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elastix::AffineDTITransformElastix< TElastix > Class Template Reference

#include <elxAffineDTITransform.h>

Detailed Description

template<class TElastix>
class elastix::AffineDTITransformElastix< TElastix >

A transform based on the itk AffineDTITransform.

This transform is an affine transformation, with a different parametrisation than the usual one. It is specialised for MR-DTI applications. See also the description of the itk::AffineDTI3DTransform.

Warning
: the behaviour of this transform might still change in the future. It is still experimental.

The parameters used in this class are:

Parameters:

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

Scales: the scale factor for each parameter, used by the optimizer.
example: (Scales -1 -1 -1 100000000 -1 -1 -1 -1 -1 -1 -1 -1)
The scales work a bit different in this transformation, compared with the other transformations like the EulerTransform. By default, if no scales are supplied, the scales are estimated automatically. With the scales parameter, the user can override the automatically determined scales. Values smaller than or equal to 0 are ignored: the automatically estimated value is used for these parameters. Positive values override the automatically estimated scales. So, in the example above, the shear_x parameter is given a very large scale, which effectively turns off the optimization of that parameters. This might be useful in some MR-DTI application.

CenterOfRotation: an index around which the image is rotated.
example: (CenterOfRotation 128 128 90)
By default the CenterOfRotation is set to the geometric center of the image.

AutomaticTransformInitialization: whether or not the initial translation between images should be estimated as the distance between their centers.
example: (AutomaticTransformInitialization "true")
By default "false" is assumed. So, no initial translation.

The transform parameters necessary for transformix, additionally defined by this class, are: *

Transform Parameters:

CenterOfRotation: stores the center of rotation as an index.
example: (CenterOfRotation 128 128 90)
depecrated! From elastix version 3.402 this is changed to CenterOfRotationPoint!

CenterOfRotationPoint: stores the center of rotation, expressed in world coordinates.
example: (CenterOfRotationPoint 10.555 6.666 12.345)

MatrixTranslation: the parameters as matrix and translation, so written in the same way as the parameters of the normal AffineTransform.
example: (MatrixTranslation 1 0 0 0 1 0 0 0 0.9 0.1 0.1 0.2)
This parameter is just for convenience, so that the user can compare the results between the AffineTransform and AffineDTITransform. It is not a mandatory parameter.

See also
AffineDTI3DTransform

Definition at line 78 of file elxAffineDTITransform.h.

Inheritance diagram for elastix::AffineDTITransformElastix< TElastix >:
Inheritance graph
[legend]

Public Types

using AffineDTITransformPointer = typename AffineDTITransformType::Pointer
 
using AffineDTITransformType = itk::AffineDTITransform< typename elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
 
using CombinationTransformType = typename Superclass2::CombinationTransformType
 
using ConstPointer = itk::SmartPointer< const Self >
 
using CoordRepType = ElastixBase::CoordRepType
 
using DirectionType = typename FixedImageType::DirectionType
 
using FixedImageType = typename TElastix::FixedImageType
 
using IndexType = typename FixedImageType::IndexType
 
using IndexValueType = typename IndexType::IndexValueType
 
using ITKBaseType = typename Superclass2::ITKBaseType
 
using MovingImageType = typename TElastix::MovingImageType
 
using OffsetType = typename AffineDTITransformType::OffsetType
 
using ParameterMapType = typename TElastix::ParameterMapType
 
using Pointer = itk::SmartPointer< Self >
 
using PointType = typename FixedImageType::PointType
 
using RegionType = typename FixedImageType::RegionType
 
using ScalesType = typename OptimizerType::ScalesType
 
using Self = AffineDTITransformElastix
 
using SizeType = typename FixedImageType::SizeType
 
using SpacingType = typename FixedImageType::SpacingType
 
using Superclass1 = itk::AdvancedCombinationTransform< typename elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
 
using Superclass2 = elx::TransformBase< TElastix >
 
using TransformInitializerPointer = typename TransformInitializerType::Pointer
 
using TransformInitializerType = itk::CenteredTransformInitializer< AffineDTITransformType, FixedImageType, MovingImageType >
 
- Public Types inherited from itk::AdvancedCombinationTransform< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
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< elx::TransformBase< TElastix >::CoordRepType, NDimensions, NDimensions >
 
using TransformType = typename Superclass::TransformType
 
using TransformTypeConstPointer = typename TransformType::ConstPointer
 
using TransformTypePointer = typename TransformType::Pointer
 
- Public Types inherited from itk::AdvancedTransform< TScalarType, NInputDimensions, NOutputDimensions >
using ConstPointer = SmartPointer< const Self >
 
using InternalMatrixType = typename SpatialJacobianType::InternalMatrixType
 
using InverseTransformBaseType = typename Superclass::InverseTransformBaseType
 
using JacobianOfSpatialHessianType = std::vector< SpatialHessianType >
 
using JacobianOfSpatialJacobianType = std::vector< SpatialJacobianType >
 
using MovingImageGradientType = OutputCovariantVectorType
 
using MovingImageGradientValueType = typename MovingImageGradientType::ValueType
 
using NonZeroJacobianIndicesType = std::vector< unsigned long >
 
using Pointer = SmartPointer< Self >
 
using Self = AdvancedTransform
 
using SpatialHessianType = FixedArray< Matrix< ScalarType, InputSpaceDimension, InputSpaceDimension >, OutputSpaceDimension >
 
using SpatialJacobianType = Matrix< ScalarType, OutputSpaceDimension, InputSpaceDimension >
 
using Superclass = Transform< TScalarType, NInputDimensions, NOutputDimensions >
 
using TransformType = Transform< TScalarType, NInputDimensions, NOutputDimensions >
 
using TransformTypeConstPointer = typename TransformType::ConstPointer
 
using TransformTypePointer = typename TransformType::Pointer
 
- 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 ProgressCommandType = elx::ProgressCommand
 
using PtrToCreator = ComponentDatabase::PtrToCreator
 
using RegistrationType = typename ElastixType::RegistrationBaseType
 
using ScalesType = typename OptimizerType::ScalesType
 
using Self = TransformBase
 
using SpatialJacobianDeterminantImageType = itk::Image< float, FixedImageDimension >
 
using SpatialJacobianMatrixImageType = itk::Image< itk::Matrix< float, MovingImageDimension, FixedImageDimension >, FixedImageDimension >
 
using Superclass = BaseComponentSE< TElastix >
 
using ValueType = double
 
using VectorPixelType = itk::Vector< float, FixedImageDimension >
 
- Public Types inherited from elastix::BaseComponentSE< TElastix >
using ConfigurationPointer = Configuration::Pointer
 
using ElastixType = TElastix
 
using RegistrationType = typename ElastixType::RegistrationBaseType
 
using Self = BaseComponentSE
 
using Superclass = BaseComponent
 

Public Member Functions

void BeforeRegistration () override
 
 elxClassNameMacro ("AffineDTITransform")
 
virtual const char * GetClassName () const
 
 ITK_DISALLOW_COPY_AND_MOVE (AffineDTITransformElastix)
 
 itkStaticConstMacro (SpaceDimension, unsigned int, Superclass2::FixedImageDimension)
 
void ReadFromFile () override
 
virtual void SetScales ()
 
- Public Member Functions inherited from itk::AdvancedCombinationTransform< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
void EvaluateJacobianWithImageGradientProduct (const InputPointType &inputPoint, const MovingImageGradientType &movingImageGradient, DerivativeType &imageJacobian, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const override
 
virtual const char * GetClassName () const
 
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, NInputDimensions, NOutputDimensions >
void ComputeJacobianWithRespectToParameters (const InputPointType &, JacobianType &) const override
 
virtual void EvaluateJacobianWithImageGradientProduct (const InputPointType &inputPoint, const MovingImageGradientType &movingImageGradient, DerivativeType &imageJacobian, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
 
virtual const char * GetClassName () const
 
virtual bool GetHasNonZeroJacobianOfSpatialHessian () const
 
virtual bool GetHasNonZeroSpatialHessian () const
 
virtual void GetJacobian (const InputPointType &inputPoint, JacobianType &j, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const =0
 
virtual void GetJacobianOfSpatialHessian (const InputPointType &inputPoint, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const =0
 
virtual void GetJacobianOfSpatialHessian (const InputPointType &inputPoint, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const =0
 
virtual void GetJacobianOfSpatialJacobian (const InputPointType &inputPoint, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const =0
 
virtual void GetJacobianOfSpatialJacobian (const InputPointType &inputPoint, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const =0
 
virtual NumberOfParametersType GetNumberOfNonZeroJacobianIndices () const
 
virtual void GetSpatialHessian (const InputPointType &inputPoint, SpatialHessianType &sh) const =0
 
virtual void GetSpatialJacobian (const InputPointType &inputPoint, SpatialJacobianType &sj) const =0
 
 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 CreateTransformParametersMap (const ParametersType &param, ParameterMapType &parameterMap, const bool includeDerivedTransformParameters=true) const
 
ITKBaseTypeGetAsITKBaseType ()
 
const ITKBaseTypeGetAsITKBaseType () const
 
virtual const char * GetClassName () const
 
 ITK_DISALLOW_COPY_AND_MOVE (TransformBase)
 
 itkStaticConstMacro (FixedImageDimension, unsigned int, FixedImageType::ImageDimension)
 
 itkStaticConstMacro (MovingImageDimension, unsigned int, MovingImageType::ImageDimension)
 
virtual void ReadFromFile ()
 
void ReadInitialTransformFromFile (const char *transformParameterFileName)
 
void SetFinalParameters ()
 
void SetInitialTransform (InitialTransformType *_arg)
 
void SetReadWriteTransformParameters (const bool _arg)
 
void SetTransformParametersFileName (const char *filename)
 
template<typename TMesh >
TMesh::Pointer TransformMesh (const TMesh &mesh) const
 
void TransformPoints () const
 
void WriteToFile (xl::xoutsimple &transformationParameterInfo, const ParametersType &param) const
 
- Public Member Functions inherited from elastix::BaseComponentSE< TElastix >
void AddTargetCellToIterationInfo (const char *const name)
 
ConfigurationGetConfiguration () const
 
ElastixTypeGetElastix () const
 
xl::xoutbaseGetIterationInfoAt (const char *const name)
 
RegistrationTypeGetRegistration () const
 
 ITK_DISALLOW_COPY_AND_MOVE (BaseComponentSE)
 
int RemoveTargetCellFromIterationInfo (const char *const name)
 
void SetConfiguration (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 AfterRegistrationBase ()
 
virtual int BeforeAll ()
 
virtual int BeforeAllBase ()
 
virtual void BeforeEachResolution ()
 
virtual void BeforeEachResolutionBase ()
 
virtual void BeforeRegistration ()
 
virtual void BeforeRegistrationBase ()
 
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< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
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 Member Functions

 AffineDTITransformElastix ()
 
virtual bool ReadCenterOfRotationPoint (InputPointType &rotationPoint) const
 
 ~AffineDTITransformElastix () override=default
 
- Protected Member Functions inherited from itk::AdvancedCombinationTransform< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
 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, NInputDimensions, NOutputDimensions >
 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
 

Private Member Functions

ParameterMapType CreateDerivedTransformParametersMap () const override
 
void InitializeTransform ()
 

Private Attributes

 elxOverrideGetSelfMacro
 
const AffineDTITransformPointer m_AffineDTITransform { AffineDTITransformType::New() }
 

Additional Inherited Members

- Protected Attributes inherited from itk::AdvancedTransform< TScalarType, NInputDimensions, NOutputDimensions >
bool m_HasNonZeroJacobianOfSpatialHessian { true }
 
bool m_HasNonZeroSpatialHessian { true }
 
- Protected Attributes inherited from elastix::BaseComponentSE< TElastix >
ConfigurationPointer m_Configuration {}
 
itk::WeakPointer< TElastix > m_Elastix {}
 
RegistrationTypem_Registration {}
 

Member Typedef Documentation

◆ AffineDTITransformPointer

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::AffineDTITransformPointer = typename AffineDTITransformType::Pointer

Definition at line 131 of file elxAffineDTITransform.h.

◆ AffineDTITransformType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::AffineDTITransformType = itk::AffineDTITransform<typename elx::TransformBase<TElastix>::CoordRepType, elx::TransformBase<TElastix>::FixedImageDimension>

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

Definition at line 96 of file elxAffineDTITransform.h.

◆ CombinationTransformType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::CombinationTransformType = typename Superclass2::CombinationTransformType

Definition at line 142 of file elxAffineDTITransform.h.

◆ ConstPointer

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::ConstPointer = itk::SmartPointer<const Self>

Definition at line 92 of file elxAffineDTITransform.h.

◆ CoordRepType

template<class TElastix >
using elastix::TransformBase< TElastix >::CoordRepType = ElastixBase::CoordRepType

Elastix typedef's.

Definition at line 153 of file elxTransformBase.h.

◆ DirectionType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::DirectionType = typename FixedImageType::DirectionType

Definition at line 151 of file elxAffineDTITransform.h.

◆ FixedImageType

template<class TElastix >
using elastix::TransformBase< TElastix >::FixedImageType = typename TElastix::FixedImageType

Definition at line 154 of file elxTransformBase.h.

◆ IndexType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::IndexType = typename FixedImageType::IndexType

Other typedef's.

Definition at line 145 of file elxAffineDTITransform.h.

◆ IndexValueType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::IndexValueType = typename IndexType::IndexValueType

Definition at line 146 of file elxAffineDTITransform.h.

◆ ITKBaseType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::ITKBaseType = typename Superclass2::ITKBaseType

Definition at line 141 of file elxAffineDTITransform.h.

◆ MovingImageType

template<class TElastix >
using elastix::TransformBase< TElastix >::MovingImageType = typename TElastix::MovingImageType

Definition at line 155 of file elxTransformBase.h.

◆ OffsetType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::OffsetType = typename AffineDTITransformType::OffsetType

Definition at line 132 of file elxAffineDTITransform.h.

◆ ParameterMapType

template<class TElastix >
using elastix::TransformBase< TElastix >::ParameterMapType = typename 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::AffineDTITransformElastix< TElastix >::Pointer = itk::SmartPointer<Self>

Definition at line 91 of file elxAffineDTITransform.h.

◆ PointType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::PointType = typename FixedImageType::PointType

Definition at line 148 of file elxAffineDTITransform.h.

◆ RegionType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::RegionType = typename FixedImageType::RegionType

Definition at line 150 of file elxAffineDTITransform.h.

◆ ScalesType

template<class TElastix >
using elastix::TransformBase< TElastix >::ScalesType = typename OptimizerType::ScalesType

Definition at line 190 of file elxTransformBase.h.

◆ Self

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::Self = AffineDTITransformElastix

Standard ITK-stuff.

Definition at line 87 of file elxAffineDTITransform.h.

◆ SizeType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::SizeType = typename FixedImageType::SizeType

Definition at line 147 of file elxAffineDTITransform.h.

◆ SpacingType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::SpacingType = typename FixedImageType::SpacingType

Definition at line 149 of file elxAffineDTITransform.h.

◆ Superclass1

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::Superclass1 = itk::AdvancedCombinationTransform<typename elx::TransformBase<TElastix>::CoordRepType, elx::TransformBase<TElastix>::FixedImageDimension>

Definition at line 88 of file elxAffineDTITransform.h.

◆ Superclass2

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::Superclass2 = elx::TransformBase<TElastix>

Definition at line 90 of file elxAffineDTITransform.h.

◆ TransformInitializerPointer

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::TransformInitializerPointer = typename TransformInitializerType::Pointer

Definition at line 155 of file elxAffineDTITransform.h.

◆ TransformInitializerType

template<class TElastix >
using elastix::AffineDTITransformElastix< TElastix >::TransformInitializerType = itk::CenteredTransformInitializer<AffineDTITransformType, FixedImageType, MovingImageType>

Definition at line 153 of file elxAffineDTITransform.h.

Constructor & Destructor Documentation

◆ AffineDTITransformElastix()

template<class TElastix >
elastix::AffineDTITransformElastix< TElastix >::AffineDTITransformElastix ( )
protected

The constructor.

◆ ~AffineDTITransformElastix()

template<class TElastix >
elastix::AffineDTITransformElastix< TElastix >::~AffineDTITransformElastix ( )
overrideprotecteddefault

The destructor.

Member Function Documentation

◆ BeforeRegistration()

template<class TElastix >
void elastix::AffineDTITransformElastix< TElastix >::BeforeRegistration ( )
overridevirtual

Execute stuff before the actual registration:

  • Call InitializeTransform
  • Set the scales.

Reimplemented from elastix::BaseComponent.

◆ CreateDerivedTransformParametersMap()

template<class TElastix >
ParameterMapType elastix::AffineDTITransformElastix< TElastix >::CreateDerivedTransformParametersMap ( ) const
overrideprivatevirtual

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

Implements elastix::TransformBase< TElastix >.

◆ elxClassNameMacro()

template<class TElastix >
elastix::AffineDTITransformElastix< TElastix >::elxClassNameMacro ( "AffineDTITransform"  )

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

◆ GetClassName()

template<class TElastix >
virtual const char * elastix::AffineDTITransformElastix< TElastix >::GetClassName ( ) const
virtual

Run-time type information (and related methods).

Reimplemented from elastix::TransformBase< TElastix >.

◆ InitializeTransform()

template<class TElastix >
void elastix::AffineDTITransformElastix< TElastix >::InitializeTransform ( )
private

Initialize Transform.

  • Set all parameters to zero.
  • Set center of rotation: automatically initialized to the geometric center of the image, or assigned a user entered voxel index, given by the parameter (CenterOfRotation <index-x> <index-y> ...); If an initial transform is present and HowToCombineTransforms is set to "Compose", the initial transform is taken into account while setting the center of rotation.
  • Set initial translation: the initial translation between fixed and moving image is guessed, if the user has set (AutomaticTransformInitialization "true").

It is not yet possible to enter an initial rotation angle.

◆ ITK_DISALLOW_COPY_AND_MOVE()

template<class TElastix >
elastix::AffineDTITransformElastix< TElastix >::ITK_DISALLOW_COPY_AND_MOVE ( AffineDTITransformElastix< TElastix >  )

◆ itkStaticConstMacro()

template<class TElastix >
elastix::AffineDTITransformElastix< TElastix >::itkStaticConstMacro ( SpaceDimension  ,
unsigned int  ,
Superclass2::FixedImageDimension   
)

Dimension of the fixed image.

◆ New()

template<class TElastix >
static Pointer elastix::AffineDTITransformElastix< TElastix >::New ( )
static

Method for creation through the object factory.

◆ ReadCenterOfRotationPoint()

template<class TElastix >
virtual bool elastix::AffineDTITransformElastix< TElastix >::ReadCenterOfRotationPoint ( InputPointType rotationPoint) const
protectedvirtual

Try to read the CenterOfRotationPoint from the transform parameter file The CenterOfRotationPoint is already in world coordinates.

◆ ReadFromFile()

template<class TElastix >
void elastix::AffineDTITransformElastix< TElastix >::ReadFromFile ( )
overridevirtual

Function to read transform-parameters from a file.

It reads the center of rotation and calls the superclass' implementation.

Reimplemented from elastix::TransformBase< TElastix >.

◆ SetScales()

template<class TElastix >
virtual void elastix::AffineDTITransformElastix< TElastix >::SetScales ( )
virtual

Set the scales

  • If AutomaticScalesEstimation is "true" estimate scales
  • If scales are provided by the user use those,
  • Otherwise use some default value This function is called by BeforeRegistration, after the InitializeTransform function is called

Field Documentation

◆ elxOverrideGetSelfMacro

template<class TElastix >
elastix::AffineDTITransformElastix< TElastix >::elxOverrideGetSelfMacro
private

Definition at line 196 of file elxAffineDTITransform.h.

◆ m_AffineDTITransform

template<class TElastix >
const AffineDTITransformPointer elastix::AffineDTITransformElastix< TElastix >::m_AffineDTITransform { AffineDTITransformType::New() }
private

Definition at line 220 of file elxAffineDTITransform.h.



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