TTK VTK-filter that wraps the ttk::MergeTreePrincipalGeodesics module. More...

#include <ttkMergeTreePrincipalGeodesics.h>

Inheritance diagram for ttkMergeTreePrincipalGeodesics:

Public Types
typedef ttkAlgorithm	Superclass

Public Types inherited from ttkAlgorithm
typedef vtkAlgorithm	Superclass

Public Member Functions
void	SetNormalizedWasserstein (bool nW)

bool	GetNormalizedWasserstein ()

void	SetNumberOfGeodesics (unsigned int numberOfGeodesics)

unsigned int	GetNumberOfGeodesics ()

void	SetNumberOfProjectionIntervals (unsigned int intervals)

unsigned int	GetNumberOfProjectionIntervals ()

void	SetNumberOfProjectionSteps (unsigned int steps)

unsigned int	GetNumberOfProjectionSteps ()

void	SetBarycenterSizeLimitPercent (double percent)

double	GetBarycenterSizeLimitPercent ()

void	SetDeterministic (bool deterministic)

bool	GetDeterministic ()

void	SetJoinSplitMixtureCoefficient (double joinSplitMixtureCoefficient)

double	GetJoinSplitMixtureCoefficient ()

void	SetKeepState (bool keepState)

bool	GetKeepState ()

void	SetEpsilon1UseFarthestSaddle (bool epsilon1UseFarthestSaddle)

bool	GetEpsilon1UseFarthestSaddle ()

void	SetEpsilonTree1 (double epsilonTree1)

double	GetEpsilonTree1 ()

void	SetEpsilon2Tree1 (double epsilon2Tree1)

double	GetEpsilon2Tree1 ()

void	SetEpsilon3Tree1 (double epsilon3Tree1)

double	GetEpsilon3Tree1 ()

void	SetPersistenceThreshold (double persistenceThreshold)

double	GetPersistenceThreshold ()

void	SetDeleteMultiPersPairs (bool delMultiPersPairs)

bool	GetDeleteMultiPersPairs ()

void	SetComputeReconstructionError (bool b)

bool	GetComputeReconstructionError ()

virtual const char *	GetClassName ()

virtual int	IsA (const char *type)

template<class dataType >
int	runCompute (vtkInformationVector *ttkNotUsed(outputVector), std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees2)

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 ttkMergeTreePrincipalGeodesics *	New ()

static int	IsTypeOf (const char *type)

static ttkMergeTreePrincipalGeodesics *	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
	ttkMergeTreePrincipalGeodesics ()

int	FillInputPortInformation (int port, vtkInformation *info) override

int	FillOutputPortInformation (int port, vtkInformation *info) override

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

template<class dataType >
int	run (vtkInformationVector *outputVector, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees2)

template<class dataType >
int	runCompute (vtkInformationVector *outputVector, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees2)

template<class dataType >
int	runOutput (vtkInformationVector *outputVector, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees2)

template<class dataType >
void	makeBarycenterOutput (ttk::ftm::MergeTree< dataType > &barycenter, int blockId, vtkMultiBlockDataSet *output_barycenter)

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::MergeTreePrincipalGeodesics
	MergeTreePrincipalGeodesics ()

unsigned int	getGeodesicNumber ()

template<class dataType >
void	initVectors (int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2, std::vector< std::vector< double > > &v1, std::vector< std::vector< double > > &v2, std::vector< std::vector< double > > &trees2V1, std::vector< std::vector< double > > &trees2V2)

double	orthogonalCost (std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2)

double	regularizerCost (std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2)

double	projectionCost (std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, double optMapCost)

template<class dataType >
double	barycentricProjection (ftm::MergeTree< dataType > &barycenter, ftm::MergeTree< dataType > &extremity, std::vector< std::vector< double > > &v, bool isV1, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType >
double	optimalMappingSetProjection (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, ftm::MergeTree< dataType > &barycenter2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2, bool useSecondInput=false)

void	trueGeneralizedGeodesicProjection (std::vector< std::vector< double > > &v1, std::vector< std::vector< double > > &v2)

void	orthogonalProjection (std::vector< std::vector< double > > &v1, std::vector< std::vector< double > > &v2, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s)

template<class dataType >
double	projectionStep (int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, ftm::MergeTree< dataType > &barycenter2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2, std::vector< std::vector< std::vector< double > > > &trees2Vs, std::vector< std::vector< std::vector< double > > > &trees2V2s, bool useSecondInput, unsigned int noProjectionStep)

template<class dataType >
void	assignmentImpl (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2, std::vector< std::vector< double > > &allTreesTs, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< std::vector< double > > > &trees2Vs, std::vector< std::vector< std::vector< double > > > &trees2V2s, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings2, std::vector< double > &ts, std::vector< double > &distances)

template<class dataType >
void	assignmentStep (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2, std::vector< std::vector< double > > &allTreesTs, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< std::vector< double > > > &trees2Vs, std::vector< std::vector< std::vector< double > > > &trees2V2s, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings2, std::vector< double > &ts, std::vector< double > &distances)

template<class dataType >
void	updateClosedForm (int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< ftm::MergeTree< dataType > > &allInterpolated, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< std::vector< double > > &tss, std::vector< std::vector< double > > &vR, std::vector< std::vector< double > > &vR2, std::vector< bool > &isUniform)

template<class dataType >
void	manageIndividualTs (int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< double > &ts, std::vector< std::vector< double > > &allTreesTs, std::vector< ftm::MergeTree< dataType > > &allInterpolated, std::vector< bool > &isUniform, std::vector< std::vector< double > > &tss, unsigned int &noUniform, bool &foundAllUniform)

template<class dataType >
bool	updateClosedFormStep (int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings2, std::vector< std::vector< std::vector< double > > > &trees2Vs, std::vector< std::vector< std::vector< double > > > &trees2V2s, std::vector< double > &ts, std::vector< std::vector< double > > &allTreesTs)

template<class dataType >
bool	updateStep (int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings2, std::vector< std::vector< std::vector< double > > > &trees2Vs, std::vector< std::vector< std::vector< double > > > &trees2V2s, std::vector< double > &ts, std::vector< std::vector< double > > &allTreesTs)

template<class dataType >
bool	convergenceStep (std::vector< double > &distances, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, dataType &oldFrechetEnergy, dataType &minFrechetEnergy, int &cptBlocked, bool &converged, double optMapCost)

template<class dataType >
void	computePrincipalGeodesic (unsigned int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2)

template<class dataType >
void	computePrincipalGeodesics (std::vector< ftm::MergeTree< dataType > > &trees, std::vector< ftm::MergeTree< dataType > > &trees2)

template<class dataType >
void	execute (std::vector< ftm::MergeTree< dataType > > &trees, std::vector< ftm::MergeTree< dataType > > &trees2)

void	copyMinMaxPairVector (std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2)

template<class dataType >
void	computeGeodesicExtremities ()

template<class dataType >
void	computeBranchesCorrelationMatrix (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees)

template<class dataType >
void	printIterationVariances (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2, int geodesicNumber, double globalVariance)

double	verifyOrthogonality (std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, bool doPrint=true)

double	verifyOrthogonality (std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, bool doPrint=true)

template<class dataType >
dataType	computeVarianceFromDistances (std::vector< dataType > &distances)

template<class dataType >
double	computeExplainedVariance (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< double > &ts, bool computeGlobalVariance=false)

template<class dataType >
double	computeGlobalVariance (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees)

template<class dataType >
double	computeSurfaceExplainedVariance (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< double > > &ts)

template<class dataType >
void	computeProjectionDistances (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< double > &ts, std::vector< double > &distances, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType >
double	computeExplainedVarianceT (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< double > &ts)

template<class dataType >
double	computeExplainedVarianceT (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, ftm::MergeTree< dataType > &barycenter2, std::vector< std::vector< double > > &trees2V, std::vector< std::vector< double > > &trees2V2, std::vector< double > &ts)

template<class dataType >
void	verifyMinMaxPair (ftm::MergeTree< dataType > &mTree1, ftm::MergeTree< dataType > &mTree)

Protected Member Functions inherited from ttk::MergeTreePrincipalGeodesicsBase
	MergeTreePrincipalGeodesicsBase ()

template<class dataType >
dataType	computeReconstructionError (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &inputTrees, std::vector< std::vector< double * > > &vS, std::vector< std::vector< double * > > &v2s, size_t vSize, std::vector< std::vector< double > > &allTreesTs, std::vector< double > &reconstructionErrors, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, bool transposeVector=true)

template<class dataType >
dataType	computeReconstructionError (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &inputTrees, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< double > > &allTreesTs, std::vector< double > &reconstructionErrors)

template<class dataType >
dataType	computeReconstructionError (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &inputTrees, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< double > > &allTreesTs)

double	getGeodesicVectorMiddle (std::vector< double > &v, std::vector< double > &v2)

double	getAdjustedTMax (double tMin, double m)

double	getAdjustedTMin (double tMax, double m)

void	updateT (double newT, double m, double &tMin, double &tMax, bool updateTMin)

template<class dataType >
bool	adjustDiagonalT (dataType baryBirth, dataType baryDeath, ftm::idNode node, std::vector< std::vector< double > > &vNew, std::vector< std::vector< double > > &v2New, double &tMin, double &tMax)

template<class dataType >
bool	adjustNestingT (ftm::MergeTree< dataType > &ttkNotUsed(barycenter), dataType baryBirth, dataType baryDeath, ftm::idNode node, std::vector< std::vector< double > > &vNew, std::vector< std::vector< double > > &v2New, double &tMin, double &tMax)

template<class dataType >
void	getInterpolationVectorDebugMsg (dataType birth, dataType death, std::vector< std::vector< double > > &vNew, std::vector< std::vector< double > > &v2New, int i, double t, double tMin, double tMax, const std::string &msg, std::stringstream &ssT)

template<class dataType >
double	getTNew (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, int i, double t)

template<class dataType >
void	getInterpolationVector (ftm::MergeTree< dataType > &barycenter, std::vector< double * > &v, std::vector< double * > &v2, size_t vSize, double t, std::vector< dataType > &interpolationVectorT, bool transposeVector)

template<class dataType >
void	getInterpolation (ftm::MergeTree< dataType > &barycenter, std::vector< double * > &v, std::vector< double * > &v2, size_t vSize, double t, ftm::MergeTree< dataType > &interpolated, bool transposeVector=true)

template<class dataType >
void	getInterpolation (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, double t, ftm::MergeTree< dataType > &interpolated)

template<class dataType >
void	getMultiInterpolation (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double * > > &vS, std::vector< std::vector< double * > > &v2s, size_t vSize, std::vector< double > &ts, ftm::MergeTree< dataType > &interpolated, bool transposeVector=true)

template<class dataType >
void	getMultiInterpolation (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< double > &ts, ftm::MergeTree< dataType > &interpolated)

template<class dataType >
void	getMultiInterpolation (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< double > > &v, std::vector< std::vector< double > > &v2, std::vector< double > &ts, double t, ftm::MergeTree< dataType > &interpolated)

void	callGramSchmidt (std::vector< std::vector< double > > &vS, std::vector< double > &v, std::vector< double > &newV)

void	vectorToPointer (std::vector< double > &vec, double *&pVec)

void	vectorsToPointers (std::vector< std::vector< double > > &vec, std::vector< double * > &pVec)

void	vectorOfVectorsToPointers (std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< double * > > &pVS)

void	pointerToVector (double *pVec, size_t size, std::vector< double > &vec)

void	pointersToVectors (std::vector< double * > &pVec, std::vector< size_t > sizes, std::vector< std::vector< double > > &vec)

void	pointersToVectors (std::vector< double * > &pVec, size_t size, std::vector< std::vector< double > > &vec)

Protected Member Functions inherited from ttk::MergeTreeAxesAlgorithmBase
	MergeTreeAxesAlgorithmBase ()

template<class dataType >
void	computeOneDistance (ftm::MergeTree< dataType > &tree1, ftm::MergeTree< dataType > &tree2, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matching, dataType &distance, bool isCalled=false, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType >
void	computeOneDistance (ftm::MergeTree< dataType > &tree1, ftm::MergeTree< dataType > &tree2, dataType &distance, bool isCalled=false, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType >
void	initVectorFromMatching (ftm::MergeTree< dataType > &barycenter, ftm::MergeTree< dataType > &tree, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matching, std::vector< std::vector< double > > &v)

template<class dataType >
void	initRandomVector (ftm::MergeTree< dataType > &barycenter, std::vector< std::vector< double > > &v, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s)

template<class dataType , typename F >
int	initVectors (int geodesicNumber, ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &barycenter2, std::vector< ftm::MergeTree< dataType > > &trees2, std::vector< std::vector< double > > &v1, std::vector< std::vector< double > > &v2, std::vector< std::vector< double > > &trees2V1, std::vector< std::vector< double > > &trees2V2, int newVectorOffset, std::vector< double > &inputToOriginDistances, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &baryMatchings, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &baryMatchings2, std::vector< std::vector< double > > &inputToGeodesicsDistances, std::vector< std::vector< std::vector< double > > > &vS, std::vector< std::vector< std::vector< double > > > &v2s, std::vector< std::vector< std::vector< double > > > &trees2Vs, std::vector< std::vector< std::vector< double > > > &trees2V2s, bool projectInitializedVectors, F initializedVectorsProjection)

template<class dataType >
void	computeOneBarycenter (std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &baryMergeTree, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< double > &finalDistances, double barycenterSizeLimitPercent, unsigned int barycenterMaximumNumberOfPairs, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType >
void	computeOneBarycenter (std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &baryMergeTree, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< double > &finalDistances, double barycenterSizeLimitPercent, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType >
void	computeOneBarycenter (std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &baryMergeTree, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< double > &finalDistances, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType >
void	computeOneBarycenter (std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &baryMergeTree, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings)

template<class dataType >
void	computeOneBarycenter (std::vector< ftm::MergeTree< dataType > > &trees, ftm::MergeTree< dataType > &baryMergeTree)

template<class dataType >
void	preprocessingTrees (std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< int > > &nodeCorr, bool useMinMaxPairT=true)

template<class dataType >
void	preprocessingTrees (std::vector< ftm::MergeTree< dataType > > &trees, bool useMinMaxPairT=true)

template<class dataType >
void	getMatchingVector (ftm::MergeTree< dataType > &barycenter, ftm::MergeTree< dataType > &tree, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matchings, std::vector< ftm::idNode > &matchingVector)

template<class dataType >
void	getInverseMatchingVector (ftm::MergeTree< dataType > &barycenter, ftm::MergeTree< dataType > &tree, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matchings, std::vector< ftm::idNode > &matchingVector)

template<class dataType >
void	getMatchingMatrix (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings, std::vector< std::vector< ftm::idNode > > &matchingMatrix)

template<class dataType >
std::tuple< dataType, dataType >	getParametrizedBirthDeath (ftm::FTMTree_MT *tree, ftm::idNode node)

template<class dataType >
void	computeBranchesCorrelationMatrix (ftm::MergeTree< dataType > &barycenter, std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &baryMatchings, std::vector< std::vector< double > > &allTs, std::vector< std::vector< double > > &branchesCorrelationMatrix, std::vector< std::vector< double > > &persCorrelationMatrix)

void	zeroPadding (std::string &colName, const size_t numberCols, const size_t colIdx)

std::string	getTableCoefficientName (int noGeodesics, int geodesicNum)

std::string	getTableCoefficientNormName (int noGeodesics, int geodesicNum)

std::string	getTableVectorName (int noGeodesics, int geodesicNum, int vId, int vComp, bool isSecondInput=false)

std::string	getTableCorrelationName (int noGeodesics, int geodesicNum)

std::string	getTableCorrelationPersName (int noGeodesics, int geodesicNum)

std::string	getTableCorrelationTreeName (int noTrees, int treeNum)

Protected Member Functions inherited from ttk::MergeTreeBase
	MergeTreeBase ()

void	setAssignmentSolver (int assignmentSolver)

void	setEpsilon1UseFarthestSaddle (bool b)

void	setEpsilonTree1 (double epsilon)

void	setEpsilonTree2 (double epsilon)

void	setEpsilon2Tree1 (double epsilon)

void	setEpsilon2Tree2 (double epsilon)

void	setEpsilon3Tree1 (double epsilon)

void	setEpsilon3Tree2 (double epsilon)

void	setPersistenceThreshold (double pt)

void	setParallelize (bool para)

void	setNodePerTask (int npt)

void	setBranchDecomposition (bool useBD)

void	setNormalizedWasserstein (bool normalizedWasserstein)

void	setKeepSubtree (bool keepSubtree)

void	setBarycenterMergeTree (bool imt)

void	setDistanceSquaredRoot (bool distanceSquaredRoot)

void	setUseMinMaxPair (bool useMinMaxPair)

void	setDeleteMultiPersPairs (bool deleteMultiPersPairsT)

void	setCleanTree (bool clean)

void	setIsPersistenceDiagram (bool isPD)

std::vector< std::vector< int > >	getTreesNodeCorr ()

double	mixDistancesMinMaxPairWeight (bool isFirstInput)

double	mixDistancesWeight (bool isFirstInput)

template<class dataType >
double	mixDistances (dataType distance1, dataType distance2)

template<class dataType >
void	mixDistancesMatrix (std::vector< std::vector< dataType > > &distanceMatrix, std::vector< std::vector< dataType > > &distanceMatrix2)

template<class dataType >
void	mergeSaddle (ftm::FTMTree_MT *tree, double epsilon, std::vector< std::vector< ftm::idNode > > &treeNodeMerged, bool mergeByPersistence=false)

template<class dataType >
void	persistenceMerging (ftm::FTMTree_MT *tree, double epsilon2, double epsilon3=100)

template<class dataType >
void	keepMostImportantPairs (ftm::FTMTree_MT *tree, int n, bool useBD)

template<class dataType >
void	persistenceThresholding (ftm::FTMTree_MT *tree, double persistenceThresholdT, std::vector< ftm::idNode > &deletedNodes)

template<class dataType >
void	persistenceThresholding (ftm::FTMTree_MT *tree, std::vector< ftm::idNode > &deletedNodes)

template<class dataType >
void	persistenceThresholding (ftm::FTMTree_MT *tree, double persistenceThresholdT)

template<class dataType >
void	persistenceThresholding (ftm::FTMTree_MT *tree)

template<class dataType >
void	verifyOrigins (ftm::FTMTree_MT *tree)

template<class dataType >
void	preprocessTree (ftm::FTMTree_MT *tree, bool deleteInconsistentNodes=true)

template<class dataType >
ftm::FTMTree_MT *	computeBranchDecomposition (ftm::FTMTree_MT *tree, std::vector< std::vector< ftm::idNode > > &treeNodeMerged)

template<class dataType >
void	dontUseMinMaxPair (ftm::FTMTree_MT *tree)

void	verifyPairsTree (ftm::FTMTree_MT *tree)

template<class dataType >
void	deleteMultiPersPairs (ftm::FTMTree_MT *tree, bool useBD)

template<class dataType >
void	preprocessingPipeline (ftm::MergeTree< dataType > &mTree, double epsilonTree, double epsilon2Tree, double epsilon3Tree, bool branchDecompositionT, bool useMinMaxPairT, bool cleanTreeT, double persistenceThreshold, std::vector< int > &nodeCorr, bool deleteInconsistentNodes=true)

template<class dataType >
void	preprocessingPipeline (ftm::MergeTree< dataType > &mTree, double epsilonTree, double epsilon2Tree, double epsilon3Tree, bool branchDecompositionT, bool useMinMaxPairT, bool cleanTreeT, std::vector< int > &nodeCorr, bool deleteInconsistentNodes=true)

void	reverseNodeCorr (ftm::FTMTree_MT *tree, std::vector< int > &nodeCorr)

template<class dataType >
void	mtFlattening (ftm::MergeTree< dataType > &mt)

template<class dataType >
void	mtsFlattening (std::vector< ftm::MergeTree< dataType > > &mts)

double	getSizeLimitMetric (std::vector< ftm::FTMTree_MT * > &trees)

template<class dataType >
void	copyMinMaxPair (ftm::MergeTree< dataType > &mTree1, ftm::MergeTree< dataType > &mTree2, bool setOrigins=false)

template<class dataType >
std::tuple< int, dataType >	fixMergedRootOrigin (ftm::FTMTree_MT *tree)

template<class dataType >
void	branchDecompositionToTree (ftm::FTMTree_MT *tree)

template<class dataType >
void	putBackMergedNodes (ftm::FTMTree_MT *tree)

template<class dataType >
void	postprocessingPipeline (ftm::FTMTree_MT *tree)

template<class dataType >
void	convertBranchDecompositionMatching (ftm::FTMTree_MT tree1, ftm::FTMTree_MT tree2, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &outputMatching)

template<class dataType >
void	convertBranchDecompositionMatching (ftm::FTMTree_MT tree1, ftm::FTMTree_MT tree2, std::vector< std::tuple< ftm::idNode, ftm::idNode > > &outputMatching)

template<class dataType >
void	identifyRealMatching (ftm::FTMTree_MT tree1, ftm::FTMTree_MT tree2, std::vector< std::tuple< ftm::idNode, ftm::idNode > > &outputMatching, std::vector< std::tuple< ftm::idNode, ftm::idNode, bool > > &realMatching)

template<class dataType >
dataType	computeDistance (dataType x1, dataType x2, dataType y1, dataType y2, double power=2)

template<class dataType >
dataType	deleteCost (ftm::FTMTree_MT *tree, ftm::idNode nodeId)

template<class dataType >
dataType	insertCost (ftm::FTMTree_MT *tree, ftm::idNode nodeId)

template<class dataType >
dataType	relabelCostOnly (ftm::FTMTree_MT tree1, ftm::idNode nodeId1, ftm::FTMTree_MT tree2, ftm::idNode nodeId2)

template<class dataType >
dataType	relabelCost (ftm::FTMTree_MT tree1, ftm::idNode nodeId1, ftm::FTMTree_MT tree2, ftm::idNode nodeId2)

void	getParamNames (std::vector< std::string > &paramNames)

double	getParamValueFromName (std::string &paramName)

void	setParamValueFromName (std::string &paramName, double value)

void	getTreesStats (std::vector< ftm::FTMTree_MT * > &trees, std::array< double, 3 > &stats)

void	printTreesStats (std::vector< ftm::FTMTree_MT * > &trees)

template<class dataType >
void	printTreesStats (std::vector< ftm::MergeTree< dataType > > &trees)

template<class dataType >
void	printTableVector (std::vector< std::vector< dataType > > &table)

template<class dataType >
void	printTable (dataType *table, int nRows, int nCols)

void	printMatching (std::vector< MatchingType > &matchings)

void	printMatching (std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matchings)

void	printMatching (std::vector< std::tuple< ftm::idNode, ftm::idNode > > &matchings)

template<class dataType >
void	printPairs (std::vector< std::tuple< SimplexId, SimplexId, dataType > > &treePairs)

template<class dataType >
void	printOutputMatching (std::vector< std::tuple< ftm::idNode, ftm::idNode > > &outputMatching, ftm::FTMTree_MT tree1, ftm::FTMTree_MT tree2, bool computeCosts=true)

Additional Inherited Members
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_

Protected Attributes inherited from ttk::MergeTreePrincipalGeodesics
bool	doComputeReconstructionError_ = false

bool	keepState_ = false

unsigned int	noProjectionStep_ = 2

bool	projectInitializedVectors_ = true

double	t_vectorCopy_time_ = 0.0

double	t_allVectorCopy_time_ = 0.0

std::vector< double >	inputToBaryDistances_

std::vector< std::vector< double > >	inputToGeodesicsDistances_

ftm::MergeTree< double >	barycenter_

ftm::MergeTree< double >	barycenterInput2_

ftm::MergeTree< double >	barycenterBDT_

ftm::MergeTree< double >	barycenterInput2BDT_

bool	barycenterWasComputed_ = false

int	newVectorOffset_ = 0

double	cumulVariance_ = 0.0

double	cumulTVariance_ = 0.0

Protected Attributes inherited from ttk::MergeTreePrincipalGeodesicsBase
std::vector< std::vector< std::vector< double > > >	vS_

std::vector< std::vector< std::vector< double > > >	v2s_

std::vector< std::vector< std::vector< double > > >	trees2Vs_

std::vector< std::vector< std::vector< double > > >	trees2V2s_

std::vector< std::vector< double > >	allTs_

std::vector< std::vector< double > >	allScaledTs_

std::vector< std::vector< double > >	allTreesTs_

std::vector< std::vector< double > >	branchesCorrelationMatrix_

std::vector< std::vector< double > >	persCorrelationMatrix_

std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > >	baryMatchings_

std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > >	baryMatchings2_

Protected Attributes inherited from ttk::MergeTreeAxesAlgorithmBase
bool	deterministic_ = true

unsigned int	numberOfGeodesics_ = 1

unsigned int	k_ = 10

double	barycenterSizeLimitPercent_ = 0.0

std::vector< std::vector< int > >	trees2NodeCorr_

Protected Attributes inherited from ttk::MergeTreeBase
int	assignmentSolverID_ = 0

bool	epsilon1UseFarthestSaddle_ = false

double	epsilonTree1_ = 0

double	epsilonTree2_ = 0

double	epsilon2Tree1_ = 100

double	epsilon2Tree2_ = 100

double	epsilon3Tree1_ = 100

double	epsilon3Tree2_ = 100

double	persistenceThreshold_ = 0

bool	barycenterMergeTree_ = false

bool	useMinMaxPair_ = true

bool	deleteMultiPersPairs_ = false

bool	branchDecomposition_ = true

int	wassersteinPower_ = 2

bool	normalizedWasserstein_ = true

bool	keepSubtree_ = false

bool	distanceSquaredRoot_ = true

bool	useFullMerge_ = false

bool	isPersistenceDiagram_ = false

bool	convertToDiagram_ = false

double	mixtureCoefficient_ = 0.5

bool	useDoubleInput_ = false

bool	parallelize_ = true

int	nodePerTask_ = 32

bool	cleanTree_ = true

std::vector< std::vector< int > >	treesNodeCorr_

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

Detailed Description

TTK VTK-filter that wraps the ttk::MergeTreePrincipalGeodesics module.

Author: Mathieu Pont mathi.nosp@m.eu.p.nosp@m.ont@l.nosp@m.ip6..nosp@m.fr

Date: 2022.

This VTK filter uses the ttk::MergeTreePrincipalGeodesics module to compute Principal Geodesic Analysis on the space of merge trees or persistence diagrams, that is, a set of orthogonal geodesic axes defining a basis with the barycenter as origin.

Parameters

Input	vtkMultiBlockDataSet Input trees
Input	(optional) vtkMultiBlockDataSet Input trees
Output	vtkMultiBlockDataSet Barycenter
Output	vtkTable Coefficients
Output	vtkTable Geodesics Vectors
Output	vtkTable Correlation Matrix

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

See the corresponding standalone program for a usage example:

standalone/MergeTreePrincipalGeodesics/main.cpp

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

Related publication:
"Principal Geodesic Analysis of Merge Trees (and Persistence Diagrams)"
Mathieu Pont, Jules Vidal, Julien Tierny.
IEEE Transactions on Visualization and Computer Graphics, 2022

See also: ttk::MergeTreePrincipalGeodesics; ttkAlgorithm

Online examples:

Merge Tree Principal Geodesic Analysis example

Definition at line 58 of file ttkMergeTreePrincipalGeodesics.h.

Member Typedef Documentation

◆ Superclass

typedef ttkAlgorithm ttkMergeTreePrincipalGeodesics::Superclass

Definition at line 248 of file ttkMergeTreePrincipalGeodesics.h.

Constructor & Destructor Documentation

◆ ttkMergeTreePrincipalGeodesics()

ttkMergeTreePrincipalGeodesics::ttkMergeTreePrincipalGeodesics ( )

protected

Implement the filter constructor and destructor (see cpp file)

Implement the filter constructor and destructor in the cpp file.

The constructor has to specify the number of input and output ports with the functions SetNumberOfInputPorts and SetNumberOfOutputPorts, respectively. It should also set default values for all filter parameters.

The destructor is usually empty unless you want to manage memory explicitly, by for example allocating memory on the heap that needs to be freed when the filter is destroyed.

Definition at line 32 of file ttkMergeTreePrincipalGeodesics.cpp.

Member Function Documentation

◆ FillInputPortInformation()

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

overrideprotected

Specify the input data type of each input port (see cpp file)

Specify the required input data type of each input port

This method specifies the required input object data types of the filter by adding the vtkAlgorithm::INPUT_REQUIRED_DATA_TYPE() key to the port information.

Definition at line 44 of file ttkMergeTreePrincipalGeodesics.cpp.

◆ FillOutputPortInformation()

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

overrideprotected

Specify the data object type of each output port (see cpp file)

Specify the data object type of each output port

This method specifies in the port information object the data type of the corresponding output objects. It is possible to either explicitly specify a type by adding a vtkDataObject::DATA_TYPE_NAME() key:

 info->Set( vtkDataObject::DATA_TYPE_NAME(), "vtkUnstructuredGrid" );

or to pass a type of an input port to an output port by adding the ttkAlgorithm::SAME_DATA_TYPE_AS_INPUT_PORT() key (see below).

Note: prior to the execution of the RequestData method the pipeline will initialize empty output data objects based on this information.

Definition at line 71 of file ttkMergeTreePrincipalGeodesics.cpp.

◆ GetBarycenterSizeLimitPercent()

double ttkMergeTreePrincipalGeodesics::GetBarycenterSizeLimitPercent ( )

inline

Definition at line 147 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetClassName()

virtual const char * ttkMergeTreePrincipalGeodesics::GetClassName ( )

virtual

Reimplemented from ttkAlgorithm.

◆ GetComputeReconstructionError()

bool ttkMergeTreePrincipalGeodesics::GetComputeReconstructionError ( )

inline

Definition at line 239 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetDeleteMultiPersPairs()

bool ttkMergeTreePrincipalGeodesics::GetDeleteMultiPersPairs ( )

inline

Definition at line 229 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetDeterministic()

bool ttkMergeTreePrincipalGeodesics::GetDeterministic ( )

inline

Definition at line 156 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetEpsilon1UseFarthestSaddle()

bool ttkMergeTreePrincipalGeodesics::GetEpsilon1UseFarthestSaddle ( )

inline

Definition at line 183 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetEpsilon2Tree1()

double ttkMergeTreePrincipalGeodesics::GetEpsilon2Tree1 ( )

inline

Definition at line 202 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetEpsilon3Tree1()

double ttkMergeTreePrincipalGeodesics::GetEpsilon3Tree1 ( )

inline

Definition at line 211 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetEpsilonTree1()

double ttkMergeTreePrincipalGeodesics::GetEpsilonTree1 ( )

inline

Definition at line 193 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetJoinSplitMixtureCoefficient()

double ttkMergeTreePrincipalGeodesics::GetJoinSplitMixtureCoefficient ( )

inline

Definition at line 165 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetKeepState()

bool ttkMergeTreePrincipalGeodesics::GetKeepState ( )

inline

Definition at line 174 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetNormalizedWasserstein()

bool ttkMergeTreePrincipalGeodesics::GetNormalizedWasserstein ( )

inline

Definition at line 111 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetNumberOfGeodesics()

unsigned int ttkMergeTreePrincipalGeodesics::GetNumberOfGeodesics ( )

inline

Definition at line 120 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetNumberOfProjectionIntervals()

unsigned int ttkMergeTreePrincipalGeodesics::GetNumberOfProjectionIntervals ( )

inline

Definition at line 129 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetNumberOfProjectionSteps()

unsigned int ttkMergeTreePrincipalGeodesics::GetNumberOfProjectionSteps ( )

inline

Definition at line 138 of file ttkMergeTreePrincipalGeodesics.h.

◆ GetPersistenceThreshold()

double ttkMergeTreePrincipalGeodesics::GetPersistenceThreshold ( )

inline

Definition at line 220 of file ttkMergeTreePrincipalGeodesics.h.

◆ IsA()

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

virtual

Reimplemented from ttkAlgorithm.

◆ IsTypeOf()

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

static

◆ makeBarycenterOutput()

template<class dataType >

void ttkMergeTreePrincipalGeodesics::makeBarycenterOutput	(	ttk::ftm::MergeTree< dataType > &	barycenter,
		int	blockId,
		vtkMultiBlockDataSet *	output_barycenter
	)

protected

Definition at line 193 of file ttkMergeTreePrincipalGeodesics.cpp.

◆ New()

static ttkMergeTreePrincipalGeodesics * ttkMergeTreePrincipalGeodesics::New ( )

static

This static method and the macro below are VTK conventions on how to instantiate VTK objects. You don't have to modify this.

◆ RequestData()

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

overrideprotected

Pass VTK data to the base code and convert base code output to VTK (see cpp file)

Pass VTK data to the base code and convert base code output to VTK

This method is called during the pipeline execution to update the already initialized output data objects based on the given input data objects and filter parameters.

Note: 1) The passed input data objects are validated based on the information provided by the FillInputPortInformation method. 2) The output objects are already initialized based on the information provided by the FillOutputPortInformation method.

Definition at line 96 of file ttkMergeTreePrincipalGeodesics.cpp.

◆ run()

template<class dataType >

int ttkMergeTreePrincipalGeodesics::run	(	vtkInformationVector *	outputVector,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees2
	)

protected

Definition at line 135 of file ttkMergeTreePrincipalGeodesics.cpp.

◆ runCompute() [1/2]

template<class dataType >

int ttkMergeTreePrincipalGeodesics::runCompute	(	vtkInformationVector *	outputVector,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees2
	)

protected

◆ runCompute() [2/2]

template<class dataType >

int ttkMergeTreePrincipalGeodesics::runCompute	(	vtkInformationVector *	ttkNotUsedoutputVector,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees2
	)

Definition at line 146 of file ttkMergeTreePrincipalGeodesics.cpp.

◆ runOutput()

template<class dataType >

int ttkMergeTreePrincipalGeodesics::runOutput	(	vtkInformationVector *	outputVector,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees,
		std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &	inputTrees2
	)

protected

Definition at line 232 of file ttkMergeTreePrincipalGeodesics.cpp.

◆ SafeDownCast()

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

static

◆ SetBarycenterSizeLimitPercent()

void ttkMergeTreePrincipalGeodesics::SetBarycenterSizeLimitPercent ( double percent )

inline

Definition at line 142 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetComputeReconstructionError()

void ttkMergeTreePrincipalGeodesics::SetComputeReconstructionError ( bool b )

inline

Definition at line 234 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetDeleteMultiPersPairs()

void ttkMergeTreePrincipalGeodesics::SetDeleteMultiPersPairs ( bool delMultiPersPairs )

inline

Definition at line 224 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetDeterministic()

void ttkMergeTreePrincipalGeodesics::SetDeterministic ( bool deterministic )

inline

Definition at line 151 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetEpsilon1UseFarthestSaddle()

void ttkMergeTreePrincipalGeodesics::SetEpsilon1UseFarthestSaddle ( bool epsilon1UseFarthestSaddle )

inline

Definition at line 178 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetEpsilon2Tree1()

void ttkMergeTreePrincipalGeodesics::SetEpsilon2Tree1 ( double epsilon2Tree1 )

inline

Definition at line 197 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetEpsilon3Tree1()

void ttkMergeTreePrincipalGeodesics::SetEpsilon3Tree1 ( double epsilon3Tree1 )

inline

Definition at line 206 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetEpsilonTree1()

void ttkMergeTreePrincipalGeodesics::SetEpsilonTree1 ( double epsilonTree1 )

inline

Definition at line 187 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetJoinSplitMixtureCoefficient()

void ttkMergeTreePrincipalGeodesics::SetJoinSplitMixtureCoefficient ( double joinSplitMixtureCoefficient )

inline

Definition at line 160 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetKeepState()

void ttkMergeTreePrincipalGeodesics::SetKeepState ( bool keepState )

inline

Definition at line 169 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetNormalizedWasserstein()

void ttkMergeTreePrincipalGeodesics::SetNormalizedWasserstein ( bool nW )

inline

Automatically generate getters and setters of filter parameters via vtkMacros.

Definition at line 106 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetNumberOfGeodesics()

void ttkMergeTreePrincipalGeodesics::SetNumberOfGeodesics ( unsigned int numberOfGeodesics )

inline

Definition at line 115 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetNumberOfProjectionIntervals()

void ttkMergeTreePrincipalGeodesics::SetNumberOfProjectionIntervals ( unsigned int intervals )

inline

Definition at line 124 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetNumberOfProjectionSteps()

void ttkMergeTreePrincipalGeodesics::SetNumberOfProjectionSteps ( unsigned int steps )

inline

Definition at line 133 of file ttkMergeTreePrincipalGeodesics.h.

◆ SetPersistenceThreshold()

void ttkMergeTreePrincipalGeodesics::SetPersistenceThreshold ( double persistenceThreshold )

inline

Definition at line 215 of file ttkMergeTreePrincipalGeodesics.h.

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

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

◆ ttkMergeTreePrincipalGeodesics()

Member Function Documentation

◆ FillInputPortInformation()

◆ FillOutputPortInformation()

◆ GetBarycenterSizeLimitPercent()

◆ GetClassName()

◆ GetComputeReconstructionError()

◆ GetDeleteMultiPersPairs()

◆ GetDeterministic()

◆ GetEpsilon1UseFarthestSaddle()

◆ GetEpsilon2Tree1()

◆ GetEpsilon3Tree1()

◆ GetEpsilonTree1()

◆ GetJoinSplitMixtureCoefficient()

◆ GetKeepState()

◆ GetNormalizedWasserstein()

◆ GetNumberOfGeodesics()

◆ GetNumberOfProjectionIntervals()

◆ GetNumberOfProjectionSteps()

◆ GetPersistenceThreshold()

◆ IsA()

◆ IsTypeOf()

◆ makeBarycenterOutput()

◆ New()

◆ RequestData()

◆ run()

◆ runCompute() [1/2]

◆ runCompute() [2/2]

◆ runOutput()

◆ SafeDownCast()

◆ SetBarycenterSizeLimitPercent()

◆ SetComputeReconstructionError()

◆ SetDeleteMultiPersPairs()

◆ SetDeterministic()

◆ SetEpsilon1UseFarthestSaddle()

◆ SetEpsilon2Tree1()

◆ SetEpsilon3Tree1()

◆ SetEpsilonTree1()

◆ SetJoinSplitMixtureCoefficient()

◆ SetKeepState()

◆ SetNormalizedWasserstein()

◆ SetNumberOfGeodesics()

◆ SetNumberOfProjectionIntervals()

◆ SetNumberOfProjectionSteps()

◆ SetPersistenceThreshold()