TTK VTK-filter that computes a persistence-based simplification of a scalar field. More...

#include <ttkTopologicalSimplificationByPersistence.h>

Inheritance diagram for ttkTopologicalSimplificationByPersistence:

Public Types
typedef ttkAlgorithm	Superclass

Public Types inherited from ttkAlgorithm
typedef vtkAlgorithm	Superclass

Public Member Functions
virtual void	SetPersistenceThreshold (double)

virtual double	GetPersistenceThreshold ()

virtual void	SetThresholdIsAbsolute (bool)

virtual bool	GetThresholdIsAbsolute ()

virtual void	SetComputePerturbation (bool)

virtual bool	GetComputePerturbation ()

virtual void	SetPairType (int _arg)

virtual void	SetPairType (PAIR_TYPE)

virtual PAIR_TYPE	GetPairType () const

virtual const char *	GetClassName ()

virtual int	IsA (const char *type)

Public Member Functions inherited from ttkAlgorithm
virtual const char *	GetClassName ()

virtual int	IsA (const char *type)

void	UpdateThreadNumber ()

void	SetThreadNumber (int threadNumber)

void	SetUseAllCores (bool useAllCores)

void	SetDebugLevel (int debugLevel)

void	SetCompactTriangulationCacheSize (float cacheSize)

vtkDataArray *	GetOptionalArray (const bool &enforceArrayIndex, const int &arrayIndex, const std::string &arrayName, vtkDataSet *const inputData, const int &inputPort=0)

vtkDataArray *	GetOrderArray (vtkDataSet *const inputData, const int scalarArrayIdx, const int orderArrayIdx=0, const bool enforceOrderArrayIdx=false)

ttk::SimplexId *	GetIdentifierArrayPtr (const bool &enforceArrayIndex, const int &arrayIndex, const std::string &arrayName, vtkDataSet *const inputData, std::vector< ttk::SimplexId > &spareStorage, const int inputPort=0, const bool printErr=true)

ttk::Triangulation *	GetTriangulation (vtkDataSet *dataSet)

int	ProcessRequest (vtkInformation request, vtkInformationVector inputVectors, vtkInformationVector outputVector) override

vtkDataSet *	GetOutput ()

vtkDataSet *	GetOutput (int)

void	SetInputData (vtkDataSet *)

void	SetInputData (int, vtkDataSet *)

void	AddInputData (vtkDataSet *)

void	AddInputData (int, vtkDataSet *)

template<typename inputType >
int	checkEmptyMPIInput (inputType *input)
	This method tests whether the input is a nullptr. If the computation is being done on multiple processes, it is possible that the domain of one process or more is empty, but not others, therefore in that particular case the rest of the filter will not be computed but an error message will not be sent.

Public Member Functions inherited from ttk::Debug
	Debug ()

	~Debug () override

virtual int	setDebugLevel (const int &debugLevel)

int	setWrapper (const Wrapper *wrapper) override

int	printMsg (const std::string &msg, const debug::Priority &priority=debug::Priority::INFO, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const

int	printMsg (const std::vector< std::string > &msgs, const debug::Priority &priority=debug::Priority::INFO, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const

int	printErr (const std::string &msg, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cerr) const

int	printWrn (const std::string &msg, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cerr) const

int	printMsg (const std::string &msg, const double &progress, const double &time, const int &threads, const double &memory, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const

int	printMsg (const std::string &msg, const double &progress, const double &time, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const

int	printMsg (const std::string &msg, const double &progress, const double &time, const int &threads, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const

int	printMsg (const std::string &msg, const double &progress, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const

int	printMsg (const std::string &msg, const double &progress, const debug::Priority &priority, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const

int	printMsg (const std::vector< std::vector< std::string > > &rows, const debug::Priority &priority=debug::Priority::INFO, const bool hasHeader=true, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const

int	printMsg (const debug::Separator &separator, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::INFO, std::ostream &stream=std::cout) const

int	printMsg (const debug::Separator &separator, const debug::Priority &priority, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const

int	printMsg (const std::string &msg, const debug::Separator &separator, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::INFO, std::ostream &stream=std::cout) const

void	setDebugMsgPrefix (const std::string &prefix)

Public Member Functions inherited from ttk::BaseClass
	BaseClass ()

virtual	~BaseClass ()=default

int	getThreadNumber () const

virtual int	setThreadNumber (const int threadNumber)

virtual int	setWrapper (const Wrapper *wrapper)

Static Public Member Functions
static ttkTopologicalSimplificationByPersistence *	New ()

static int	IsTypeOf (const char *type)

static ttkTopologicalSimplificationByPersistence *	SafeDownCast (vtkObject *o)

Static Public Member Functions inherited from ttkAlgorithm
static ttkAlgorithm *	New ()

static int	IsTypeOf (const char *type)

static ttkAlgorithm *	SafeDownCast (vtkObject *o)

static std::string	GetOrderArrayName (vtkDataArray *const array)

static vtkInformationIntegerKey *	SAME_DATA_TYPE_AS_INPUT_PORT ()

Protected Member Functions
	ttkTopologicalSimplificationByPersistence ()

	~ttkTopologicalSimplificationByPersistence () override

int	FillInputPortInformation (int port, vtkInformation *info) override

int	FillOutputPortInformation (int port, vtkInformation *info) override

int	RequestData (vtkInformation request, vtkInformationVector inputVector, vtkInformationVector outputVector) override

Protected Member Functions inherited from ttkAlgorithm
	ttkAlgorithm ()

	~ttkAlgorithm () override

void	MPIGhostPipelinePreconditioning (vtkDataSet *input)

void	MPIPipelinePreconditioning (vtkDataSet input, std::vector< int > &neighbors, ttk::Triangulation triangulation=nullptr)

bool	checkGlobalIdValidity (ttk::LongSimplexId globalIds, ttk::SimplexId simplexNumber, unsigned char ghost, int *rankArray)

int	GenerateGlobalIds (vtkDataSet *input, std::unordered_map< ttk::SimplexId, ttk::SimplexId > &vertGtoL, std::vector< int > &neighborRanks)

void	MPITriangulationPreconditioning (ttk::Triangulation triangulation, vtkDataSet input)

virtual int	RequestDataObject (vtkInformation request, vtkInformationVector inputVectors, vtkInformationVector outputVector)

virtual int	RequestInformation (vtkInformation ttkNotUsed(request), vtkInformationVector ttkNotUsed(inputVectors), vtkInformationVector ttkNotUsed(outputVector))

virtual int	RequestUpdateTime (vtkInformation ttkNotUsed(request), vtkInformationVector ttkNotUsed(inputVectors), vtkInformationVector ttkNotUsed(outputVector))

virtual int	RequestUpdateTimeDependentInformation (vtkInformation ttkNotUsed(request), vtkInformationVector ttkNotUsed(inputVectors), vtkInformationVector ttkNotUsed(outputVector))

virtual int	RequestUpdateExtent (vtkInformation ttkNotUsed(request), vtkInformationVector ttkNotUsed(inputVectors), vtkInformationVector ttkNotUsed(outputVector))

virtual int	RequestDataNotGenerated (vtkInformation ttkNotUsed(request), vtkInformationVector ttkNotUsed(inputVectors), vtkInformationVector ttkNotUsed(outputVector))

virtual int	RequestData (vtkInformation ttkNotUsed(request), vtkInformationVector ttkNotUsed(inputVectors), vtkInformationVector ttkNotUsed(outputVector))

int	FillInputPortInformation (int ttkNotUsed(port), vtkInformation *ttkNotUsed(info)) override

int	FillOutputPortInformation (int ttkNotUsed(port), vtkInformation *ttkNotUsed(info)) override

Protected Member Functions inherited from ttk::Debug
int	printMsgInternal (const std::string &msg, const std::string &right, const std::string &filler, const debug::Priority &priority=debug::Priority::INFO, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const

int	printMsgInternal (const std::string &msg, const debug::Priority &priority, const debug::LineMode &lineMode, std::ostream &stream=std::cout) const

int	welcomeMsg (std::ostream &stream)

Protected Member Functions inherited from ttk::lts::LocalizedTopologicalSimplification
	LocalizedTopologicalSimplification ()

	~LocalizedTopologicalSimplification () override=default

int	preconditionTriangulation (ttk::AbstractTriangulation *triangulation) const

template<typename IT >
int	allocateMemory (std::vector< IT > &segmentation, std::vector< IT > &queueMask, std::vector< IT > &localOrder, std::vector< Propagation< IT > * > &propagationMask, std::vector< std::tuple< IT, IT, IT > > &sortedIndices, const IT &nVertices) const

template<typename IT >
int	initializeMemory (IT segmentation, IT queueMask, IT localOrder, Propagation< IT > *propagationMask, const IT &nVertices) const

template<typename IT , class TT >
int	initializePropagations (std::vector< Propagation< IT > > &propagations, IT authorizationMask, IT maximaBuffer, const IT authorizedExtremaIndices, const IT &nAuthorizedExtremaIndices, const IT order, const TT *triangulation) const

template<typename IT , typename TT >
int	computeSimplePropagation (Propagation< IT > &propagation, Propagation< IT > *propagationMask, IT segmentation, IT queueMask, const TT triangulation, const IT *order) const

template<typename IT , typename DT , typename TT >
int	computePersistenceSensitivePropagation (Propagation< IT > &propagation, Propagation< IT > *propagationMask, IT segmentation, IT queueMask, const TT triangulation, const IT order, const DT scalars, const DT persistenceThreshold) const

template<typename IT , class TT >
int	computeSimplePropagations (std::vector< Propagation< IT > > &propagations, Propagation< IT > *propagationMask, IT segmentation, IT queueMask, const TT triangulation, const IT *inputOrder) const

template<typename IT , typename DT , class TT >
int	computePersistenceSensitivePropagations (std::vector< Propagation< IT > > &propagations, Propagation< IT > *propagationMask, IT segmentation, IT queueMask, const TT triangulation, const IT order, const DT scalars, const DT persistenceThreshold) const

template<typename IT >
int	finalizePropagations (std::vector< Propagation< IT > * > &parentPropagations, std::vector< Propagation< IT > > &propagations, const IT nVertices) const

template<typename IT , class TT >
int	computeSegment (IT segmentation, Propagation< IT > propagation, const IT order, const TT triangulation) const

template<typename IT , class TT >
int	computeSegments (IT segmentation, std::vector< Propagation< IT > > &propagations, const IT order, const TT triangulation) const
	This method computes the segments of a given list of propagations.

template<typename IT , class TT >
int	computeLocalOrderOfSegmentIteration (IT localOrder, IT localVertexSequence, const bool &performSuperlevelSetPropagation, const TT triangulation, const IT segmentation, const IT &segmentId, const std::vector< IT > &boundary, const std::vector< IT > &segment, const IT &saddleIdx) const

template<typename IT , class TT >
int	computeLocalOrderOfSegment (IT localOrder, const Propagation< IT > propagation, const TT triangulation, const IT segmentation, const IT *inputOrder) const

template<typename IT , class TT >
int	computeLocalOrderOfSegments (IT localOrder, const TT triangulation, const IT segmentation, const IT inputOrder, const std::vector< Propagation< IT > * > &propagations) const

template<typename IT >
int	flattenOrder (IT outputOrder, const std::vector< Propagation< IT > > &parentPropagations) const

template<typename DT , typename IT >
int	flattenScalars (DT *scalars, const std::vector< Propagation< IT > > &propagationsA, const std::vector< Propagation< IT > > &propagationsB={}) const

template<typename IT >
int	computeGlobalOrder (IT order, const IT localOrder, std::vector< std::tuple< IT, IT, IT > > &sortedIndices) const

template<typename DT , typename IT >
int	computeNumericalPerturbation (DT *scalars, const std::vector< std::tuple< IT, IT, IT > > &sortedIndices, const bool descending=false) const

template<typename IT , class TT >
int	detectAndRemoveUnauthorizedMaxima (IT order, IT segmentation, IT queueMask, IT localOrder, Propagation< IT > *propagationMask, std::vector< Propagation< IT > > &propagations, std::vector< std::tuple< IT, IT, IT > > &sortedIndices, const TT triangulation, const IT *authorizedExtremaIndices, const IT &nAuthorizedExtremaIndices) const

template<typename IT , typename DT , class TT >
int	detectAndRemoveNonPersistentMaxima (DT scalars, IT order, IT segmentation, IT queueMask, IT localOrder, Propagation< IT > propagationMask, std::vector< Propagation< IT > > &propagations, std::vector< std::tuple< IT, IT, IT > > &sortedIndices, const TT triangulation, const DT persistenceThreshold) const

template<typename IT >
int	invertOrder (IT *outputOrder, const IT &nVertices) const

template<typename DT , typename IT , class TT >
int	removeUnauthorizedExtrema (DT scalars, IT order, const TT triangulation, const IT authorizedExtremaIndices, const IT &nAuthorizedExtremaIndices, const bool &computePerturbation) const

template<typename DT , typename IT , class TT >
int	removeNonPersistentExtrema (DT scalars, IT order, const TT *triangulation, const DT persistenceThreshold, const bool &computePerturbation, const PAIR_TYPE &pairType=PAIR_TYPE::EXTREMUM_SADDLE) const

Additional Inherited Members
Protected Types inherited from ttk::lts::LocalizedTopologicalSimplification
enum class	PAIR_TYPE { EXTREMUM_SADDLE = 0 , MINIMUM_SADDLE = 1 , MAXIMUM_SADDLE = 2 }

Protected Attributes inherited from ttkAlgorithm
float	CompactTriangulationCacheSize {0.2f}

Protected Attributes inherited from ttk::Debug
int	debugLevel_

std::string	debugMsgPrefix_

std::string	debugMsgNamePrefix_

Protected Attributes inherited from ttk::BaseClass
bool	lastObject_

int	threadNumber_

Wrapper *	wrapper_

Static Protected Attributes inherited from ttk::Debug
static COMMON_EXPORTS debug::LineMode	lastLineMode = ttk::debug::LineMode::NEW

Detailed Description

TTK VTK-filter that computes a persistence-based simplification of a scalar field.

Related publications
"Generalized Topological Simplification of Scalar Fields on Surfaces"
Julien Tierny, Valerio Pascucci
Proc. of IEEE VIS 2012.
IEEE Transactions on Visualization and Computer Graphics, 2012. "Localized Topological Simplification of Scalar Data"
Jonas Lukasczyk, Christoph Garth, Ross Maciejewski, Julien Tierny
Proc. of IEEE VIS 2020.
IEEE Transactions on Visualization and Computer Graphics

Parameters

Input	vtkDataSet.
Output	vtkDataSet.

This filter can be used as any other VTK filter (for instance, by using the sequence of calls SetInputData(), Update(), GetOutputDataObject()).

The input data array needs to be specified via the standard VTK call vtkAlgorithm::SetInputArrayToProcess() with the following parameters:

Parameters

idx	0 (FIXED: the first array the algorithm requires)
port	0 (FIXED: first port)
connection	0 (FIXED: first connection)
fieldAssociation	0 (FIXED: point data)
arrayName	(DYNAMIC: string identifier of the input array)

See the related ParaView example state files for usage examples within a VTK pipeline.

See also: ttkTopologicalSimplification; ttk::LocalizedTopologicalSimplification; ttkAlgorithm

Online examples:

Contour Tree Alignment example

Author: Jonas Lukasczyk jl@jl.nosp@m.uk.d.nosp@m.e

Date: 03.06.2021

Given an input scalar field and a persistence threshold (either as an absolute value or a fraction of the scalar range), this filter modifies the scalar field such that it no longer exhibits persistence pairs below the given threshold. All other pairs are unaffected. To this end the filter uses the persistence-sensitive specialization of localized topological simplification (PLTS). Note that this filter will also compute an unambiguous global vertex order that can be used in subsequent topological data analysis.

Definition at line 65 of file ttkTopologicalSimplificationByPersistence.h.

Member Typedef Documentation

◆ Superclass

typedef ttkAlgorithm ttkTopologicalSimplificationByPersistence::Superclass

Definition at line 86 of file ttkTopologicalSimplificationByPersistence.h.

Constructor & Destructor Documentation

◆ ttkTopologicalSimplificationByPersistence()

ttkTopologicalSimplificationByPersistence::ttkTopologicalSimplificationByPersistence ( )

protected

Definition at line 16 of file ttkTopologicalSimplificationByPersistence.cpp.

◆ ~ttkTopologicalSimplificationByPersistence()

ttkTopologicalSimplificationByPersistence::~ttkTopologicalSimplificationByPersistence ( )

overrideprotecteddefault

Member Function Documentation

◆ FillInputPortInformation()

int ttkTopologicalSimplificationByPersistence::FillInputPortInformation	(	int	port,
		vtkInformation *	info
	)

overrideprotected

Definition at line 28 of file ttkTopologicalSimplificationByPersistence.cpp.

◆ FillOutputPortInformation()

int ttkTopologicalSimplificationByPersistence::FillOutputPortInformation	(	int	port,
		vtkInformation *	info
	)

overrideprotected

Definition at line 37 of file ttkTopologicalSimplificationByPersistence.cpp.

◆ GetClassName()

virtual const char * ttkTopologicalSimplificationByPersistence::GetClassName ( )

virtual

Reimplemented from ttkAlgorithm.

◆ GetComputePerturbation()

virtual bool ttkTopologicalSimplificationByPersistence::GetComputePerturbation ( )

virtual

◆ GetPairType()

virtual PAIR_TYPE ttkTopologicalSimplificationByPersistence::GetPairType ( ) const

virtual

◆ GetPersistenceThreshold()

virtual double ttkTopologicalSimplificationByPersistence::GetPersistenceThreshold ( )

virtual

◆ GetThresholdIsAbsolute()

virtual bool ttkTopologicalSimplificationByPersistence::GetThresholdIsAbsolute ( )

virtual

◆ IsA()

virtual int ttkTopologicalSimplificationByPersistence::IsA ( const char * type )

virtual

Reimplemented from ttkAlgorithm.

◆ IsTypeOf()

static int ttkTopologicalSimplificationByPersistence::IsTypeOf ( const char * type )

static

◆ New()

static ttkTopologicalSimplificationByPersistence * ttkTopologicalSimplificationByPersistence::New ( )

static

◆ RequestData()

int ttkTopologicalSimplificationByPersistence::RequestData	(	vtkInformation *	request,
		vtkInformationVector **	inputVector,
		vtkInformationVector *	outputVector
	)

overrideprotected

Definition at line 46 of file ttkTopologicalSimplificationByPersistence.cpp.

◆ SafeDownCast()

static ttkTopologicalSimplificationByPersistence * ttkTopologicalSimplificationByPersistence::SafeDownCast ( vtkObject * o )

static

◆ SetComputePerturbation()

virtual void ttkTopologicalSimplificationByPersistence::SetComputePerturbation ( bool )

virtual

◆ SetPairType() [1/2]

virtual void ttkTopologicalSimplificationByPersistence::SetPairType ( int _arg )

virtual

◆ SetPairType() [2/2]

virtual void ttkTopologicalSimplificationByPersistence::SetPairType ( PAIR_TYPE )

virtual

◆ SetPersistenceThreshold()

virtual void ttkTopologicalSimplificationByPersistence::SetPersistenceThreshold ( double )

virtual

◆ SetThresholdIsAbsolute()

virtual void ttkTopologicalSimplificationByPersistence::SetThresholdIsAbsolute ( bool )

virtual

The documentation for this class was generated from the following files:

/home/julien/Pro/git/github/ttk-tierny/core/vtk/ttkTopologicalSimplificationByPersistence/ttkTopologicalSimplificationByPersistence.h
/home/julien/Pro/git/github/ttk-tierny/core/vtk/ttkTopologicalSimplificationByPersistence/ttkTopologicalSimplificationByPersistence.cpp

Public Types

Public Member Functions

Static Public Member Functions

Protected Member Functions

Additional Inherited Members

Detailed Description

Member Typedef Documentation

◆ Superclass

Constructor & Destructor Documentation

◆ ttkTopologicalSimplificationByPersistence()

◆ ~ttkTopologicalSimplificationByPersistence()

Member Function Documentation

◆ FillInputPortInformation()

◆ FillOutputPortInformation()

◆ GetClassName()

◆ GetComputePerturbation()

◆ GetPairType()

◆ GetPersistenceThreshold()

◆ GetThresholdIsAbsolute()

◆ IsA()

◆ IsTypeOf()

◆ New()

◆ RequestData()

◆ SafeDownCast()

◆ SetComputePerturbation()

◆ SetPairType() [1/2]

◆ SetPairType() [2/2]

◆ SetPersistenceThreshold()

◆ SetThresholdIsAbsolute()