#include <itkFastMarchingImageFilter.h>

Inheritance diagram for itk::FastMarchingImageFilter< TLevelSet, TSpeedImage >:

Collaboration diagram for itk::FastMarchingImageFilter< TLevelSet, TSpeedImage >:

Detailed Description

template<typename TLevelSet, typename TSpeedImage = Image< float, TLevelSet ::ImageDimension >>
class itk::FastMarchingImageFilter< TLevelSet, TSpeedImage >

Solve an Eikonal equation using Fast Marching.

Fast marching solves an Eikonal equation where the speed is always non-negative and depends on the position only. Starting from an initial position on the front, fast marching systematically moves the front forward one grid point at a time.

Updates are preformed using an entropy satisfy scheme where only "upwind" neighborhoods are used. This implementation of Fast Marching uses a std::priority_queue to locate the next proper grid position to update.

Fast Marching sweeps through N grid points in (N log N) steps to obtain the arrival time value as the front propagates through the grid.

Implementation of this class is based on Chapter 8 of "Level Set Methods and Fast Marching Methods", J.A. Sethian, Cambridge Press, Second edition, 1999.

This class is templated over the level set image type and the speed image type. The initial front is specified by two containers: one containing the known points and one containing the trial points. Alive points are those that are already part of the object, and trial points are considered for inclusion. In order for the filter to evolve, at least some trial points must be specified. These can for instance be specified as the layer of pixels around the alive points.

The speed function can be specified as a speed image or a speed constant. The speed image is set using the method SetInput(). If the speed image is nullptr, a constant speed function is used and is specified using method the SetSpeedConstant().

If the speed function is constant and of value one, fast marching results in an approximate distance function from the initial alive points. FastMarchingImageFilter is used in the ReinitializeLevelSetImageFilter object to create a signed distance function from the zero level set.

The algorithm can be terminated early by setting an appropriate stopping value. The algorithm terminates when the current arrival time being processed is greater than the stopping value.

There are two ways to specify the output image information ( LargestPossibleRegion, Spacing, Origin): (a) it is copied directly from the input speed image or (b) it is specified by the user. Default values are used if the user does not specify all the information.

The output information is computed as follows. If the speed image is nullptr or if the OverrideOutputInformation is set to true, the output information is set from user specified parameters. These parameters can be specified using methods SetOutputRegion(), SetOutputSpacing(), SetOutputDirection(), and SetOutputOrigin(). Else if the speed image is not nullptr, the output information is copied from the input speed image.

For an alternative implementation, see itk::FastMarchingImageFilter.

Possible Improvements: In the current implementation, std::priority_queue only allows taking nodes out from the front and putting nodes in from the back. To update a value already on the heap, a new node is added to the heap. The defunct old node is left on the heap. When it is removed from the top, it will be recognized as invalid and not used. Future implementations can implement the heap in a different way allowing the values to be updated. This will generally require some sift-up and sift-down functions and an image of back-pointers going from the image to heap in order to locate the node which is to be updated.

See Also: FastMarchingImageFilterBase; LevelSetTypeDefault

Examples:: Examples/Iterators/NeighborhoodIterators6.cxx, Examples/Segmentation/CurvesLevelSetImageFilter.cxx, Examples/Segmentation/FastMarchingImageFilter.cxx, Examples/Segmentation/GeodesicActiveContourImageFilter.cxx, Examples/Segmentation/GeodesicActiveContourShapePriorLevelSetImageFilter.cxx, Examples/Segmentation/ShapeDetectionLevelSetFilter.cxx, Examples/Segmentation/ThresholdSegmentationLevelSetImageFilter.cxx, and SphinxExamples/src/Segmentation/LevelSets/SegmentWithGeodesicActiveContourLevelSet/Code.cxx.

Definition at line 109 of file itkFastMarchingImageFilter.h.

Classes
class	AxisNodeType

Public Types
using	ConstPointer = SmartPointer< const Self >

using	IndexType = Index< Self::SetDimension >

using	LabelImagePointer = typename LabelImageType::Pointer

using	LabelImageType = Image< unsigned char, Self::SetDimension >

enum	LabelType { FarPoint = 0, AlivePoint, TrialPoint, InitialTrialPoint, OutsidePoint }

using	LevelSetImageType = typename LevelSetType::LevelSetImageType

using	LevelSetPointer = typename LevelSetType::LevelSetPointer

using	LevelSetType = LevelSetTypeDefault< TLevelSet >

using	NodeContainer = typename LevelSetType::NodeContainer

using	NodeContainerPointer = typename LevelSetType::NodeContainerPointer

using	NodeIndexType = typename NodeType::IndexType

using	NodeType = typename LevelSetType::NodeType

using	OutputDirectionType = typename LevelSetImageType::DirectionType

using	OutputPointType = typename LevelSetImageType::PointType

using	OutputRegionType = typename LevelSetImageType::RegionType

using	OutputSizeType = typename LevelSetImageType::SizeType

using	OutputSpacingType = typename LevelSetImageType::SpacingType

using	PixelType = typename LevelSetType::PixelType

using	Pointer = SmartPointer< Self >

using	Self = FastMarchingImageFilter

using	SpeedImageConstPointer = typename SpeedImageType::ConstPointer

using	SpeedImagePointer = typename SpeedImageType::Pointer

using	SpeedImageType = TSpeedImage

using	Superclass = ImageToImageFilter< TSpeedImage, TLevelSet >

Public Types inherited from itk::ImageToImageFilter< TSpeedImage, TLevelSet >
using	ConstPointer = SmartPointer< const Self >

using	InputImageConstPointer = typename InputImageType::ConstPointer

using	InputImagePixelType = typename InputImageType::PixelType

using	InputImagePointer = typename InputImageType::Pointer

using	InputImageRegionType = typename InputImageType::RegionType

using	InputImageType = TSpeedImage

using	OutputImagePixelType = typename Superclass::OutputImagePixelType

using	OutputImageRegionType = typename Superclass::OutputImageRegionType

using	Pointer = SmartPointer< Self >

using	Self = ImageToImageFilter

using	Superclass = ImageSource< TLevelSet >

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

using	DataObjectIdentifierType = Superclass::DataObjectIdentifierType

using	DataObjectPointer = DataObject::Pointer

using	DataObjectPointerArraySizeType = Superclass::DataObjectPointerArraySizeType

using	OutputImagePixelType = typename OutputImageType::PixelType

using	OutputImagePointer = typename OutputImageType::Pointer

using	OutputImageRegionType = typename OutputImageType::RegionType

using	OutputImageType = TLevelSet

using	Pointer = SmartPointer< Self >

using	Self = ImageSource

using	Superclass = ProcessObject

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

using	DataObjectIdentifierType = DataObject::DataObjectIdentifierType

using	DataObjectPointer = DataObject::Pointer

using	DataObjectPointerArray = std::vector< DataObjectPointer >

using	DataObjectPointerArraySizeType = DataObjectPointerArray::size_type

using	MultiThreaderType = MultiThreaderBase

using	NameArray = std::vector< DataObjectIdentifierType >

using	Pointer = SmartPointer< Self >

using	Self = ProcessObject

using	Superclass = Object

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

using	Pointer = SmartPointer< Self >

using	Self = Object

using	Superclass = LightObject

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

using	Pointer = SmartPointer< Self >

using	Self = LightObject

Public Member Functions
virtual ::itk::LightObject::Pointer	CreateAnother () const

NodeContainerPointer	GetAlivePoints ()

LabelImagePointer	GetLabelImage () const

virtual const char *	GetNameOfClass () const

NodeContainerPointer	GetProcessedPoints () const

virtual const double &	GetSpeedConstant () const

virtual const double &	GetStoppingValue () const

NodeContainerPointer	GetTrialPoints ()

template<typename TPixel >
void	SetBinaryMask (Image< TPixel, SetDimension > *iImage)

virtual void	SetCollectPoints (bool _arg)

virtual void	SetStoppingValue (double _arg)


void	SetOutsidePoints (NodeContainer *points)


void	SetAlivePoints (NodeContainer *points)


void	SetTrialPoints (NodeContainer *points)


void	SetSpeedConstant (double value)


virtual void	SetNormalizationFactor (double _arg)

virtual double	GetNormalizationFactor () const


virtual const bool &	GetCollectPoints () const

virtual void	CollectPointsOn ()

virtual void	CollectPointsOff ()


virtual void	SetOutputSize (const OutputSizeType &size)

virtual OutputSizeType	GetOutputSize () const

virtual void	SetOutputRegion (OutputRegionType _arg)

virtual const OutputRegionType &	GetOutputRegion () const

virtual void	SetOutputSpacing (OutputSpacingType _arg)

virtual const OutputSpacingType &	GetOutputSpacing () const

virtual void	SetOutputDirection (OutputDirectionType _arg)

virtual const OutputDirectionType &	GetOutputDirection () const

virtual void	SetOutputOrigin (OutputPointType _arg)

virtual const OutputPointType &	GetOutputOrigin () const

virtual void	SetOverrideOutputInformation (bool _arg)

virtual const bool &	GetOverrideOutputInformation () const

virtual void	OverrideOutputInformationOn ()

virtual void	OverrideOutputInformationOff ()

Public Member Functions inherited from itk::ImageToImageFilter< TSpeedImage, TLevelSet >
const InputImageType *	GetInput () const

const InputImageType *	GetInput (unsigned int idx) const

void	PopBackInput () override

void	PopFrontInput () override

virtual void	PushBackInput (const InputImageType *image)

virtual void	PushFrontInput (const InputImageType *image)

virtual void	SetInput (const InputImageType *image)

virtual void	SetInput (unsigned int, const TSpeedImage *image)

virtual void	SetCoordinateTolerance (double _arg)

virtual double	GetCoordinateTolerance () const

virtual void	SetDirectionTolerance (double _arg)

virtual double	GetDirectionTolerance () const

Public Member Functions inherited from itk::ImageSource< TLevelSet >
OutputImageType *	GetOutput (unsigned int idx)

OutputImageType *	GetOutput ()

const OutputImageType *	GetOutput () const

virtual void	GraftOutput (DataObject *output)

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

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

ProcessObject::DataObjectPointer	MakeOutput (ProcessObject::DataObjectPointerArraySizeType idx) override

ProcessObject::DataObjectPointer	MakeOutput (const ProcessObject::DataObjectIdentifierType &) override

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

virtual void	AbortGenerateDataOn ()

virtual const bool &	GetAbortGenerateData () const

DataObjectPointerArray	GetIndexedInputs ()

DataObjectPointerArray	GetIndexedOutputs ()

NameArray	GetInputNames () const

DataObjectPointerArray	GetInputs ()

MultiThreaderType *	GetMultiThreader () const

DataObjectPointerArraySizeType	GetNumberOfIndexedInputs () const

DataObjectPointerArraySizeType	GetNumberOfIndexedOutputs () const

DataObjectPointerArraySizeType	GetNumberOfInputs () const

DataObjectPointerArraySizeType	GetNumberOfOutputs () const

virtual DataObjectPointerArraySizeType	GetNumberOfValidRequiredInputs () const

NameArray	GetOutputNames () const

DataObjectPointerArray	GetOutputs ()

virtual const float &	GetProgress () const

NameArray	GetRequiredInputNames () const

bool	HasInput (const DataObjectIdentifierType &key) const

bool	HasOutput (const DataObjectIdentifierType &key) const

virtual void	PrepareOutputs ()

virtual void	PropagateRequestedRegion (DataObject *output)

virtual void	ResetPipeline ()

virtual void	SetAbortGenerateData (bool _arg)

void	SetMultiThreader (MultiThreaderType *threader)

virtual void	Update ()

virtual void	UpdateLargestPossibleRegion ()

virtual void	UpdateOutputData (DataObject *output)

virtual void	UpdateOutputInformation ()

void	UpdateProgress (float progress)

virtual void	SetReleaseDataFlag (bool flag)

virtual bool	GetReleaseDataFlag () const

void	ReleaseDataFlagOn ()

void	ReleaseDataFlagOff ()

virtual void	SetReleaseDataBeforeUpdateFlag (bool _arg)

virtual const bool &	GetReleaseDataBeforeUpdateFlag () const

virtual void	ReleaseDataBeforeUpdateFlagOn ()

virtual void	ReleaseDataBeforeUpdateFlagOff ()

virtual void	SetNumberOfWorkUnits (ThreadIdType _arg)

virtual const ThreadIdType &	GetNumberOfWorkUnits () const

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

unsigned long	AddObserver (const EventObject &event, Command *) const

virtual void	DebugOff () const

virtual void	DebugOn () const

Command *	GetCommand (unsigned long tag)

bool	GetDebug () const

MetaDataDictionary &	GetMetaDataDictionary ()

const MetaDataDictionary &	GetMetaDataDictionary () const

virtual ModifiedTimeType	GetMTime () const

virtual const TimeStamp &	GetTimeStamp () const

bool	HasObserver (const EventObject &event) const

void	InvokeEvent (const EventObject &)

void	InvokeEvent (const EventObject &) const

virtual void	Modified () const

void	Register () const override

void	RemoveAllObservers ()

void	RemoveObserver (unsigned long tag)

void	SetDebug (bool debugFlag) const

void	SetReferenceCount (int) override

void	UnRegister () const noexceptoverride

void	SetMetaDataDictionary (const MetaDataDictionary &rhs)

void	SetMetaDataDictionary (MetaDataDictionary &&rrhs)

virtual void	SetObjectName (std::string _arg)

virtual const std::string &	GetObjectName () const

Public Member Functions inherited from itk::LightObject
virtual void	Delete ()

virtual int	GetReferenceCount () const

	itkCloneMacro (Self)

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

Static Public Member Functions
static Pointer	New ()

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

static void	GlobalWarningDisplayOff ()

static void	GlobalWarningDisplayOn ()

static Pointer	New ()

static void	SetGlobalWarningDisplay (bool flag)

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

static Pointer	New ()

Static Public Attributes
static constexpr unsigned int	SetDimension = LevelSetType::SetDimension

static constexpr unsigned int	SpeedImageDimension = SpeedImageType::ImageDimension

Static Public Attributes inherited from itk::ImageToImageFilter< TSpeedImage, TLevelSet >
static constexpr unsigned int	InputImageDimension

static constexpr unsigned int	OutputImageDimension

Static Public Attributes inherited from itk::ImageSource< TLevelSet >
static constexpr unsigned int	OutputImageDimension

Protected Types
using	LevelSetIndexType = typename LevelSetImageType::IndexType

Protected Types inherited from itk::ImageToImageFilter< TSpeedImage, TLevelSet >
using	InputToOutputRegionCopierType = ImageToImageFilterDetail::ImageRegionCopier< Self::OutputImageDimension, Self::InputImageDimension >

using	OutputToInputRegionCopierType = ImageToImageFilterDetail::ImageRegionCopier< Self::InputImageDimension, Self::OutputImageDimension >

Protected Member Functions
void	EnlargeOutputRequestedRegion (DataObject *output) override

	FastMarchingImageFilter ()

void	GenerateData () override

void	GenerateOutputInformation () override

virtual const PixelType &	GetLargeValue () const

virtual const LevelSetIndexType &	GetLastIndex () const

const AxisNodeType &	GetNodeUsedInCalculation (unsigned int idx) const

virtual const LevelSetIndexType &	GetStartIndex () const

virtual void	Initialize (LevelSetImageType *)

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

virtual void	UpdateNeighbors (const IndexType &index, const SpeedImageType , LevelSetImageType )

virtual double	UpdateValue (const IndexType &index, const SpeedImageType , LevelSetImageType )

	~FastMarchingImageFilter () override=default

Protected Member Functions inherited from itk::ImageToImageFilter< TSpeedImage, TLevelSet >
virtual void	CallCopyInputRegionToOutputRegion (OutputImageRegionType &destRegion, const InputImageRegionType &srcRegion)

virtual void	CallCopyOutputRegionToInputRegion (InputImageRegionType &destRegion, const OutputImageRegionType &srcRegion)

void	GenerateInputRequestedRegion () override

	ImageToImageFilter ()

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

void	VerifyInputInformation () ITKv5_CONST override

	~ImageToImageFilter () override

void	PushBackInput (const DataObject *input) override

void	PushFrontInput (const DataObject *input) override

Protected Member Functions inherited from itk::ImageSource< TLevelSet >
virtual void	AfterThreadedGenerateData ()

virtual void	AllocateOutputs ()

virtual void	BeforeThreadedGenerateData ()

void	ClassicMultiThread (ThreadFunctionType callbackFunction)

void	GenerateData () override

virtual const ImageRegionSplitterBase *	GetImageRegionSplitter () const

	ImageSource ()

virtual unsigned int	SplitRequestedRegion (unsigned int i, unsigned int pieces, OutputImageRegionType &splitRegion)

	~ImageSource () override=default

virtual void	ThreadedGenerateData (const OutputImageRegionType &outputRegionForThread, ThreadIdType threadId)

virtual void	DynamicThreadedGenerateData (const OutputImageRegionType &outputRegionForThread)

virtual bool	GetDynamicMultiThreading () const

virtual void	SetDynamicMultiThreading (bool _arg)

virtual void	DynamicMultiThreadingOn ()

virtual void	DynamicMultiThreadingOff ()

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

void	AddOptionalInputName (const DataObjectIdentifierType &)

void	AddOptionalInputName (const DataObjectIdentifierType &, DataObjectPointerArraySizeType idx)

virtual void	AddOutput (DataObject *output)

bool	AddRequiredInputName (const DataObjectIdentifierType &)

bool	AddRequiredInputName (const DataObjectIdentifierType &, DataObjectPointerArraySizeType idx)

virtual void	CacheInputReleaseDataFlags ()

virtual void	GenerateOutputRequestedRegion (DataObject *output)

DataObject *	GetInput (const DataObjectIdentifierType &key)

const DataObject *	GetInput (const DataObjectIdentifierType &key) const

virtual const DataObjectPointerArraySizeType &	GetNumberOfRequiredInputs () const

virtual const DataObjectPointerArraySizeType &	GetNumberOfRequiredOutputs () const

bool	IsIndexedInputName (const DataObjectIdentifierType &) const

bool	IsIndexedOutputName (const DataObjectIdentifierType &) const

bool	IsRequiredInputName (const DataObjectIdentifierType &) const

DataObjectPointerArraySizeType	MakeIndexFromInputName (const DataObjectIdentifierType &name) const

DataObjectPointerArraySizeType	MakeIndexFromOutputName (const DataObjectIdentifierType &name) const

DataObjectIdentifierType	MakeNameFromInputIndex (DataObjectPointerArraySizeType idx) const

DataObjectIdentifierType	MakeNameFromOutputIndex (DataObjectPointerArraySizeType idx) const

	ProcessObject ()

virtual void	PropagateResetPipeline ()

virtual void	ReleaseInputs ()

virtual void	RemoveInput (const DataObjectIdentifierType &key)

virtual void	RemoveInput (DataObjectPointerArraySizeType)

virtual void	RemoveOutput (const DataObjectIdentifierType &key)

virtual void	RemoveOutput (DataObjectPointerArraySizeType idx)

bool	RemoveRequiredInputName (const DataObjectIdentifierType &)

virtual void	RestoreInputReleaseDataFlags ()

virtual void	SetInput (const DataObjectIdentifierType &key, DataObject *input)

virtual void	SetNthInput (DataObjectPointerArraySizeType num, DataObject *input)

virtual void	SetNthOutput (DataObjectPointerArraySizeType num, DataObject *output)

void	SetNumberOfIndexedInputs (DataObjectPointerArraySizeType num)

void	SetNumberOfIndexedOutputs (DataObjectPointerArraySizeType num)

virtual void	SetNumberOfRequiredInputs (DataObjectPointerArraySizeType)

virtual void	SetNumberOfRequiredOutputs (DataObjectPointerArraySizeType _arg)

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

virtual void	SetPrimaryInput (DataObject *input)

virtual void	SetPrimaryOutput (DataObject *output)

void	SetRequiredInputNames (const NameArray &)

virtual void	VerifyPreconditions () ITKv5_CONST

	~ProcessObject () override

DataObject *	GetInput (DataObjectPointerArraySizeType idx)

const DataObject *	GetInput (DataObjectPointerArraySizeType idx) const

DataObject *	GetPrimaryInput ()

const DataObject *	GetPrimaryInput () const

virtual void	SetPrimaryInputName (const DataObjectIdentifierType &key)

virtual const char *	GetPrimaryInputName () const

DataObject *	GetOutput (const DataObjectIdentifierType &key)

const DataObject *	GetOutput (const DataObjectIdentifierType &key) const

virtual void	SetPrimaryOutputName (const DataObjectIdentifierType &key)

virtual const char *	GetPrimaryOutputName () const

DataObject *	GetOutput (DataObjectPointerArraySizeType idx)

const DataObject *	GetOutput (DataObjectPointerArraySizeType idx) const

DataObject *	GetPrimaryOutput ()

const DataObject *	GetPrimaryOutput () const

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

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

virtual void	SetTimeStamp (const TimeStamp &time)

	~Object () override

Protected Member Functions inherited from itk::LightObject
virtual LightObject::Pointer	InternalClone () const

	LightObject ()

virtual void	PrintHeader (std::ostream &os, Indent indent) const

virtual void	PrintTrailer (std::ostream &os, Indent indent) const

virtual	~LightObject ()

Protected Attributes
OutputRegionType	m_BufferedRegion

LevelSetIndexType	m_LastIndex

LevelSetIndexType	m_StartIndex

Protected Attributes inherited from itk::ImageSource< TLevelSet >
bool	m_DynamicMultiThreading

Protected Attributes inherited from itk::ProcessObject
TimeStamp	m_OutputInformationMTime

bool	m_Updating

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

Private Types
using	HeapContainer = std::vector< AxisNodeType >

using	HeapType = std::priority_queue< AxisNodeType, HeapContainer, NodeComparer >

using	NodeComparer = std::greater< AxisNodeType >

Private Attributes
NodeContainerPointer	m_AlivePoints

bool	m_CollectPoints

double	m_InverseSpeed

LabelImagePointer	m_LabelImage

LevelSetImageType::PixelType	m_LargeValue

AxisNodeType	m_NodesUsed [SetDimension]

double	m_NormalizationFactor

OutputDirectionType	m_OutputDirection

OutputPointType	m_OutputOrigin

OutputRegionType	m_OutputRegion

OutputSpacingType	m_OutputSpacing

NodeContainerPointer	m_OutsidePoints

bool	m_OverrideOutputInformation

NodeContainerPointer	m_ProcessedPoints

double	m_SpeedConstant

double	m_StoppingValue

HeapType	m_TrialHeap

NodeContainerPointer	m_TrialPoints

Additional Inherited Members
Static Protected Member Functions inherited from itk::ImageSource< TLevelSet >
static const ImageRegionSplitterBase *	GetGlobalDefaultSplitter ()

static ITK_THREAD_RETURN_FUNCTION_CALL_CONVENTION	ThreaderCallback (void *arg)