#include <elxFullSearchOptimizer.h>

Detailed Description

template<class TElastix>
class elastix::FullSearch< TElastix >

An optimizer based on the itk::FullSearchOptimizer.

Optimizer that scans a subspace of the parameter space and searches for the best parameters.

The results are written to the output-directory as an image OptimizationSurface.<elastixlevel>.R<resolution>.mhd", which is an N-dimensional float image, where N is the dimension of the search space.

The parameters used in this class are:

Parameters:

Optimizer: Select this optimizer as follows:
(Optimizer "FullSearch")

FullSearchSpace<r>: Defines for resolution r a range of parameters to scan.
Full syntax: (FullSearchSpace<r> <parameter_name> <parameter_nr> <min> <max> <stepsize> [...] )
example: (FullSearchSpace0 "translation_x" 2 -4.0 3.0 1.0 "rotation_y" 3 -1.0 1.0 0.5)
This varies the second transform parameter in the range [-4.0 3.0] with steps of 1.0 and the third parameter in the range [-1.0 1.0] with steps of 0.5. The names are used as column headers in the screen output.

See also: FullSearchOptimizer

Definition at line 57 of file elxFullSearchOptimizer.h.

Inheritance diagram for elastix::FullSearch< TElastix >:

[legend]

Public Types
typedef Superclass2::ConfigurationPointer	ConfigurationPointer

typedef Superclass2::ConfigurationType	ConfigurationType

typedef itk::SmartPointer< const Self >	ConstPointer

typedef Superclass1::CostFunctionPointer	CostFunctionPointer

typedef Superclass1::CostFunctionType	CostFunctionType

typedef std::map< unsigned int, std::string >	DimensionNameMapType

typedef Superclass2::ElastixPointer	ElastixPointer

typedef Superclass2::ElastixType	ElastixType

typedef Superclass2::ITKBaseType	ITKBaseType

typedef Superclass1::MeasureType	MeasureType

typedef DimensionNameMapType::const_iterator	NameIteratorType

typedef NDImageType::Pointer	NDImagePointer

typedef itk::NDImageBase< float >	NDImageType

typedef Superclass1::ParametersType	ParametersType

typedef Superclass1::ParameterValueType	ParameterValueType

typedef itk::SmartPointer< Self >	Pointer

typedef Superclass1::RangeType	RangeType

typedef Superclass1::RangeValueType	RangeValueType

typedef Superclass2::RegistrationPointer	RegistrationPointer

typedef Superclass2::RegistrationType	RegistrationType

typedef Superclass1::SearchSpaceIndexType	SearchSpaceIndexType

typedef Superclass1::SearchSpaceIteratorType	SearchSpaceIteratorType

typedef Superclass1::SearchSpacePointer	SearchSpacePointer

typedef Superclass1::SearchSpacePointType	SearchSpacePointType

typedef Superclass1::SearchSpaceSizeType	SearchSpaceSizeType

typedef Superclass1::SearchSpaceType	SearchSpaceType

typedef FullSearch	Self

typedef itk::FullSearchOptimizer	Superclass1

typedef OptimizerBase< TElastix >	Superclass2

Public Types inherited from itk::FullSearchOptimizer
typedef SmartPointer< const Self >	ConstPointer

typedef Superclass::CostFunctionPointer	CostFunctionPointer

typedef Superclass::CostFunctionType	CostFunctionType

typedef Superclass::MeasureType	MeasureType

typedef Superclass::ParametersType	ParametersType

typedef ParametersType::ValueType	ParameterValueType

typedef SmartPointer< Self >	Pointer

typedef FixedArray< RangeValueType, 3 >	RangeType

typedef ParameterValueType	RangeValueType

typedef Array< IndexValueType >	SearchSpaceIndexType

typedef SearchSpaceType::ConstIterator	SearchSpaceIteratorType

typedef SearchSpaceType::Pointer	SearchSpacePointer

typedef Array< ParameterValueType >	SearchSpacePointType

typedef Array< SizeValueType >	SearchSpaceSizeType

typedef MapContainer< unsigned int, RangeType >	SearchSpaceType

typedef FullSearchOptimizer	Self

enum	StopConditionType { FullRangeSearched, MetricError }

typedef SingleValuedNonLinearOptimizer	Superclass

Public Types inherited from elastix::OptimizerBase< TElastix >
typedef Superclass::ConfigurationPointer	ConfigurationPointer

typedef Superclass::ConfigurationType	ConfigurationType

typedef Superclass::ElastixPointer	ElastixPointer

typedef Superclass::ElastixType	ElastixType

typedef itk::Optimizer	ITKBaseType

typedef ITKBaseType::ParametersType	ParametersType

typedef Superclass::RegistrationPointer	RegistrationPointer

typedef Superclass::RegistrationType	RegistrationType

typedef OptimizerBase	Self

typedef BaseComponentSE< TElastix >	Superclass

Public Types inherited from elastix::BaseComponentSE< TElastix >
typedef ElastixType::ConfigurationPointer	ConfigurationPointer

typedef ElastixType::ConfigurationType	ConfigurationType

typedef ElastixType::Pointer	ElastixPointer

typedef TElastix	ElastixType

typedef RegistrationType *	RegistrationPointer

typedef ElastixType::RegistrationBaseType	RegistrationType

typedef BaseComponentSE	Self

typedef BaseComponent	Superclass

Public Member Functions
virtual void	AfterEachIteration (void)

virtual void	AfterEachResolution (void)

virtual void	AfterRegistration (void)

virtual void	BeforeEachResolution (void)

virtual void	BeforeRegistration (void)

	elxClassNameMacro ("FullSearch")

virtual const char *	GetClassName () const

virtual NDImageType *	GetOptimizationSurface ()

Public Member Functions inherited from itk::FullSearchOptimizer
virtual void	AddSearchDimension (unsigned int param_nr, RangeValueType minimum, RangeValueType maximum, RangeValueType step)

virtual const SearchSpaceIndexType &	GetBestIndexInSearchSpace ()

virtual const SearchSpacePointType &	GetBestPointInSearchSpace ()

virtual double	GetBestValue () const

virtual const SearchSpaceIndexType &	GetCurrentIndexInSearchSpace ()

virtual unsigned long	GetCurrentIteration () const

virtual const SearchSpacePointType &	GetCurrentPointInSearchSpace ()

virtual bool	GetMaximize () const

bool	GetMinimize () const

virtual unsigned long	GetNumberOfIterations (void)

virtual unsigned int	GetNumberOfSearchSpaceDimensions (void)

virtual SearchSpaceType *	GetSearchSpace ()

virtual const SearchSpaceSizeType &	GetSearchSpaceSize (void)

virtual StopConditionType	GetStopCondition () const

virtual double	GetValue () const

virtual SearchSpacePointType	IndexToPoint (const SearchSpaceIndexType &index)

virtual ParametersType	IndexToPosition (const SearchSpaceIndexType &index)

virtual void	MaximizeOff ()

virtual void	MaximizeOn ()

void	MinimizeOff ()

void	MinimizeOn ()

virtual ParametersType	PointToPosition (const SearchSpacePointType &point)

virtual void	RemoveSearchDimension (unsigned int param_nr)

virtual void	ResumeOptimization (void)

virtual void	SetMaximize (bool _arg)

void	SetMinimize (bool v)

virtual void	SetSearchSpace (SearchSpaceType *_arg)

virtual void	StartOptimization (void)

virtual void	StopOptimization (void)

virtual void	UpdateCurrentPosition (void)

Public Member Functions inherited from elastix::OptimizerBase< TElastix >
virtual void	AfterRegistrationBase (void)

virtual void	BeforeEachResolutionBase ()

virtual ITKBaseType *	GetAsITKBaseType (void)

virtual const ITKBaseType *	GetAsITKBaseType (void) const

virtual void	SetCurrentPositionPublic (const ParametersType &param)

virtual void	SetSinusScales (double amplitude, double frequency, unsigned long numberOfParameters)

Public Member Functions inherited from elastix::BaseComponentSE< TElastix >
virtual ConfigurationType *	GetConfiguration (void) const

virtual ElastixType *	GetElastix (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	AfterEachIterationBase (void)

virtual void	AfterEachResolutionBase (void)

virtual int	BeforeAll (void)

virtual int	BeforeAllBase (void)

virtual void	BeforeRegistrationBase (void)

std::string	ConvertSecondsToDHMS (const double totalSeconds, const unsigned int precision) const

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 ()

Static Public Member Functions inherited from itk::FullSearchOptimizer
static Pointer	New ()

Protected Member Functions
virtual bool	CheckSearchSpaceRangeDefinition (const std::string &fullFieldName, const bool found, const unsigned int entry_nr) const

	FullSearch ()

virtual	~FullSearch ()

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

virtual void	ProcessSearchSpaceChanges (void)

virtual	~FullSearchOptimizer ()

Protected Member Functions inherited from elastix::OptimizerBase< TElastix >
virtual bool	GetNewSamplesEveryIteration (void) const

	OptimizerBase ()

virtual void	SelectNewSamples (void)

virtual	~OptimizerBase ()

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

virtual	~BaseComponentSE ()

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

virtual	~BaseComponent ()

Protected Attributes
NDImagePointer	m_OptimizationSurface

DimensionNameMapType	m_SearchSpaceDimensionNames

Protected Attributes inherited from itk::FullSearchOptimizer
SearchSpaceIndexType	m_BestIndexInSearchSpace

SearchSpacePointType	m_BestPointInSearchSpace

double	m_BestValue

SearchSpaceIndexType	m_CurrentIndexInSearchSpace

SearchSpacePointType	m_CurrentPointInSearchSpace

unsigned long	m_LastSearchSpaceChanges

bool	m_Maximize

unsigned int	m_NumberOfSearchSpaceDimensions

SearchSpacePointer	m_SearchSpace

SearchSpaceSizeType	m_SearchSpaceSize

bool	m_Stop

StopConditionType	m_StopCondition

double	m_Value

Protected Attributes inherited from elastix::BaseComponentSE< TElastix >
ConfigurationPointer	m_Configuration

ElastixPointer	m_Elastix

RegistrationPointer	m_Registration

Private Member Functions
	FullSearch (const Self &)

void	operator= (const Self &)

Member Typedef Documentation

template<class TElastix >

typedef Superclass2::ConfigurationPointer elastix::FullSearch< TElastix >::ConfigurationPointer

Definition at line 103 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass2::ConfigurationType elastix::FullSearch< TElastix >::ConfigurationType

Definition at line 102 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef itk::SmartPointer< const Self > elastix::FullSearch< TElastix >::ConstPointer

Definition at line 70 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::CostFunctionPointer elastix::FullSearch< TElastix >::CostFunctionPointer

Definition at line 86 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::CostFunctionType elastix::FullSearch< TElastix >::CostFunctionType

Typedef's inherited from Superclass1.

Definition at line 85 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef std::map< unsigned int, std::string > elastix::FullSearch< TElastix >::DimensionNameMapType

To store the names of the search space dimensions

Definition at line 113 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass2::ElastixPointer elastix::FullSearch< TElastix >::ElastixPointer

Definition at line 101 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass2::ElastixType elastix::FullSearch< TElastix >::ElastixType

Typedef's inherited from Elastix.

Definition at line 100 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass2::ITKBaseType elastix::FullSearch< TElastix >::ITKBaseType

Definition at line 106 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::MeasureType elastix::FullSearch< TElastix >::MeasureType

Definition at line 88 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef DimensionNameMapType::const_iterator elastix::FullSearch< TElastix >::NameIteratorType

Definition at line 114 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef NDImageType::Pointer elastix::FullSearch< TElastix >::NDImagePointer

Definition at line 110 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef itk::NDImageBase< float > elastix::FullSearch< TElastix >::NDImageType

To store the results of the full search

Definition at line 109 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::ParametersType elastix::FullSearch< TElastix >::ParametersType

Definition at line 87 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::ParameterValueType elastix::FullSearch< TElastix >::ParameterValueType

Definition at line 89 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef itk::SmartPointer< Self > elastix::FullSearch< TElastix >::Pointer

Definition at line 69 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::RangeType elastix::FullSearch< TElastix >::RangeType

Definition at line 91 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::RangeValueType elastix::FullSearch< TElastix >::RangeValueType

Definition at line 90 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass2::RegistrationPointer elastix::FullSearch< TElastix >::RegistrationPointer

Definition at line 105 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass2::RegistrationType elastix::FullSearch< TElastix >::RegistrationType

Definition at line 104 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::SearchSpaceIndexType elastix::FullSearch< TElastix >::SearchSpaceIndexType

Definition at line 96 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::SearchSpaceIteratorType elastix::FullSearch< TElastix >::SearchSpaceIteratorType

Definition at line 94 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::SearchSpacePointer elastix::FullSearch< TElastix >::SearchSpacePointer

Definition at line 93 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::SearchSpacePointType elastix::FullSearch< TElastix >::SearchSpacePointType

Definition at line 95 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::SearchSpaceSizeType elastix::FullSearch< TElastix >::SearchSpaceSizeType

Definition at line 97 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef Superclass1::SearchSpaceType elastix::FullSearch< TElastix >::SearchSpaceType

Definition at line 92 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef FullSearch elastix::FullSearch< TElastix >::Self

Standard ITK.

Definition at line 66 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef itk::FullSearchOptimizer elastix::FullSearch< TElastix >::Superclass1

Definition at line 67 of file elxFullSearchOptimizer.h.

template<class TElastix >

typedef OptimizerBase< TElastix > elastix::FullSearch< TElastix >::Superclass2

Definition at line 68 of file elxFullSearchOptimizer.h.

Constructor & Destructor Documentation

template<class TElastix >

elastix::FullSearch< TElastix >::FullSearch ( )

protected

template<class TElastix >

virtual elastix::FullSearch< TElastix >::~FullSearch ( )

inlineprotectedvirtual

Definition at line 135 of file elxFullSearchOptimizer.h.

template<class TElastix >

elastix::FullSearch< TElastix >::FullSearch ( const Self & )

private

Member Function Documentation

template<class TElastix >

virtual void elastix::FullSearch< TElastix >::AfterEachIteration ( void )

virtual

Reimplemented from elastix::BaseComponent.

template<class TElastix >

virtual void elastix::FullSearch< TElastix >::AfterEachResolution ( void )

virtual

Reimplemented from elastix::BaseComponent.

template<class TElastix >

virtual void elastix::FullSearch< TElastix >::AfterRegistration ( void )

virtual

Reimplemented from elastix::BaseComponent.

template<class TElastix >

virtual void elastix::FullSearch< TElastix >::BeforeEachResolution ( void )

virtual

Reimplemented from elastix::BaseComponent.

template<class TElastix >

virtual void elastix::FullSearch< TElastix >::BeforeRegistration ( void )

virtual

Methods that have to be present everywhere.

Reimplemented from elastix::BaseComponent.

template<class TElastix >

virtual bool elastix::FullSearch< TElastix >::CheckSearchSpaceRangeDefinition	(	const std::string &	fullFieldName,
		const bool	found,
		const unsigned int	entry_nr
	)		const

protectedvirtual

Checks if an error generated while reading the search space ranges from the parameter file is a real error. Prints some error message if so.

template<class TElastix >

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

Name of this class. Use this name in the parameter file to select this specific optimizer.
example: (Optimizer "FullSearch")

template<class TElastix >

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

virtual

Run-time type information (and related methods).

Reimplemented from itk::FullSearchOptimizer.

template<class TElastix >

virtual NDImageType* elastix::FullSearch< TElastix >::GetOptimizationSurface ( )

virtual

Todo:: BeforeAll, checking parameters.

Get a pointer to the image containing the optimization surface.

template<class TElastix >

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

static

Method for creation through the object factory.

template<class TElastix >

void elastix::FullSearch< TElastix >::operator= ( const Self & )

private

Field Documentation

template<class TElastix >

NDImagePointer elastix::FullSearch< TElastix >::m_OptimizationSurface

protected

Definition at line 137 of file elxFullSearchOptimizer.h.

template<class TElastix >

DimensionNameMapType elastix::FullSearch< TElastix >::m_SearchSpaceDimensionNames

protected

Definition at line 139 of file elxFullSearchOptimizer.h.

Detailed Description

template<class TElastix> class elastix::FullSearch< TElastix >

Public Types

Public Member Functions

Static Public Member Functions

Protected Member Functions

Protected Attributes

Private Member Functions

Member Typedef Documentation

Constructor & Destructor Documentation

Member Function Documentation

Field Documentation

template<class TElastix>
class elastix::FullSearch< TElastix >