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elastix::SimilarityTransformElastix< TElastix > Class Template Reference

#include <elxSimilarityTransform.h>

Inheritance diagram for elastix::SimilarityTransformElastix< TElastix >:
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Collaboration diagram for elastix::SimilarityTransformElastix< TElastix >:
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Public Types

typedef
Superclass2::CombinationTransformType 
CombinationTransformType
typedef
Superclass2::ConfigurationPointer 
ConfigurationPointer
typedef
Superclass2::ConfigurationType 
ConfigurationType
typedef SmartPointer< const SelfConstPointer
typedef Superclass2::CoordRepType CoordRepType
typedef
FixedImageType::DirectionType 
DirectionType
typedef Superclass2::ElastixPointer ElastixPointer
typedef Superclass2::ElastixType ElastixType
typedef Superclass2::FixedImageType FixedImageType
typedef FixedImageType::IndexType IndexType
typedef IndexType::IndexValueType IndexValueType
typedef
Superclass1::InputCovariantVectorType 
InputCovariantVectorType
typedef Superclass1::InputPointType InputPointType
typedef
Superclass1::InputVectorType 
InputVectorType
typedef
Superclass1::InputVnlVectorType 
InputVnlVectorType
typedef Superclass2::ITKBaseType ITKBaseType
typedef Superclass1::JacobianType JacobianType
typedef
Superclass2::MovingImageType 
MovingImageType
typedef
SimilarityTransformType::OffsetType 
OffsetType
typedef
Superclass1::OutputCovariantVectorType 
OutputCovariantVectorType
typedef
Superclass1::OutputPointType 
OutputPointType
typedef
Superclass1::OutputVectorType 
OutputVectorType
typedef
Superclass1::OutputVnlVectorType 
OutputVnlVectorType
typedef Superclass1::ParametersType ParametersType
typedef SmartPointer< SelfPointer
typedef FixedImageType::PointType PointType
typedef FixedImageType::RegionType RegionType
typedef
Superclass2::RegistrationPointer 
RegistrationPointer
typedef
Superclass2::RegistrationType 
RegistrationType
typedef Superclass1::ScalarType ScalarType
typedef Superclass2::ScalesType ScalesType
typedef SimilarityTransformElastix Self
typedef
SimilarityTransformType::Pointer 
SimilarityTransformPointer
typedef SimilarityTransform
< typename elx::TransformBase
< TElastix >::CoordRepType,
elx::TransformBase< TElastix >
::FixedImageDimension > 
SimilarityTransformType
typedef FixedImageType::SizeType SizeType
typedef FixedImageType::SpacingType SpacingType
typedef
AdvancedCombinationTransform
< typename elx::TransformBase
< TElastix >::CoordRepType,
elx::TransformBase< TElastix >
::FixedImageDimension > 
Superclass1
typedef elx::TransformBase
< TElastix > 
Superclass2
typedef
TransformInitializerType::Pointer 
TransformInitializerPointer
typedef
CenteredTransformInitializer
< SimilarityTransformType,
FixedImageType,
MovingImageType
TransformInitializerType
- Public Types inherited from itk::AdvancedCombinationTransform< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
typedef SmartPointer< const SelfConstPointer
typedef
CurrentTransformType::Pointer 
CurrentTransformPointer
typedef Superclass CurrentTransformType
typedef const JacobianType
&(Self::* 
GetJacobianFunctionPointer )(const InputPointType &) const
typedef void(Self::* GetJacobianOfSpatialHessianFunctionPointer )(const InputPointType &, JacobianOfSpatialHessianType &, NonZeroJacobianIndicesType &) const
typedef void(Self::* GetJacobianOfSpatialHessianFunctionPointer2 )(const InputPointType &, SpatialHessianType &, JacobianOfSpatialHessianType &, NonZeroJacobianIndicesType &) const
typedef void(Self::* GetJacobianOfSpatialJacobianFunctionPointer )(const InputPointType &, JacobianOfSpatialJacobianType &, NonZeroJacobianIndicesType &) const
typedef void(Self::* GetJacobianOfSpatialJacobianFunctionPointer2 )(const InputPointType &, SpatialJacobianType &, JacobianOfSpatialJacobianType &, NonZeroJacobianIndicesType &) const
typedef void(Self::* GetSparseJacobianFunctionPointer )(const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const
typedef void(Self::* GetSpatialHessianFunctionPointer )(const InputPointType &, SpatialHessianType &) const
typedef void(Self::* GetSpatialJacobianFunctionPointer )(const InputPointType &, SpatialJacobianType &) const
typedef
InitialTransformType::ConstPointer 
InitialTransformConstPointer
typedef
InitialTransformType::Pointer 
InitialTransformPointer
typedef Superclass InitialTransformType
typedef
Superclass::InputCovariantVectorType 
InputCovariantVectorType
typedef Superclass::InputPointType InputPointType
typedef Superclass::InputVectorType InputVectorType
typedef
Superclass::InputVnlVectorType 
InputVnlVectorType
typedef
Superclass::InternalMatrixType 
InternalMatrixType
typedef
Superclass::JacobianOfSpatialHessianType 
JacobianOfSpatialHessianType
typedef
Superclass::JacobianOfSpatialJacobianType 
JacobianOfSpatialJacobianType
typedef Superclass::JacobianType JacobianType
typedef
Superclass::NonZeroJacobianIndicesType 
NonZeroJacobianIndicesType
typedef
Superclass::OutputCovariantVectorType 
OutputCovariantVectorType
typedef Superclass::OutputPointType OutputPointType
typedef
Superclass::OutputVectorType 
OutputVectorType
typedef
Superclass::OutputVnlVectorType 
OutputVnlVectorType
typedef Superclass::ParametersType ParametersType
typedef SmartPointer< SelfPointer
typedef Superclass::ScalarType ScalarType
typedef
AdvancedCombinationTransform 
Self
typedef
Superclass::SpatialHessianType 
SpatialHessianType
typedef
Superclass::SpatialJacobianType 
SpatialJacobianType
typedef AdvancedTransform
< elx::TransformBase< TElastix >
::CoordRepType, NDimensions,
NDimensions > 
Superclass
typedef OutputPointType(Self::* TransformPointFunctionPointer )(const InputPointType &) const
- Public Types inherited from itk::AdvancedTransform< elx::TransformBase< TElastix >::CoordRepType, NDimensions, NDimensions >
typedef SmartPointer< const SelfConstPointer
typedef
Superclass::InputCovariantVectorType 
InputCovariantVectorType
typedef Superclass::InputPointType InputPointType
typedef Superclass::InputVectorType InputVectorType
typedef
Superclass::InputVnlVectorType 
InputVnlVectorType
typedef
SpatialJacobianType::InternalMatrixType 
InternalMatrixType
typedef std::vector
< SpatialHessianType
JacobianOfSpatialHessianType
typedef std::vector
< SpatialJacobianType
JacobianOfSpatialJacobianType
typedef Superclass::JacobianType JacobianType
typedef std::vector< unsigned
long > 
NonZeroJacobianIndicesType
typedef
Superclass::OutputCovariantVectorType 
OutputCovariantVectorType
typedef Superclass::OutputPointType OutputPointType
typedef
Superclass::OutputVectorType 
OutputVectorType
typedef
Superclass::OutputVnlVectorType 
OutputVnlVectorType
typedef Superclass::ParametersType ParametersType
typedef SmartPointer< SelfPointer
typedef Superclass::ScalarType ScalarType
typedef AdvancedTransform Self
typedef FixedArray< Matrix
< ScalarType,
InputSpaceDimension,
InputSpaceDimension >
, OutputSpaceDimension > 
SpatialHessianType
typedef Matrix< ScalarType,
OutputSpaceDimension,
InputSpaceDimension > 
SpatialJacobianType
typedef Transform
< elx::TransformBase< TElastix >
::CoordRepType,
NInputDimensions,
NOutputDimensions > 
Superclass
- Public Types inherited from elastix::TransformBase< TElastix >
typedef
itk::AdvancedCombinationTransform
< CoordRepType,
itkGetStaticConstMacro(FixedImageDimension) > 
CombinationTransformType
typedef
ConfigurationType::CommandLineArgumentMapType 
CommandLineArgumentMapType
typedef
ConfigurationType::CommandLineEntryType 
CommandLineEntryType
typedef ComponentDatabase ComponentDatabaseType
typedef
ComponentDatabaseType::ComponentDescriptionType 
ComponentDescriptionType
typedef
Superclass::ConfigurationPointer 
ConfigurationPointer
typedef
Superclass::ConfigurationType 
ConfigurationType
typedef ElastixType::CoordRepType CoordRepType
typedef Superclass::ElastixPointer ElastixPointer
typedef Superclass::ElastixType ElastixType
typedef ElastixType::FixedImageType FixedImageType
typedef
CombinationTransformType::InitialTransformType 
InitialTransformType
typedef ITKBaseType::InputPointType InputPointType
typedef itk::AdvancedTransform
< CoordRepType,
itkGetStaticConstMacro(FixedImageDimension),
itkGetStaticConstMacro(MovingImageDimension) > 
ITKBaseType
typedef
RegistrationType::ITKBaseType 
ITKRegistrationType
typedef
ElastixType::MovingImageType 
MovingImageType
typedef itk::Object ObjectType
typedef
ITKRegistrationType::OptimizerType 
OptimizerType
typedef
ITKBaseType::OutputPointType 
OutputPointType
typedef ITKBaseType::ParametersType ParametersType
typedef elx::ProgressCommand ProgressCommandType
typedef
ComponentDatabase::PtrToCreator 
PtrToCreator
typedef
Superclass::RegistrationPointer 
RegistrationPointer
typedef
Superclass::RegistrationType 
RegistrationType
typedef OptimizerType::ScalesType ScalesType
typedef TransformBase Self
typedef BaseComponentSE< TElastix > Superclass
typedef ParametersType::ValueType ValueType
- Public Types inherited from elastix::BaseComponentSE< TElastix >
typedef
ElastixType::ConfigurationPointer 
ConfigurationPointer
typedef
ElastixType::ConfigurationType 
ConfigurationType
typedef ElastixType::Pointer ElastixPointer
typedef TElastix ElastixType
typedef RegistrationTypeRegistrationPointer
typedef
ElastixType::RegistrationBaseType 
RegistrationType
typedef BaseComponentSE Self
typedef BaseComponent Superclass

Public Member Functions

virtual void BeforeRegistration (void)
 elxClassNameMacro ("SimilarityTransform")
virtual const char * GetClassName () const
virtual void InitializeTransform (void)
 itkStaticConstMacro (SpaceDimension, unsigned int, Superclass2::FixedImageDimension)
virtual void ReadFromFile (void)
virtual void SetScales (void)
virtual void WriteToFile (const ParametersType &param) const
- Public Member Functions inherited from itk::AdvancedCombinationTransform< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
virtual CurrentTransformTypeGetCurrentTransform ()
virtual const ParametersTypeGetFixedParameters (void) const
virtual bool GetHasNonZeroSpatialHessian (void) const
virtual const
InitialTransformType
GetInitialTransform ()
virtual bool GetInverse (Self *inverse) const
virtual const JacobianTypeGetJacobian (const InputPointType &point) const
virtual void GetJacobian (const InputPointType &ipp, JacobianType &j, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialHessian (const InputPointType &ipp, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialHessian (const InputPointType &ipp, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialJacobian (const InputPointType &ipp, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialJacobian (const InputPointType &ipp, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual unsigned long GetNumberOfNonZeroJacobianIndices (void) const
virtual unsigned int GetNumberOfParameters (void) const
virtual const ParametersTypeGetParameters (void) const
virtual void GetSpatialHessian (const InputPointType &ipp, SpatialHessianType &sh) const
virtual void GetSpatialJacobian (const InputPointType &ipp, SpatialJacobianType &sj) const
virtual bool GetUseAddition () const
virtual bool GetUseComposition () const
virtual bool HasNonZeroJacobianOfSpatialHessian (void) const
virtual bool IsLinear (void) const
 itkStaticConstMacro (SpaceDimension, unsigned int, NDimensions)
virtual void SetCurrentTransform (CurrentTransformType *_arg)
virtual void SetFixedParameters (const ParametersType &fixedParam)
virtual void SetInitialTransform (const InitialTransformType *_arg)
virtual void SetParameters (const ParametersType &param)
virtual void SetParametersByValue (const ParametersType &param)
virtual void SetUseAddition (bool _arg)
virtual void SetUseComposition (bool _arg)
virtual OutputPointType TransformPoint (const InputPointType &point) const
- Public Member Functions inherited from itk::AdvancedTransform< elx::TransformBase< TElastix >::CoordRepType, NDimensions, NDimensions >
virtual bool GetHasNonZeroJacobianOfSpatialHessian () const
virtual void GetJacobian (const InputPointType &ipp, JacobianType &j, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialHessian (const InputPointType &ipp, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialHessian (const InputPointType &ipp, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialJacobian (const InputPointType &ipp, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialJacobian (const InputPointType &ipp, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetSpatialHessian (const InputPointType &ipp, SpatialHessianType &sh) const
virtual void GetSpatialJacobian (const InputPointType &ipp, SpatialJacobianType &sj) const
 itkStaticConstMacro (InputSpaceDimension, unsigned int, NInputDimensions)
 itkStaticConstMacro (OutputSpaceDimension, unsigned int, NOutputDimensions)
- Public Member Functions inherited from elastix::TransformBase< TElastix >
virtual void AfterRegistrationBase (void)
virtual int BeforeAllBase (void)
virtual int BeforeAllTransformix (void)
virtual void BeforeRegistrationBase (void)
virtual void ComputeDeterminantOfSpatialJacobian (void) const
virtual void ComputeSpatialJacobian (void) const
virtual const
CombinationTransformType
GetAsCombinationTransform (void) const
virtual CombinationTransformTypeGetAsCombinationTransform (void)
virtual ITKBaseTypeGetAsITKBaseType (void)
virtual const ITKBaseTypeGetAsITKBaseType (void) const
virtual const
InitialTransformType
GetInitialTransform (void) const
virtual const char * GetTransformParametersFileName () const
 itkStaticConstMacro (FixedImageDimension, unsigned int, FixedImageType::ImageDimension)
 itkStaticConstMacro (MovingImageDimension, unsigned int, MovingImageType::ImageDimension)
virtual void ReadInitialTransformFromFile (const char *transformParameterFileName)
virtual void SetFinalParameters (void)
virtual void SetInitialTransform (InitialTransformType *_arg)
virtual void SetReadWriteTransformParameters (const bool _arg)
virtual void SetTransformParametersFileName (const char *filename)
virtual void TransformPoints (void) const
virtual void TransformPointsAllPoints (void) const
virtual void TransformPointsSomePoints (const std::string filename) const
virtual void TransformPointsSomePointsVTK (const std::string filename) const
virtual void WriteToFile (void) const
- Public Member Functions inherited from elastix::BaseComponentSE< TElastix >
virtual ConfigurationTypeGetConfiguration (void) const
virtual ElastixTypeGetElastix (void) const
virtual RegistrationPointer GetRegistration (void) const
virtual void SetConfiguration (ConfigurationType *_arg)
virtual void SetElastix (ElastixType *_arg)
- Public Member Functions inherited from elastix::BaseComponent
virtual void AfterEachIteration (void)
virtual void AfterEachIterationBase (void)
virtual void AfterEachResolution (void)
virtual void AfterEachResolutionBase (void)
virtual void AfterRegistration (void)
virtual int BeforeAll (void)
virtual void BeforeEachResolution (void)
virtual void BeforeEachResolutionBase (void)
virtual const char * elxGetClassName (void) const
virtual const char * GetComponentLabel (void) const
virtual void SetComponentLabel (const char *label, unsigned int idx)

Static Public Member Functions

static Pointer New ()

Protected Member Functions

virtual bool ReadCenterOfRotationIndex (InputPointType &rotationPoint) const
virtual bool ReadCenterOfRotationPoint (InputPointType &rotationPoint) const
 SimilarityTransformElastix ()
virtual ~SimilarityTransformElastix ()
- Protected Member Functions inherited from itk::AdvancedCombinationTransform< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
 AdvancedCombinationTransform ()
const JacobianTypeGetJacobianNoCurrentTransform (const InputPointType &point) const
void GetJacobianNoCurrentTransform (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const
const JacobianTypeGetJacobianNoInitialTransform (const InputPointType &point) const
void GetJacobianNoInitialTransform (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const
void GetJacobianOfSpatialHessianNoCurrentTransform (const InputPointType &ipp, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialHessianNoCurrentTransform (const InputPointType &ipp, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialHessianNoInitialTransform (const InputPointType &ipp, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialHessianNoInitialTransform (const InputPointType &ipp, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialHessianUseAddition (const InputPointType &ipp, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialHessianUseAddition (const InputPointType &ipp, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialHessianUseComposition (const InputPointType &ipp, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
virtual void GetJacobianOfSpatialHessianUseComposition (const InputPointType &ipp, SpatialHessianType &sh, JacobianOfSpatialHessianType &jsh, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianNoCurrentTransform (const InputPointType &ipp, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianNoCurrentTransform (const InputPointType &ipp, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianNoInitialTransform (const InputPointType &ipp, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianNoInitialTransform (const InputPointType &ipp, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianUseAddition (const InputPointType &ipp, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianUseAddition (const InputPointType &ipp, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianUseComposition (const InputPointType &ipp, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
void GetJacobianOfSpatialJacobianUseComposition (const InputPointType &ipp, SpatialJacobianType &sj, JacobianOfSpatialJacobianType &jsj, NonZeroJacobianIndicesType &nonZeroJacobianIndices) const
const JacobianTypeGetJacobianUseAddition (const InputPointType &point) const
void GetJacobianUseAddition (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const
const JacobianTypeGetJacobianUseComposition (const InputPointType &point) const
void GetJacobianUseComposition (const InputPointType &, JacobianType &, NonZeroJacobianIndicesType &) const
void GetSpatialHessianNoCurrentTransform (const InputPointType &ipp, SpatialHessianType &sh) const
void GetSpatialHessianNoInitialTransform (const InputPointType &ipp, SpatialHessianType &sh) const
void GetSpatialHessianUseAddition (const InputPointType &ipp, SpatialHessianType &sh) const
void GetSpatialHessianUseComposition (const InputPointType &ipp, SpatialHessianType &sh) const
void GetSpatialJacobianNoCurrentTransform (const InputPointType &ipp, SpatialJacobianType &sj) const
void GetSpatialJacobianNoInitialTransform (const InputPointType &ipp, SpatialJacobianType &sj) const
void GetSpatialJacobianUseAddition (const InputPointType &ipp, SpatialJacobianType &sj) const
void GetSpatialJacobianUseComposition (const InputPointType &ipp, SpatialJacobianType &sj) const
virtual void NoCurrentTransformSet (void) const throw (ExceptionObject)
OutputPointType TransformPointNoCurrentTransform (const InputPointType &point) const
OutputPointType TransformPointNoInitialTransform (const InputPointType &point) const
OutputPointType TransformPointUseAddition (const InputPointType &point) const
OutputPointType TransformPointUseComposition (const InputPointType &point) const
virtual void UpdateCombinationMethod (void)
virtual ~AdvancedCombinationTransform ()
- Protected Member Functions inherited from itk::AdvancedTransform< elx::TransformBase< TElastix >::CoordRepType, NDimensions, NDimensions >
 AdvancedTransform ()
 AdvancedTransform (unsigned int Dimension, unsigned int NumberOfParameters)
virtual ~AdvancedTransform ()
- Protected Member Functions inherited from elastix::TransformBase< TElastix >
void AutomaticScalesEstimation (ScalesType &scales) const
 TransformBase ()
virtual ~TransformBase ()
- Protected Member Functions inherited from elastix::BaseComponentSE< TElastix >
 BaseComponentSE ()
virtual ~BaseComponentSE ()
- Protected Member Functions inherited from elastix::BaseComponent
 BaseComponent ()
virtual ~BaseComponent ()

Private Member Functions

void operator= (const Self &)
 SimilarityTransformElastix (const Self &)

Private Attributes

SimilarityTransformPointer m_SimilarityTransform

Additional Inherited Members

- Protected Attributes inherited from itk::AdvancedCombinationTransform< elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension >
CurrentTransformPointer m_CurrentTransform
InitialTransformConstPointer m_InitialTransform
GetJacobianFunctionPointer m_SelectedGetJacobianFunction
GetJacobianOfSpatialHessianFunctionPointer m_SelectedGetJacobianOfSpatialHessianFunction
GetJacobianOfSpatialHessianFunctionPointer2 m_SelectedGetJacobianOfSpatialHessianFunction2
GetJacobianOfSpatialJacobianFunctionPointer m_SelectedGetJacobianOfSpatialJacobianFunction
GetJacobianOfSpatialJacobianFunctionPointer2 m_SelectedGetJacobianOfSpatialJacobianFunction2
GetSparseJacobianFunctionPointer m_SelectedGetSparseJacobianFunction
GetSpatialHessianFunctionPointer m_SelectedGetSpatialHessianFunction
GetSpatialJacobianFunctionPointer m_SelectedGetSpatialJacobianFunction
TransformPointFunctionPointer m_SelectedTransformPointFunction
bool m_UseAddition
bool m_UseComposition
- Protected Attributes inherited from elastix::TransformBase< TElastix >
ParametersType m_FinalParameters
std::string m_TransformParametersFileName
ParametersTypem_TransformParametersPointer

Detailed Description

template<class TElastix>
class elastix::SimilarityTransformElastix< TElastix >

A transform based on the itk SimilarityTransforms.

This transform is a rigid body transformation, with an isotropic scaling. In 2D, the order of parameters is:
[scale, rotation angle, translationx, translationy]
In 3D, the order of parameters is:
[versor1 versor2 versor3 translationx translationy translationz scale]
Make sure, when specifying the Scales manually that you keep in mind this order!

The parameters used in this class are:

Parameters:
Transform: Select this transform as follows:
(Transform "SimilarityTransform")
Parameters:
Scales: the scale factor between the rotations, translations, and the isotropic scaling, used in the optimizer.
example: (Scales 100000.0 60000.0 ... 80000.0)
With this transform, the number of arguments should be equal to the number of parameters: for each parameter its scale factor. If this parameter option is not used, by default the rotations are scaled by a factor of 100000.0 and the scale by a factor 10000.0. These are rather arbitrary values. See also the AutomaticScalesEstimation parameter. See also the comment in the documentation of SimilarityTransformElastix about the order of the parameters in 2D and 3D.
Parameters:
AutomaticScalesEstimation: if this parameter is set to "true" the Scales parameter is ignored and the scales are determined automatically.
example: ( AutomaticScalesEstimation "true" )
Default: "false" (for backwards compatibility). Recommended: "true".
Parameters:
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.
Parameters:
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.
Parameters:
AutomaticTransformInitializationMethod: how to initialize this transform. Should be one of {GeometricalCenter, CenterOfGravity}.
example: (AutomaticTransformInitializationMethod "CenterOfGravity")
By default "GeometricalCenter" is assumed.

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

Definition at line 77 of file elxSimilarityTransform.h.

Member Typedef Documentation

Definition at line 146 of file elxSimilarityTransform.h.

Definition at line 139 of file elxSimilarityTransform.h.

Definition at line 138 of file elxSimilarityTransform.h.

template<class TElastix >
typedef SmartPointer<const Self> elastix::SimilarityTransformElastix< TElastix >::ConstPointer

Definition at line 92 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass2::CoordRepType elastix::SimilarityTransformElastix< TElastix >::CoordRepType

Definition at line 142 of file elxSimilarityTransform.h.

template<class TElastix >
typedef FixedImageType::DirectionType elastix::SimilarityTransformElastix< TElastix >::DirectionType

Definition at line 155 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass2::ElastixPointer elastix::SimilarityTransformElastix< TElastix >::ElastixPointer

Definition at line 137 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass2::ElastixType elastix::SimilarityTransformElastix< TElastix >::ElastixType

Typedef's inherited from TransformBase.

Definition at line 136 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass2::FixedImageType elastix::SimilarityTransformElastix< TElastix >::FixedImageType

Definition at line 143 of file elxSimilarityTransform.h.

template<class TElastix >
typedef FixedImageType::IndexType elastix::SimilarityTransformElastix< TElastix >::IndexType

Other typedef's.

Definition at line 149 of file elxSimilarityTransform.h.

template<class TElastix >
typedef IndexType::IndexValueType elastix::SimilarityTransformElastix< TElastix >::IndexValueType

Definition at line 150 of file elxSimilarityTransform.h.

Definition at line 126 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass1::InputPointType elastix::SimilarityTransformElastix< TElastix >::InputPointType

Definition at line 122 of file elxSimilarityTransform.h.

Definition at line 124 of file elxSimilarityTransform.h.

Definition at line 128 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass2::ITKBaseType elastix::SimilarityTransformElastix< TElastix >::ITKBaseType

Definition at line 145 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass1::JacobianType elastix::SimilarityTransformElastix< TElastix >::JacobianType

Definition at line 120 of file elxSimilarityTransform.h.

Definition at line 144 of file elxSimilarityTransform.h.

template<class TElastix >
typedef SimilarityTransformType::OffsetType elastix::SimilarityTransformElastix< TElastix >::OffsetType

Definition at line 133 of file elxSimilarityTransform.h.

Definition at line 127 of file elxSimilarityTransform.h.

Definition at line 123 of file elxSimilarityTransform.h.

Definition at line 125 of file elxSimilarityTransform.h.

Definition at line 129 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass1::ParametersType elastix::SimilarityTransformElastix< TElastix >::ParametersType

Definition at line 119 of file elxSimilarityTransform.h.

template<class TElastix >
typedef SmartPointer<Self> elastix::SimilarityTransformElastix< TElastix >::Pointer

Definition at line 91 of file elxSimilarityTransform.h.

template<class TElastix >
typedef FixedImageType::PointType elastix::SimilarityTransformElastix< TElastix >::PointType

Definition at line 152 of file elxSimilarityTransform.h.

template<class TElastix >
typedef FixedImageType::RegionType elastix::SimilarityTransformElastix< TElastix >::RegionType

Definition at line 154 of file elxSimilarityTransform.h.

Definition at line 141 of file elxSimilarityTransform.h.

Definition at line 140 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass1::ScalarType elastix::SimilarityTransformElastix< TElastix >::ScalarType

Typedefs inherited from the superclass. These are both in Similarity2D and Similarity3D.

Definition at line 118 of file elxSimilarityTransform.h.

template<class TElastix >
typedef Superclass2::ScalesType elastix::SimilarityTransformElastix< TElastix >::ScalesType

For scales setting in the optimizer

Definition at line 162 of file elxSimilarityTransform.h.

template<class TElastix >
typedef SimilarityTransformElastix elastix::SimilarityTransformElastix< TElastix >::Self

Standard ITK-stuff.

Definition at line 86 of file elxSimilarityTransform.h.

template<class TElastix >
typedef SimilarityTransformType::Pointer elastix::SimilarityTransformElastix< TElastix >::SimilarityTransformPointer

NOTE: use this one only in 3D (otherwise it's just an int).

Definition at line 132 of file elxSimilarityTransform.h.

template<class TElastix >
typedef SimilarityTransform< typename elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension > elastix::SimilarityTransformElastix< TElastix >::SimilarityTransformType

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

Definition at line 98 of file elxSimilarityTransform.h.

template<class TElastix >
typedef FixedImageType::SizeType elastix::SimilarityTransformElastix< TElastix >::SizeType

Definition at line 151 of file elxSimilarityTransform.h.

template<class TElastix >
typedef FixedImageType::SpacingType elastix::SimilarityTransformElastix< TElastix >::SpacingType

Definition at line 153 of file elxSimilarityTransform.h.

template<class TElastix >
typedef AdvancedCombinationTransform< typename elx::TransformBase< TElastix >::CoordRepType, elx::TransformBase< TElastix >::FixedImageDimension > elastix::SimilarityTransformElastix< TElastix >::Superclass1

Definition at line 89 of file elxSimilarityTransform.h.

template<class TElastix >
typedef elx::TransformBase< TElastix > elastix::SimilarityTransformElastix< TElastix >::Superclass2

Definition at line 90 of file elxSimilarityTransform.h.

template<class TElastix >
typedef TransformInitializerType::Pointer elastix::SimilarityTransformElastix< TElastix >::TransformInitializerPointer

Definition at line 159 of file elxSimilarityTransform.h.

template<class TElastix >
typedef CenteredTransformInitializer< SimilarityTransformType, FixedImageType, MovingImageType> elastix::SimilarityTransformElastix< TElastix >::TransformInitializerType

Definition at line 158 of file elxSimilarityTransform.h.

Constructor & Destructor Documentation

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

The constructor.

template<class TElastix >
virtual elastix::SimilarityTransformElastix< TElastix >::~SimilarityTransformElastix ( )
inlineprotectedvirtual

The destructor.

Definition at line 212 of file elxSimilarityTransform.h.

template<class TElastix >
elastix::SimilarityTransformElastix< TElastix >::SimilarityTransformElastix ( const Self )
private

The private constructor.

Member Function Documentation

template<class TElastix >
virtual void elastix::SimilarityTransformElastix< TElastix >::BeforeRegistration ( void  )
virtual

Execute stuff before the actual registration:

  • Call InitializeTransform
  • Set the scales.

Reimplemented from elastix::BaseComponent.

template<class TElastix >
elastix::SimilarityTransformElastix< TElastix >::elxClassNameMacro ( "SimilarityTransform"  )

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

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

Run-time type information (and related methods).

Reimplemented from elastix::TransformBase< TElastix >.

template<class TElastix >
virtual void elastix::SimilarityTransformElastix< TElastix >::InitializeTransform ( void  )
virtual

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.

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

Dimension of the fixed image.

template<class TElastix >
static Pointer elastix::SimilarityTransformElastix< TElastix >::New ( )
static
template<class TElastix >
void elastix::SimilarityTransformElastix< TElastix >::operator= ( const Self )
private

The private copy constructor.

template<class TElastix >
virtual bool elastix::SimilarityTransformElastix< TElastix >::ReadCenterOfRotationIndex ( InputPointType rotationPoint) const
protectedvirtual

Try to read the CenterOfRotation from the transform parameter file This is an index value, and, thus, converted to world coordinates. Transform parameter files generated by elastix version < 3.402 saved the center of rotation in this way.

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

Try to read the CenterOfRotationPoint from the transform parameter file The CenterOfRotationPoint is already in world coordinates. Transform parameter files generated by elastix version > 3.402 save the center of rotation in this way.

template<class TElastix >
virtual void elastix::SimilarityTransformElastix< TElastix >::ReadFromFile ( void  )
virtual

Function to read transform-parameters from a file.

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

Reimplemented from elastix::TransformBase< TElastix >.

template<class TElastix >
virtual void elastix::SimilarityTransformElastix< TElastix >::SetScales ( void  )
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
template<class TElastix >
virtual void elastix::SimilarityTransformElastix< TElastix >::WriteToFile ( const ParametersType param) const
virtual

Function to write transform-parameters to a file. It writes the center of rotation to file and calls the superclass' implementation.

Reimplemented from elastix::TransformBase< TElastix >.

Field Documentation

template<class TElastix >
SimilarityTransformPointer elastix::SimilarityTransformElastix< TElastix >::m_SimilarityTransform
private

Definition at line 235 of file elxSimilarityTransform.h.



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