >

ParameterMapType elastix::SplineKernelTransform< TElastix >::CreateDerivedTransformParameterMap ( ) const

overrideprivatevirtual

Creates a map of the parameters specific for this (derived) transform type.

Implements elastix::TransformBase< TElastix >.

◆ DetermineSourceLandmarks()

template<class TElastix >

virtual void elastix::SplineKernelTransform< TElastix >::DetermineSourceLandmarks ( )

protectedvirtual

Read source landmarks from fp file

Try reading -fp file

◆ DetermineTargetLandmarks()

template<class TElastix >

virtual bool elastix::SplineKernelTransform< TElastix >::DetermineTargetLandmarks ( )

protectedvirtual

Read target landmarks from mp file or load identity.

Try reading -mp file
If no -mp file was given, place landmarks as identity.

◆ elxClassNameMacro()

template<class TElastix >

elastix::SplineKernelTransform< TElastix >::elxClassNameMacro ( "SplineKernelTransform< TElastix >" )

Name of this class. Use this name in the parameter file to select this specific transform.
example: (Transform "SplineKernelTransform")

◆ GetClassName()

template<class TElastix >

virtual const char * elastix::SplineKernelTransform< TElastix >::GetClassName ( ) const

virtual

Run-time type information (and related methods).

Reimplemented from itk::AdvancedCombinationTransform< TScalarType, NDimensions >.

◆ ITK_DISALLOW_COPY_AND_MOVE()

template<class TElastix >

elastix::SplineKernelTransform< TElastix >::ITK_DISALLOW_COPY_AND_MOVE ( SplineKernelTransform< TElastix > )

◆ itkStaticConstMacro()

template<class TElastix >

elastix::SplineKernelTransform< TElastix >::itkStaticConstMacro	(	SpaceDimension	,
		unsigned int	,
		Superclass2::FixedImageDimension	)

Dimension of the domain space.

◆ New()

template<class TElastix >

static Pointer elastix::SplineKernelTransform< TElastix >::New ( )

static

Method for creation through the object factory.

◆ ReadFromFile()

template<class TElastix >

void elastix::SplineKernelTransform< TElastix >::ReadFromFile ( )

overridevirtual

Function to read transform-parameters from a file.

Reimplemented from elastix::TransformBase< TElastix >.

◆ ReadLandmarkFile()

template<class TElastix >

void elastix::SplineKernelTransform< TElastix >::ReadLandmarkFile	(	const std::string &	filename,
		PointSetPointer &	landmarkPointSet,
		const bool	landmarksInFixedImage )

protected

General function to read all landmarks.

◆ SetKernelType()

template<class TElastix >

virtual bool elastix::SplineKernelTransform< TElastix >::SetKernelType ( const std::string & kernelType )

protectedvirtual

Create an instance of a kernel transform. Returns false if the kernelType is unknown.

Field Documentation

◆ elxOverrideGetSelfMacro

template<class TElastix >

elastix::SplineKernelTransform< TElastix >::elxOverrideGetSelfMacro

private

Definition at line 240 of file elxSplineKernelTransform.h.

◆ m_KernelTransform

template<class TElastix >

KernelTransformPointer elastix::SplineKernelTransform< TElastix >::m_KernelTransform

protected

The itk kernel transform.

Definition at line 237 of file elxSplineKernelTransform.h.

◆ m_SplineKernelType

template<class TElastix >

std::string elastix::SplineKernelTransform< TElastix >::m_SplineKernelType

private

Definition at line 246 of file elxSplineKernelTransform.h.

Detailed Description

Public Types

Public Member Functions

Static Public Member Functions

Protected Types

Protected Member Functions

Protected Attributes

Private Member Functions

Private Attributes

Member Typedef Documentation

◆ CombinationTransformType

◆ ConstPointer

◆ CoordRepType

◆ EBKernelTransformType

◆ EBRKernelTransformType

◆ FixedImageType

◆ ITKBaseType

◆ KernelTransformPointer

◆ KernelTransformType

◆ MovingImageType

◆ ParameterMapType

◆ Pointer

◆ PointSetPointer

◆ PointSetType

◆ Self

◆ Superclass1

◆ Superclass2

◆ TPKernelTransformType

◆ TPRKernelTransformType

◆ VKernelTransformType

Constructor & Destructor Documentation

◆ SplineKernelTransform()

◆ ~SplineKernelTransform()

Member Function Documentation

◆ BeforeAll()

◆ BeforeRegistration()

◆ CreateDerivedTransformParameterMap()

◆ DetermineSourceLandmarks()

◆ DetermineTargetLandmarks()

◆ elxClassNameMacro()

◆ GetClassName()

◆ ITK_DISALLOW_COPY_AND_MOVE()

◆ itkStaticConstMacro()

◆ New()

◆ ReadFromFile()

◆ ReadLandmarkFile()

◆ SetKernelType()

Field Documentation

◆ elxOverrideGetSelfMacro

◆ m_KernelTransform

◆ m_SplineKernelType