#include <MergeTreeBarycenter.h>

Inheritance diagram for ttk::MergeTreeBarycenter:

Public Member Functions
	MergeTreeBarycenter ()

	~MergeTreeBarycenter () override=default

void	setTol (double tolT)

void	setAddNodes (bool addNodesT)

void	setDeterministic (bool deterministicT)

void	setBarycenterInitIndex (int barycenterInitIndex)

void	setBarycenterMaxIter (int barycenterMaxIter)

void	setProgressiveBarycenter (bool progressive)

void	setProgressiveSpeedDivisor (double progSpeed)

void	setIsCalled (bool ic)

double	getAllDistanceTime ()

double	getAddDeletedNodesTime ()

void	setAlpha (double alpha)

void	setBarycenterMaximumNumberOfPairs (unsigned int maxi)

void	setBarycenterSizeLimitPercent (double percent)

void	setPreprocess (bool preproc)

void	setPostprocess (bool postproc)

std::vector< double >	getFinalDistances ()

template<class dataType>
void	getDistanceMatrix (std::vector< ftm::FTMTree_MT * > &trees, std::vector< ftm::FTMTree_MT * > &trees2, std::vector< std::vector< double > > &distanceMatrix, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType>
void	getDistanceMatrix (std::vector< ftm::FTMTree_MT * > &trees, std::vector< std::vector< double > > &distanceMatrix, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType>
void	getSizeLimitedTrees (std::vector< ftm::FTMTree_MT * > &trees, unsigned int barycenterMaximumNumberOfPairs, double sizeLimitPercent, std::vector< ftm::MergeTree< dataType > > &mTreesLimited)

template<class dataType>
void	getSizeLimitedDistanceMatrix (std::vector< ftm::FTMTree_MT * > &trees, std::vector< std::vector< double > > &distanceMatrix, unsigned int barycenterMaximumNumberOfPairs, double sizeLimitPercent, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType>
void	getParametrizedDistanceMatrix (std::vector< ftm::FTMTree_MT * > &trees, std::vector< std::vector< double > > &distanceMatrix, unsigned int barycenterMaximumNumberOfPairs, double sizeLimitPercent, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType>
int	getBestInitTreeIndex (std::vector< ftm::FTMTree_MT * > &trees, std::vector< ftm::FTMTree_MT * > &trees2, unsigned int barycenterMaximumNumberOfPairs, double sizeLimitPercent, bool distMinimizer=true)

template<class dataType>
int	getBestInitTreeIndex (std::vector< ftm::FTMTree_MT * > &trees, std::vector< ftm::FTMTree_MT * > &trees2, double sizeLimitPercent, bool distMinimizer=true)

template<class dataType>
int	getBestInitTreeIndex (std::vector< ftm::FTMTree_MT * > &trees, bool distMinimizer=true)

template<class dataType>
void	initBarycenterTree (std::vector< ftm::FTMTree_MT * > &trees, ftm::MergeTree< dataType > &baryTree, bool distMinimizer=true)

template<class dataType>
ftm::idNode	getNodesAndScalarsToAdd (ftm::idNode nodeId1, ftm::FTMTree_MT *tree, ftm::idNode nodeId2, std::vector< dataType > &newScalarsVector, std::vector< std::tuple< ftm::idNode, ftm::idNode, int > > &nodesToProcess, ftm::idNode nodeCpt, int i)
	Get information about the nodes to add in the barycenter.

template<class dataType>
void	addNodes (ftm::MergeTree< dataType > &mTree1, int noTrees, std::vector< std::tuple< ftm::idNode, ftm::idNode, int > > &nodesToProcess, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode > > > &nodesProcessed)

template<class dataType>
void	updateNodesAndScalars (ftm::MergeTree< dataType > &mTree1, int noTrees, std::vector< std::tuple< ftm::idNode, ftm::idNode, int > > &nodesToProcess, std::vector< dataType > &newScalarsVector, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode > > > &nodesProcessed)

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

template<class dataType>
std::tuple< dataType, dataType >	getParametrizedBirthDeath (ftm::FTMTree_MT *tree1, ftm::idNode nodeId1)

template<class dataType>
std::tuple< dataType, dataType >	interpolation (ftm::MergeTree< dataType > &baryMergeTree, ftm::idNode nodeId, std::vector< dataType > &newScalarsVector, std::vector< ftm::FTMTree_MT * > &trees, std::vector< ftm::idNode > &nodes, std::vector< double > &alphas)

template<class dataType>
std::tuple< dataType, dataType >	interpolationAdded (ftm::FTMTree_MT *tree, ftm::idNode nodeId, double alpha, ftm::MergeTree< dataType > &baryMergeTree, ftm::idNode nodeB, std::vector< dataType > &newScalarsVector)

template<class dataType>
void	updateBarycenterTreeScalars (std::vector< ftm::FTMTree_MT * > &trees, ftm::MergeTree< dataType > &baryMergeTree, std::vector< double > &alphas, unsigned int indexAddedNodes, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &matchings)

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

template<class dataType>
void	computeOneDistance (ftm::FTMTree_MT tree, ftm::FTMTree_MT baryTree, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matching, dataType &distance, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType>
void	computeOneDistance (ftm::FTMTree_MT *tree, ftm::MergeTree< dataType > &baryMergeTree, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matching, dataType &distance, bool useDoubleInput=false, bool isFirstInput=true)

template<class dataType>
void	computeOneDistance (ftm::MergeTree< dataType > &baryMergeTree, ftm::MergeTree< dataType > &baryMergeTree2, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matching, dataType &distance, bool useDoubleInput=false, bool isFirstInput=true)

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

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

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

template<class dataType>
unsigned int	persistenceScaling (std::vector< ftm::FTMTree_MT * > &trees, std::vector< ftm::MergeTree< dataType > > &mergeTrees, std::vector< ftm::FTMTree_MT * > &oriTrees, int iterationNumber, std::vector< std::vector< ftm::idNode > > &deletedNodes)

template<class dataType>
void	addScaledDeletedNodesCost (std::vector< ftm::FTMTree_MT * > &oriTrees, std::vector< std::vector< ftm::idNode > > &deletedNodes, std::vector< dataType > &distances)

template<class dataType>
void	computeBarycenter (std::vector< ftm::FTMTree_MT * > &trees, ftm::MergeTree< dataType > &baryMergeTree, std::vector< double > &alphas, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &finalMatchings, bool finalAsgnDoubleInput=false, bool finalAsgnFirstInput=true)

template<class dataType>
void	execute (std::vector< ftm::MergeTree< dataType > > &trees, std::vector< double > &alphas, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &finalMatchings, ftm::MergeTree< dataType > &baryMergeTree, bool finalAsgnDoubleInput=false, bool finalAsgnFirstInput=true)

template<class dataType>
void	execute (std::vector< ftm::MergeTree< dataType > > &trees, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &finalMatchings, ftm::MergeTree< dataType > &baryMergeTree, bool finalAsgnDoubleInput=false, bool finalAsgnFirstInput=true)

template<class dataType>
void	limitSizeBarycenter (ftm::MergeTree< dataType > &bary, std::vector< ftm::FTMTree_MT * > &trees, unsigned int barycenterMaximumNumberOfPairs, double percent, bool useBD=true)

template<class dataType>
void	limitSizeBarycenter (ftm::MergeTree< dataType > &bary, std::vector< ftm::FTMTree_MT * > &trees, double percent, bool useBD=true)

template<class dataType>
void	limitSizeBarycenter (ftm::MergeTree< dataType > &bary, std::vector< ftm::FTMTree_MT * > &trees, bool useBD=true)

template<class dataType>
void	fixMergedRootOriginBarycenter (ftm::MergeTree< dataType > &barycenter)

void	printBaryStats (ftm::FTMTree_MT *baryTree, const debug::Priority &priority=debug::Priority::INFO)

template<class dataType>
void	verifyBarycenterTwoTrees (std::vector< ftm::FTMTree_MT * > &trees, ftm::MergeTree< dataType > &baryMergeTree, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &finalMatchings, std::vector< dataType > distances)

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::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)

void	setJoinSplitMixtureCoefficient (const double mixtureCoefficient)

void	setUseDoubleInput (const bool useDoubleInput)

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)

void	deletePersistenceDiagramsPairs (ftm::FTMTree_MT *tree, std::vector< ftm::idNode > &nodes)

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 (const ftm::FTMTree_MT *tree, ftm::idNode nodeId)

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

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

template<class dataType>
dataType	relabelCost (const ftm::FTMTree_MT tree1, ftm::idNode nodeId1, const 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
double	tol_ = 0.0

bool	addNodes_ = true

bool	deterministic_ = true

int	barycenterInitIndex_ = -1

int	barycenterMaxIter_ = -1

bool	isCalled_ = false

bool	progressiveBarycenter_ = false

double	progressiveSpeedDivisor_ = 4.0

double	alpha_ = 0.5

unsigned int	barycenterMaximumNumberOfPairs_ = 0

double	barycenterSizeLimitPercent_ = 0.0

double	allDistanceTime_ = 0

double	addDeletedNodesTime_ = 0

bool	preprocess_ = true

bool	postprocess_ = true

std::vector< double >	finalDistances_

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::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

The MergeTreeBarycenter class that computes the barycenter of an ensemble of merge trees.

Definition at line 32 of file MergeTreeBarycenter.h.

Constructor & Destructor Documentation

◆ MergeTreeBarycenter()

ttk::MergeTreeBarycenter::MergeTreeBarycenter ( )

inline

Definition at line 58 of file MergeTreeBarycenter.h.

◆ ~MergeTreeBarycenter()

ttk::MergeTreeBarycenter::~MergeTreeBarycenter ( )

overridedefault

Member Function Documentation

◆ addNodes()

template<class dataType>

void ttk::MergeTreeBarycenter::addNodes	(	ftm::MergeTree< dataType > &	mTree1,
		int	noTrees,
		std::vector< std::tuple< ftm::idNode, ftm::idNode, int > > &	nodesToProcess,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode > > > &	nodesProcessed )

inline

Definition at line 349 of file MergeTreeBarycenter.h.

◆ addScaledDeletedNodesCost()

template<class dataType>

void ttk::MergeTreeBarycenter::addScaledDeletedNodesCost	(	std::vector< ftm::FTMTree_MT * > &	oriTrees,
		std::vector< std::vector< ftm::idNode > > &	deletedNodes,
		std::vector< dataType > &	distances )

inline

Definition at line 927 of file MergeTreeBarycenter.h.

◆ assignment()

template<class dataType>

void ttk::MergeTreeBarycenter::assignment	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	matchings,
		std::vector< dataType > &	distances,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 805 of file MergeTreeBarycenter.h.

◆ assignmentPara()

template<class dataType>

void ttk::MergeTreeBarycenter::assignmentPara	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	matchings,
		std::vector< dataType > &	distances,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 822 of file MergeTreeBarycenter.h.

◆ assignmentTask()

template<class dataType>

void ttk::MergeTreeBarycenter::assignmentTask	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	matchings,
		std::vector< dataType > &	distances,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 844 of file MergeTreeBarycenter.h.

◆ computeBarycenter()

template<class dataType>

void ttk::MergeTreeBarycenter::computeBarycenter	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< double > &	alphas,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	finalMatchings,
		bool	finalAsgnDoubleInput = false,
		bool	finalAsgnFirstInput = true )

inline

Definition at line 940 of file MergeTreeBarycenter.h.

◆ computeOneDistance() [1/3]

template<class dataType>

void ttk::MergeTreeBarycenter::computeOneDistance	(	ftm::FTMTree_MT *	tree,
		ftm::FTMTree_MT *	baryTree,
		std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &	matching,
		dataType &	distance,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 739 of file MergeTreeBarycenter.h.

◆ computeOneDistance() [2/3]

template<class dataType>

void ttk::MergeTreeBarycenter::computeOneDistance	(	ftm::FTMTree_MT *	tree,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &	matching,
		dataType &	distance,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 780 of file MergeTreeBarycenter.h.

◆ computeOneDistance() [3/3]

template<class dataType>

void ttk::MergeTreeBarycenter::computeOneDistance	(	ftm::MergeTree< dataType > &	baryMergeTree,
		ftm::MergeTree< dataType > &	baryMergeTree2,
		std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &	matching,
		dataType &	distance,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 792 of file MergeTreeBarycenter.h.

◆ execute() [1/2]

template<class dataType>

void ttk::MergeTreeBarycenter::execute	(	std::vector< ftm::MergeTree< dataType > > &	trees,
		std::vector< double > &	alphas,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	finalMatchings,
		ftm::MergeTree< dataType > &	baryMergeTree,
		bool	finalAsgnDoubleInput = false,
		bool	finalAsgnFirstInput = true )

inline

Definition at line 1075 of file MergeTreeBarycenter.h.

◆ execute() [2/2]

template<class dataType>

void ttk::MergeTreeBarycenter::execute	(	std::vector< ftm::MergeTree< dataType > > &	trees,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	finalMatchings,
		ftm::MergeTree< dataType > &	baryMergeTree,
		bool	finalAsgnDoubleInput = false,
		bool	finalAsgnFirstInput = true )

inline

Definition at line 1121 of file MergeTreeBarycenter.h.

◆ fixMergedRootOriginBarycenter()

template<class dataType>

void ttk::MergeTreeBarycenter::fixMergedRootOriginBarycenter ( ftm::MergeTree< dataType > & barycenter )

inline

Definition at line 1186 of file MergeTreeBarycenter.h.

◆ getAddDeletedNodesTime()

double ttk::MergeTreeBarycenter::getAddDeletedNodesTime ( )

inline

Definition at line 104 of file MergeTreeBarycenter.h.

◆ getAllDistanceTime()

double ttk::MergeTreeBarycenter::getAllDistanceTime ( )

inline

Definition at line 100 of file MergeTreeBarycenter.h.

◆ getBestInitTreeIndex() [1/3]

template<class dataType>

int ttk::MergeTreeBarycenter::getBestInitTreeIndex	(	std::vector< ftm::FTMTree_MT * > &	trees,
		bool	distMinimizer = true )

inline

Definition at line 280 of file MergeTreeBarycenter.h.

◆ getBestInitTreeIndex() [2/3]

template<class dataType>

int ttk::MergeTreeBarycenter::getBestInitTreeIndex	(	std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< ftm::FTMTree_MT * > &	trees2,
		double	sizeLimitPercent,
		bool	distMinimizer = true )

inline

Definition at line 270 of file MergeTreeBarycenter.h.

◆ getBestInitTreeIndex() [3/3]

template<class dataType>

int ttk::MergeTreeBarycenter::getBestInitTreeIndex	(	std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< ftm::FTMTree_MT * > &	trees2,
		unsigned int	barycenterMaximumNumberOfPairs,
		double	sizeLimitPercent,
		bool	distMinimizer = true )

inline

Definition at line 224 of file MergeTreeBarycenter.h.

◆ getDistanceMatrix() [1/2]

template<class dataType>

void ttk::MergeTreeBarycenter::getDistanceMatrix	(	std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< ftm::FTMTree_MT * > &	trees2,
		std::vector< std::vector< double > > &	distanceMatrix,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Implementation of the algorithm.

Definition at line 139 of file MergeTreeBarycenter.h.

◆ getDistanceMatrix() [2/2]

template<class dataType>

void ttk::MergeTreeBarycenter::getDistanceMatrix	(	std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< std::vector< double > > &	distanceMatrix,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 162 of file MergeTreeBarycenter.h.

◆ getFinalDistances()

std::vector< double > ttk::MergeTreeBarycenter::getFinalDistances ( )

inline

Definition at line 128 of file MergeTreeBarycenter.h.

◆ getNodesAndScalarsToAdd()

template<class dataType>

ftm::idNode ttk::MergeTreeBarycenter::getNodesAndScalarsToAdd	(	ftm::idNode	nodeId1,
		ftm::FTMTree_MT *	tree,
		ftm::idNode	nodeId2,
		std::vector< dataType > &	newScalarsVector,
		std::vector< std::tuple< ftm::idNode, ftm::idNode, int > > &	nodesToProcess,
		ftm::idNode	nodeCpt,
		int	i )

inline

Get information about the nodes to add in the barycenter.

Parameters

[in]	nodeId1	node in the barycenter.
[in]	tree	tree.
[in]	nodeId2	node (and its subtree) of tree to add as a children of nodeId1 in the barycenter.
[out]	newScalarsVector	scalar values of the added nodes.
[out]	nodesToProcess	vector of tuples containing for each node in tree its future parent in the barycenter (and the index of the tree).
[in]	nodeCpt	number of nodes in barycenter.
[in]	i	tree index.

Definition at line 315 of file MergeTreeBarycenter.h.

◆ getParametrizedBirthDeath()

template<class dataType>

std::tuple< dataType, dataType > ttk::MergeTreeBarycenter::getParametrizedBirthDeath	(	ftm::FTMTree_MT *	tree1,
		ftm::idNode	nodeId1 )

inline

Definition at line 536 of file MergeTreeBarycenter.h.

◆ getParametrizedDistanceMatrix()

template<class dataType>

void ttk::MergeTreeBarycenter::getParametrizedDistanceMatrix	(	std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< std::vector< double > > &	distanceMatrix,
		unsigned int	barycenterMaximumNumberOfPairs,
		double	sizeLimitPercent,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 207 of file MergeTreeBarycenter.h.

◆ getSizeLimitedDistanceMatrix()

template<class dataType>

void ttk::MergeTreeBarycenter::getSizeLimitedDistanceMatrix	(	std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< std::vector< double > > &	distanceMatrix,
		unsigned int	barycenterMaximumNumberOfPairs,
		double	sizeLimitPercent,
		bool	useDoubleInput = false,
		bool	isFirstInput = true )

inline

Definition at line 190 of file MergeTreeBarycenter.h.

◆ getSizeLimitedTrees()

template<class dataType>

void ttk::MergeTreeBarycenter::getSizeLimitedTrees	(	std::vector< ftm::FTMTree_MT * > &	trees,
		unsigned int	barycenterMaximumNumberOfPairs,
		double	sizeLimitPercent,
		std::vector< ftm::MergeTree< dataType > > &	mTreesLimited )

inline

Definition at line 171 of file MergeTreeBarycenter.h.

◆ initBarycenterTree()

template<class dataType>

void ttk::MergeTreeBarycenter::initBarycenterTree	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryTree,
		bool	distMinimizer = true )

inline

Definition at line 289 of file MergeTreeBarycenter.h.

◆ interpolation()

template<class dataType>

std::tuple< dataType, dataType > ttk::MergeTreeBarycenter::interpolation	(	ftm::MergeTree< dataType > &	baryMergeTree,
		ftm::idNode	nodeId,
		std::vector< dataType > &	newScalarsVector,
		std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< ftm::idNode > &	nodes,
		std::vector< double > &	alphas )

inline

Definition at line 549 of file MergeTreeBarycenter.h.

◆ interpolationAdded()

template<class dataType>

std::tuple< dataType, dataType > ttk::MergeTreeBarycenter::interpolationAdded	(	ftm::FTMTree_MT *	tree,
		ftm::idNode	nodeId,
		double	alpha,
		ftm::MergeTree< dataType > &	baryMergeTree,
		ftm::idNode	nodeB,
		std::vector< dataType > &	newScalarsVector )

inline

Definition at line 609 of file MergeTreeBarycenter.h.

◆ limitSizeBarycenter() [1/3]

template<class dataType>

void ttk::MergeTreeBarycenter::limitSizeBarycenter	(	ftm::MergeTree< dataType > &	bary,
		std::vector< ftm::FTMTree_MT * > &	trees,
		bool	useBD = true )

inline

Definition at line 1175 of file MergeTreeBarycenter.h.

◆ limitSizeBarycenter() [2/3]

template<class dataType>

void ttk::MergeTreeBarycenter::limitSizeBarycenter	(	ftm::MergeTree< dataType > &	bary,
		std::vector< ftm::FTMTree_MT * > &	trees,
		double	percent,
		bool	useBD = true )

inline

Definition at line 1166 of file MergeTreeBarycenter.h.

◆ limitSizeBarycenter() [3/3]

template<class dataType>

void ttk::MergeTreeBarycenter::limitSizeBarycenter	(	ftm::MergeTree< dataType > &	bary,
		std::vector< ftm::FTMTree_MT * > &	trees,
		unsigned int	barycenterMaximumNumberOfPairs,
		double	percent,
		bool	useBD = true )

inline

Definition at line 1145 of file MergeTreeBarycenter.h.

◆ persistenceScaling()

template<class dataType>

unsigned int ttk::MergeTreeBarycenter::persistenceScaling	(	std::vector< ftm::FTMTree_MT * > &	trees,
		std::vector< ftm::MergeTree< dataType > > &	mergeTrees,
		std::vector< ftm::FTMTree_MT * > &	oriTrees,
		int	iterationNumber,
		std::vector< std::vector< ftm::idNode > > &	deletedNodes )

inline

Definition at line 870 of file MergeTreeBarycenter.h.

◆ printBaryStats()

void ttk::MergeTreeBarycenter::printBaryStats	(	ftm::FTMTree_MT *	baryTree,
		const debug::Priority &	priority = debug::Priority::INFO )

inline

Definition at line 1213 of file MergeTreeBarycenter.h.

◆ setAddNodes()

void ttk::MergeTreeBarycenter::setAddNodes ( bool addNodesT )

inline

Definition at line 72 of file MergeTreeBarycenter.h.

◆ setAlpha()

void ttk::MergeTreeBarycenter::setAlpha ( double alpha )

inline

Definition at line 108 of file MergeTreeBarycenter.h.

◆ setBarycenterInitIndex()

void ttk::MergeTreeBarycenter::setBarycenterInitIndex ( int barycenterInitIndex )

inline

Definition at line 80 of file MergeTreeBarycenter.h.

◆ setBarycenterMaximumNumberOfPairs()

void ttk::MergeTreeBarycenter::setBarycenterMaximumNumberOfPairs ( unsigned int maxi )

inline

Definition at line 112 of file MergeTreeBarycenter.h.

◆ setBarycenterMaxIter()

void ttk::MergeTreeBarycenter::setBarycenterMaxIter ( int barycenterMaxIter )

inline

Definition at line 84 of file MergeTreeBarycenter.h.

◆ setBarycenterSizeLimitPercent()

void ttk::MergeTreeBarycenter::setBarycenterSizeLimitPercent ( double percent )

inline

Definition at line 116 of file MergeTreeBarycenter.h.

◆ setDeterministic()

void ttk::MergeTreeBarycenter::setDeterministic ( bool deterministicT )

inline

Definition at line 76 of file MergeTreeBarycenter.h.

◆ setIsCalled()

void ttk::MergeTreeBarycenter::setIsCalled ( bool ic )

inline

Definition at line 96 of file MergeTreeBarycenter.h.

◆ setPostprocess()

void ttk::MergeTreeBarycenter::setPostprocess ( bool postproc )

inline

Definition at line 124 of file MergeTreeBarycenter.h.

◆ setPreprocess()

void ttk::MergeTreeBarycenter::setPreprocess ( bool preproc )

inline

Definition at line 120 of file MergeTreeBarycenter.h.

◆ setProgressiveBarycenter()

void ttk::MergeTreeBarycenter::setProgressiveBarycenter ( bool progressive )

inline

Definition at line 88 of file MergeTreeBarycenter.h.

◆ setProgressiveSpeedDivisor()

void ttk::MergeTreeBarycenter::setProgressiveSpeedDivisor ( double progSpeed )

inline

Definition at line 92 of file MergeTreeBarycenter.h.

◆ setTol()

void ttk::MergeTreeBarycenter::setTol ( double tolT )

inline

Definition at line 68 of file MergeTreeBarycenter.h.

◆ updateBarycenterTree()

template<class dataType>

void ttk::MergeTreeBarycenter::updateBarycenterTree	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< double > &	alphas,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	matchings )

inline

Definition at line 723 of file MergeTreeBarycenter.h.

◆ updateBarycenterTreeScalars()

template<class dataType>

void ttk::MergeTreeBarycenter::updateBarycenterTreeScalars	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< double > &	alphas,
		unsigned int	indexAddedNodes,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	matchings )

inline

Definition at line 641 of file MergeTreeBarycenter.h.

◆ updateBarycenterTreeStructure()

template<class dataType>

void ttk::MergeTreeBarycenter::updateBarycenterTreeStructure	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	matchings )

inline

Definition at line 402 of file MergeTreeBarycenter.h.

◆ updateNodesAndScalars()

template<class dataType>

void ttk::MergeTreeBarycenter::updateNodesAndScalars	(	ftm::MergeTree< dataType > &	mTree1,
		int	noTrees,
		std::vector< std::tuple< ftm::idNode, ftm::idNode, int > > &	nodesToProcess,
		std::vector< dataType > &	newScalarsVector,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode > > > &	nodesProcessed )

inline

Definition at line 376 of file MergeTreeBarycenter.h.

◆ verifyBarycenterTwoTrees()

template<class dataType>

void ttk::MergeTreeBarycenter::verifyBarycenterTwoTrees	(	std::vector< ftm::FTMTree_MT * > &	trees,
		ftm::MergeTree< dataType > &	baryMergeTree,
		std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &	finalMatchings,
		std::vector< dataType >	distances )

inline

Definition at line 1227 of file MergeTreeBarycenter.h.

Member Data Documentation

◆ addDeletedNodesTime_

double ttk::MergeTreeBarycenter::addDeletedNodesTime_ = 0

protected

Definition at line 49 of file MergeTreeBarycenter.h.

◆ addNodes_

bool ttk::MergeTreeBarycenter::addNodes_ = true

protected

Definition at line 36 of file MergeTreeBarycenter.h.

◆ allDistanceTime_

double ttk::MergeTreeBarycenter::allDistanceTime_ = 0

protected

Definition at line 47 of file MergeTreeBarycenter.h.

◆ alpha_

double ttk::MergeTreeBarycenter::alpha_ = 0.5

protected

Definition at line 43 of file MergeTreeBarycenter.h.

◆ barycenterInitIndex_

int ttk::MergeTreeBarycenter::barycenterInitIndex_ = -1

protected

Definition at line 38 of file MergeTreeBarycenter.h.

◆ barycenterMaximumNumberOfPairs_

unsigned int ttk::MergeTreeBarycenter::barycenterMaximumNumberOfPairs_ = 0

protected

Definition at line 44 of file MergeTreeBarycenter.h.

◆ barycenterMaxIter_

int ttk::MergeTreeBarycenter::barycenterMaxIter_ = -1

protected

Definition at line 39 of file MergeTreeBarycenter.h.

◆ barycenterSizeLimitPercent_

double ttk::MergeTreeBarycenter::barycenterSizeLimitPercent_ = 0.0

protected

Definition at line 45 of file MergeTreeBarycenter.h.

◆ deterministic_

bool ttk::MergeTreeBarycenter::deterministic_ = true

protected

Definition at line 37 of file MergeTreeBarycenter.h.

◆ finalDistances_

std::vector<double> ttk::MergeTreeBarycenter::finalDistances_

protected

Definition at line 55 of file MergeTreeBarycenter.h.

◆ isCalled_

bool ttk::MergeTreeBarycenter::isCalled_ = false

protected

Definition at line 40 of file MergeTreeBarycenter.h.

◆ postprocess_

bool ttk::MergeTreeBarycenter::postprocess_ = true

protected

Definition at line 52 of file MergeTreeBarycenter.h.

◆ preprocess_

bool ttk::MergeTreeBarycenter::preprocess_ = true

protected

Definition at line 51 of file MergeTreeBarycenter.h.

◆ progressiveBarycenter_

bool ttk::MergeTreeBarycenter::progressiveBarycenter_ = false

protected

Definition at line 41 of file MergeTreeBarycenter.h.

◆ progressiveSpeedDivisor_

double ttk::MergeTreeBarycenter::progressiveSpeedDivisor_ = 4.0

protected

Definition at line 42 of file MergeTreeBarycenter.h.

◆ tol_

double ttk::MergeTreeBarycenter::tol_ = 0.0

protected

Definition at line 35 of file MergeTreeBarycenter.h.

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

/home/julien/Pro/git/github/thomas/ttk-dani/core/base/mergeTreeClustering/MergeTreeBarycenter.h

Public Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ MergeTreeBarycenter()

◆ ~MergeTreeBarycenter()

Member Function Documentation

◆ addNodes()

◆ addScaledDeletedNodesCost()

◆ assignment()

◆ assignmentPara()

◆ assignmentTask()

◆ computeBarycenter()

◆ computeOneDistance() [1/3]

◆ computeOneDistance() [2/3]

◆ computeOneDistance() [3/3]

◆ execute() [1/2]

◆ execute() [2/2]

◆ fixMergedRootOriginBarycenter()

◆ getAddDeletedNodesTime()

◆ getAllDistanceTime()

◆ getBestInitTreeIndex() [1/3]

◆ getBestInitTreeIndex() [2/3]

◆ getBestInitTreeIndex() [3/3]

◆ getDistanceMatrix() [1/2]

◆ getDistanceMatrix() [2/2]

◆ getFinalDistances()

◆ getNodesAndScalarsToAdd()

◆ getParametrizedBirthDeath()

◆ getParametrizedDistanceMatrix()

◆ getSizeLimitedDistanceMatrix()

◆ getSizeLimitedTrees()

◆ initBarycenterTree()

◆ interpolation()

◆ interpolationAdded()

◆ limitSizeBarycenter() [1/3]

◆ limitSizeBarycenter() [2/3]

◆ limitSizeBarycenter() [3/3]

◆ persistenceScaling()

◆ printBaryStats()

◆ setAddNodes()

◆ setAlpha()

◆ setBarycenterInitIndex()

◆ setBarycenterMaximumNumberOfPairs()

◆ setBarycenterMaxIter()

◆ setBarycenterSizeLimitPercent()

◆ setDeterministic()

◆ setIsCalled()

◆ setPostprocess()

◆ setPreprocess()

◆ setProgressiveBarycenter()

◆ setProgressiveSpeedDivisor()

◆ setTol()

◆ updateBarycenterTree()

◆ updateBarycenterTreeScalars()

◆ updateBarycenterTreeStructure()

◆ updateNodesAndScalars()

◆ verifyBarycenterTwoTrees()

Member Data Documentation

◆ addDeletedNodesTime_

◆ addNodes_

◆ allDistanceTime_

◆ alpha_

◆ barycenterInitIndex_

◆ barycenterMaximumNumberOfPairs_

◆ barycenterMaxIter_

◆ barycenterSizeLimitPercent_

◆ deterministic_

◆ finalDistances_

◆ isCalled_

◆ postprocess_

◆ preprocess_

◆ progressiveBarycenter_

◆ progressiveSpeedDivisor_

◆ tol_