#include <MergeTreePrincipalGeodesicsBase.h>

Inheritance diagram for ttk::MergeTreePrincipalGeodesicsBase:

Public Member Functions
	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)

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)

Public 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 axeNumber, 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 > > &inputToAxesDistances, 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)

void	reverseMatchingVector (unsigned int noNodes, std::vector< ftm::idNode > &matchingVector, std::vector< ftm::idNode > &invMatchingVector)

template<class dataType >
void	reverseMatchingVector (ftm::MergeTree< dataType > &tree, std::vector< ftm::idNode > &matchingVector, std::vector< ftm::idNode > &invMatchingVector)

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)

Public 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	setNonMatchingWeight (double weight)

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)

Protected Attributes
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::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::MergeTreeAxesAlgorithmBase
bool	deterministic_ = true

unsigned int	numberOfAxes_ = 2

unsigned int	k_ = 16

double	barycenterSizeLimitPercent_ = 20.0

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

double	nonMatchingWeight_ = 1.0

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_

Additional Inherited Members
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)

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

Detailed Description

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

Date: 2022

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

Definition at line 20 of file MergeTreePrincipalGeodesicsBase.h.

Constructor & Destructor Documentation

◆ MergeTreePrincipalGeodesicsBase()

ttk::MergeTreePrincipalGeodesicsBase::MergeTreePrincipalGeodesicsBase ( )

inline

Definition at line 33 of file MergeTreePrincipalGeodesicsBase.h.

Member Function Documentation

◆ adjustDiagonalT()

template<class dataType >

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

inline

Definition at line 154 of file MergeTreePrincipalGeodesicsBase.h.

◆ adjustNestingT()

template<class dataType >

bool ttk::MergeTreePrincipalGeodesicsBase::adjustNestingT	(	ftm::MergeTree< dataType > &	ttkNotUsedbarycenter,
		dataType	baryBirth,
		dataType	baryDeath,
		ftm::idNode	node,
		std::vector< std::vector< double > > &	vNew,
		std::vector< std::vector< double > > &	v2New,
		double &	tMin,
		double &	tMax
	)

inline

Definition at line 199 of file MergeTreePrincipalGeodesicsBase.h.

◆ callGramSchmidt()

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

Definition at line 11 of file MergeTreePrincipalGeodesicsBase.cpp.

◆ computeReconstructionError() [1/3]

template<class dataType >

dataType ttk::MergeTreePrincipalGeodesicsBase::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`
	)

inline

Definition at line 44 of file MergeTreePrincipalGeodesicsBase.h.

◆ computeReconstructionError() [2/3]

template<class dataType >

dataType ttk::MergeTreePrincipalGeodesicsBase::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
	)

inline

Definition at line 94 of file MergeTreePrincipalGeodesicsBase.h.

◆ computeReconstructionError() [3/3]

template<class dataType >

dataType ttk::MergeTreePrincipalGeodesicsBase::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
	)

inline

Definition at line 76 of file MergeTreePrincipalGeodesicsBase.h.

◆ getAdjustedTMax()

double ttk::MergeTreePrincipalGeodesicsBase::getAdjustedTMax	(	double	tMin,
		double	m
	)

inline

Definition at line 126 of file MergeTreePrincipalGeodesicsBase.h.

◆ getAdjustedTMin()

double ttk::MergeTreePrincipalGeodesicsBase::getAdjustedTMin	(	double	tMax,
		double	m
	)

inline

Definition at line 132 of file MergeTreePrincipalGeodesicsBase.h.

◆ getGeodesicVectorMiddle()

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

inline

Definition at line 108 of file MergeTreePrincipalGeodesicsBase.h.

◆ getInterpolation() [1/2]

template<class dataType >

void ttk::MergeTreePrincipalGeodesicsBase::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`
	)

inline

Definition at line 573 of file MergeTreePrincipalGeodesicsBase.h.

◆ getInterpolation() [2/2]

template<class dataType >

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

inline

Definition at line 601 of file MergeTreePrincipalGeodesicsBase.h.

◆ getInterpolationVector()

template<class dataType >

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

inline

Definition at line 371 of file MergeTreePrincipalGeodesicsBase.h.

◆ getInterpolationVectorDebugMsg()

template<class dataType >

void ttk::MergeTreePrincipalGeodesicsBase::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
	)

inline

Definition at line 300 of file MergeTreePrincipalGeodesicsBase.h.

◆ getMultiInterpolation() [1/3]

template<class dataType >

void ttk::MergeTreePrincipalGeodesicsBase::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`
	)

inline

Definition at line 614 of file MergeTreePrincipalGeodesicsBase.h.

◆ getMultiInterpolation() [2/3]

template<class dataType >

void ttk::MergeTreePrincipalGeodesicsBase::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
	)

inline

Definition at line 633 of file MergeTreePrincipalGeodesicsBase.h.

◆ getMultiInterpolation() [3/3]

template<class dataType >

void ttk::MergeTreePrincipalGeodesicsBase::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
	)

inline

Definition at line 647 of file MergeTreePrincipalGeodesicsBase.h.

◆ getTNew()

template<class dataType >

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

inline

Definition at line 326 of file MergeTreePrincipalGeodesicsBase.h.

◆ pointersToVectors() [1/2]

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

Definition at line 58 of file MergeTreePrincipalGeodesicsBase.cpp.

◆ pointersToVectors() [2/2]

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

Definition at line 49 of file MergeTreePrincipalGeodesicsBase.cpp.

◆ pointerToVector()

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

Definition at line 42 of file MergeTreePrincipalGeodesicsBase.cpp.

◆ updateT()

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

inline

Definition at line 138 of file MergeTreePrincipalGeodesicsBase.h.

◆ vectorOfVectorsToPointers()

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

Definition at line 34 of file MergeTreePrincipalGeodesicsBase.cpp.

◆ vectorsToPointers()

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

Definition at line 27 of file MergeTreePrincipalGeodesicsBase.cpp.

◆ vectorToPointer()

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

Definition at line 22 of file MergeTreePrincipalGeodesicsBase.cpp.

Member Data Documentation

◆ allScaledTs_

std::vector<std::vector<double> > ttk::MergeTreePrincipalGeodesicsBase::allScaledTs_

protected

Definition at line 26 of file MergeTreePrincipalGeodesicsBase.h.

◆ allTreesTs_

std::vector<std::vector<double> > ttk::MergeTreePrincipalGeodesicsBase::allTreesTs_

protected

Definition at line 26 of file MergeTreePrincipalGeodesicsBase.h.

◆ allTs_

std::vector<std::vector<double> > ttk::MergeTreePrincipalGeodesicsBase::allTs_

protected

Definition at line 26 of file MergeTreePrincipalGeodesicsBase.h.

◆ baryMatchings2_

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

protected

Definition at line 30 of file MergeTreePrincipalGeodesicsBase.h.

◆ baryMatchings_

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

protected

Definition at line 30 of file MergeTreePrincipalGeodesicsBase.h.

◆ branchesCorrelationMatrix_

std::vector<std::vector<double> > ttk::MergeTreePrincipalGeodesicsBase::branchesCorrelationMatrix_

protected

Definition at line 27 of file MergeTreePrincipalGeodesicsBase.h.

◆ persCorrelationMatrix_

std::vector<std::vector<double> > ttk::MergeTreePrincipalGeodesicsBase::persCorrelationMatrix_

protected

Definition at line 28 of file MergeTreePrincipalGeodesicsBase.h.

◆ trees2V2s_

std::vector<std::vector<std::vector<double> > > ttk::MergeTreePrincipalGeodesicsBase::trees2V2s_

protected

Definition at line 25 of file MergeTreePrincipalGeodesicsBase.h.

◆ trees2Vs_

std::vector<std::vector<std::vector<double> > > ttk::MergeTreePrincipalGeodesicsBase::trees2Vs_

protected

Definition at line 24 of file MergeTreePrincipalGeodesicsBase.h.

◆ v2s_

std::vector<std::vector<std::vector<double> > > ttk::MergeTreePrincipalGeodesicsBase::v2s_

protected

Definition at line 24 of file MergeTreePrincipalGeodesicsBase.h.

◆ vS_

std::vector<std::vector<std::vector<double> > > ttk::MergeTreePrincipalGeodesicsBase::vS_

protected

Definition at line 24 of file MergeTreePrincipalGeodesicsBase.h.

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

/home/julien/Pro/git/github/ttk-tierny/core/base/mergeTreePrincipalGeodesics/MergeTreePrincipalGeodesicsBase.h
/home/julien/Pro/git/github/ttk-tierny/core/base/mergeTreePrincipalGeodesics/MergeTreePrincipalGeodesicsBase.cpp

Public Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ MergeTreePrincipalGeodesicsBase()

Member Function Documentation

◆ adjustDiagonalT()

◆ adjustNestingT()

◆ callGramSchmidt()

◆ computeReconstructionError() [1/3]

◆ computeReconstructionError() [2/3]

◆ computeReconstructionError() [3/3]

◆ getAdjustedTMax()

◆ getAdjustedTMin()

◆ getGeodesicVectorMiddle()

◆ getInterpolation() [1/2]

◆ getInterpolation() [2/2]

◆ getInterpolationVector()

◆ getInterpolationVectorDebugMsg()

◆ getMultiInterpolation() [1/3]

◆ getMultiInterpolation() [2/3]

◆ getMultiInterpolation() [3/3]

◆ getTNew()

◆ pointersToVectors() [1/2]

◆ pointersToVectors() [2/2]

◆ pointerToVector()

◆ updateT()

◆ vectorOfVectorsToPointers()

◆ vectorsToPointers()

◆ vectorToPointer()

Member Data Documentation

◆ allScaledTs_

◆ allTreesTs_

◆ allTs_

◆ baryMatchings2_

◆ baryMatchings_

◆ branchesCorrelationMatrix_

◆ persCorrelationMatrix_

◆ trees2V2s_

◆ trees2Vs_

◆ v2s_

◆ vS_