#include <MergeTreeAutoencoder.h>

Inheritance diagram for ttk::MergeTreeAutoencoder:

Public Member Functions
	MergeTreeAutoencoder ()

void	execute (std::vector< ftm::MergeTree< float > > &trees, std::vector< ftm::MergeTree< float > > &trees2)

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
bool	doCompute_

bool	hasComputedOnce_ = false

int	encoderNoLayers_ = 1

bool	scaleLayerAfterLatent_ = false

unsigned int	inputNumberOfAxes_ = 16

double	inputOriginPrimeSizePercent_ = 15

double	latentSpaceOriginPrimeSizePercent_ = 10

unsigned int	minIteration_ = 0

unsigned int	maxIteration_ = 0

unsigned int	iterationGap_ = 100

double	batchSize_ = 1

int	optimizer_ = 0

double	gradientStepSize_ = 0.1

double	beta1_ = 0.9

double	beta2_ = 0.999

double	reconstructionLossWeight_ = 1

double	trackingLossWeight_ = 0

double	metricLossWeight_ = 0

double	clusteringLossWeight_ = 0

float	clusteringLossTemp_ = 10

bool	customLossDynamicWeight_ = false

bool	customLossSpace_ = false

bool	customLossActivate_ = false

bool	normalizeMetricLoss_ = false

unsigned int	noInit_ = 4

bool	euclideanVectorsInit_ = false

bool	initOriginPrimeStructByCopy_ = true

bool	trackingLossDecoding_ = false

double	trackingLossInitRandomness_ = 0.0

bool	activate_ = true

unsigned int	activationFunction_ = 1

bool	activateOutputInit_ = false

bool	createOutput_ = true

bool	fullSymmetricAE_ = false

unsigned	noLayers_

double	baseRecLoss_

double	baseRecLoss2_

float	bestLoss_

std::vector< unsigned int >	clusterAsgn_

std::vector< std::vector< float > >	distanceMatrix_

std::vector< std::vector< float > >	customAlphas_

std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > >	baryMatchings_L0_

std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > >	baryMatchings2_L0_

std::vector< double >	inputToBaryDistances_L0_

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

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

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

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

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

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

double	t_allVectorCopy_time_ = 0.0

std::vector< unsigned int >	originsNoZeroGrad_

std::vector< unsigned int >	originsPrimeNoZeroGrad_

std::vector< unsigned int >	vSNoZeroGrad_

std::vector< unsigned int >	vSPrimeNoZeroGrad_

std::vector< unsigned int >	origins2NoZeroGrad_

std::vector< unsigned int >	origins2PrimeNoZeroGrad_

std::vector< unsigned int >	vS2NoZeroGrad_

std::vector< unsigned int >	vS2PrimeNoZeroGrad_

bool	outputInit_ = true

float	bigValuesThreshold_ = 0

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

The MergeTreeAutoencoder class provides methods to compute an Auto-Encoding of merge trees or persistence diagrams.

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

Date: 2023.

This module defines the MergeTreeAutoencoder class that computes an Auto-Encoding of merge trees or persistence diagrams.

Related publication:
"Wasserstein Auto-Encoders of Merge Trees (and Persistence Diagrams)"
Mathieu Pont, Julien Tierny.
IEEE Transactions on Visualization and Computer Graphics, 2023

Online examples:

Definition at line 40 of file MergeTreeAutoencoder.h.

Constructor & Destructor Documentation

◆ MergeTreeAutoencoder()

ttk::MergeTreeAutoencoder::MergeTreeAutoencoder ( )

Definition at line 9 of file MergeTreeAutoencoder.cpp.

Member Function Documentation

◆ execute()

void ttk::MergeTreeAutoencoder::execute	(	std::vector< ftm::MergeTree< float > > &	trees,
		std::vector< ftm::MergeTree< float > > &	trees2
	)

Definition at line 2602 of file MergeTreeAutoencoder.cpp.

Member Data Documentation

◆ activate_

bool ttk::MergeTreeAutoencoder::activate_ = true

protected

Definition at line 75 of file MergeTreeAutoencoder.h.

◆ activateOutputInit_

bool ttk::MergeTreeAutoencoder::activateOutputInit_ = false

protected

Definition at line 77 of file MergeTreeAutoencoder.h.

◆ activationFunction_

unsigned int ttk::MergeTreeAutoencoder::activationFunction_ = 1

protected

Definition at line 76 of file MergeTreeAutoencoder.h.

◆ baryMatchings2_L0_

std::vector<std::vector<std::tuple<ftm::idNode, ftm::idNode, double> > > ttk::MergeTreeAutoencoder::baryMatchings2_L0_

protected

Definition at line 107 of file MergeTreeAutoencoder.h.

◆ baryMatchings_L0_

std::vector<std::vector<std::tuple<ftm::idNode, ftm::idNode, double> > > ttk::MergeTreeAutoencoder::baryMatchings_L0_

protected

Definition at line 107 of file MergeTreeAutoencoder.h.

◆ baseRecLoss2_

double ttk::MergeTreeAutoencoder::baseRecLoss2_

protected

Definition at line 102 of file MergeTreeAutoencoder.h.

◆ baseRecLoss_

double ttk::MergeTreeAutoencoder::baseRecLoss_

protected

Definition at line 102 of file MergeTreeAutoencoder.h.

◆ batchSize_

double ttk::MergeTreeAutoencoder::batchSize_ = 1

protected

Definition at line 56 of file MergeTreeAutoencoder.h.

◆ bestLoss_

float ttk::MergeTreeAutoencoder::bestLoss_

protected

Definition at line 103 of file MergeTreeAutoencoder.h.

◆ beta1_

double ttk::MergeTreeAutoencoder::beta1_ = 0.9

protected

Definition at line 59 of file MergeTreeAutoencoder.h.

◆ beta2_

double ttk::MergeTreeAutoencoder::beta2_ = 0.999

protected

Definition at line 60 of file MergeTreeAutoencoder.h.

◆ bigValuesThreshold_

float ttk::MergeTreeAutoencoder::bigValuesThreshold_ = 0

protected

Definition at line 129 of file MergeTreeAutoencoder.h.

◆ branchesCorrelationMatrix_

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

protected

Definition at line 116 of file MergeTreeAutoencoder.h.

◆ clusterAsgn_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::clusterAsgn_

protected

Definition at line 104 of file MergeTreeAutoencoder.h.

◆ clusteringLossTemp_

float ttk::MergeTreeAutoencoder::clusteringLossTemp_ = 10

protected

Definition at line 65 of file MergeTreeAutoencoder.h.

◆ clusteringLossWeight_

double ttk::MergeTreeAutoencoder::clusteringLossWeight_ = 0

protected

Definition at line 64 of file MergeTreeAutoencoder.h.

◆ createOutput_

bool ttk::MergeTreeAutoencoder::createOutput_ = true

protected

Definition at line 79 of file MergeTreeAutoencoder.h.

◆ customAlphas_

std::vector<std::vector<float> > ttk::MergeTreeAutoencoder::customAlphas_

protected

Definition at line 105 of file MergeTreeAutoencoder.h.

◆ customLossActivate_

bool ttk::MergeTreeAutoencoder::customLossActivate_ = false

protected

Definition at line 68 of file MergeTreeAutoencoder.h.

◆ customLossDynamicWeight_

bool ttk::MergeTreeAutoencoder::customLossDynamicWeight_ = false

protected

Definition at line 66 of file MergeTreeAutoencoder.h.

◆ customLossSpace_

bool ttk::MergeTreeAutoencoder::customLossSpace_ = false

protected

Definition at line 67 of file MergeTreeAutoencoder.h.

◆ customMatchings_

std::vector<std::vector<std::tuple<ftm::idNode, ftm::idNode, double> > > ttk::MergeTreeAutoencoder::customMatchings_

protected

Definition at line 112 of file MergeTreeAutoencoder.h.

◆ dataMatchings_

std::vector< std::vector<std::vector<std::tuple<ftm::idNode, ftm::idNode, double> > > > ttk::MergeTreeAutoencoder::dataMatchings_

protected

Definition at line 115 of file MergeTreeAutoencoder.h.

◆ distanceMatrix_

std::vector<std::vector<float> > ttk::MergeTreeAutoencoder::distanceMatrix_

protected

Definition at line 105 of file MergeTreeAutoencoder.h.

◆ doCompute_

bool ttk::MergeTreeAutoencoder::doCompute_

protected

Definition at line 44 of file MergeTreeAutoencoder.h.

◆ encoderNoLayers_

int ttk::MergeTreeAutoencoder::encoderNoLayers_ = 1

protected

Definition at line 48 of file MergeTreeAutoencoder.h.

◆ euclideanVectorsInit_

bool ttk::MergeTreeAutoencoder::euclideanVectorsInit_ = false

protected

Definition at line 71 of file MergeTreeAutoencoder.h.

◆ fullSymmetricAE_

bool ttk::MergeTreeAutoencoder::fullSymmetricAE_ = false

protected

Definition at line 82 of file MergeTreeAutoencoder.h.

◆ gradientStepSize_

double ttk::MergeTreeAutoencoder::gradientStepSize_ = 0.1

protected

Definition at line 58 of file MergeTreeAutoencoder.h.

◆ hasComputedOnce_

bool ttk::MergeTreeAutoencoder::hasComputedOnce_ = false

protected

Definition at line 45 of file MergeTreeAutoencoder.h.

◆ initOriginPrimeStructByCopy_

bool ttk::MergeTreeAutoencoder::initOriginPrimeStructByCopy_ = true

protected

Definition at line 72 of file MergeTreeAutoencoder.h.

◆ inputNumberOfAxes_

unsigned int ttk::MergeTreeAutoencoder::inputNumberOfAxes_ = 16

protected

Definition at line 50 of file MergeTreeAutoencoder.h.

◆ inputOriginPrimeSizePercent_

double ttk::MergeTreeAutoencoder::inputOriginPrimeSizePercent_ = 15

protected

Definition at line 51 of file MergeTreeAutoencoder.h.

◆ inputToBaryDistances_L0_

std::vector<double> ttk::MergeTreeAutoencoder::inputToBaryDistances_L0_

protected

Definition at line 108 of file MergeTreeAutoencoder.h.

◆ iterationGap_

unsigned int ttk::MergeTreeAutoencoder::iterationGap_ = 100

protected

Definition at line 55 of file MergeTreeAutoencoder.h.

◆ latentSpaceOriginPrimeSizePercent_

double ttk::MergeTreeAutoencoder::latentSpaceOriginPrimeSizePercent_ = 10

protected

Definition at line 52 of file MergeTreeAutoencoder.h.

◆ maxIteration_

unsigned int ttk::MergeTreeAutoencoder::maxIteration_ = 0

protected

Definition at line 54 of file MergeTreeAutoencoder.h.

◆ metricLossWeight_

double ttk::MergeTreeAutoencoder::metricLossWeight_ = 0

protected

Definition at line 63 of file MergeTreeAutoencoder.h.

◆ minIteration_

unsigned int ttk::MergeTreeAutoencoder::minIteration_ = 0

protected

Definition at line 53 of file MergeTreeAutoencoder.h.

◆ noInit_

unsigned int ttk::MergeTreeAutoencoder::noInit_ = 4

protected

Definition at line 70 of file MergeTreeAutoencoder.h.

◆ noLayers_

unsigned ttk::MergeTreeAutoencoder::noLayers_

protected

Definition at line 101 of file MergeTreeAutoencoder.h.

◆ normalizeMetricLoss_

bool ttk::MergeTreeAutoencoder::normalizeMetricLoss_ = false

protected

Definition at line 69 of file MergeTreeAutoencoder.h.

◆ optimizer_

int ttk::MergeTreeAutoencoder::optimizer_ = 0

protected

Definition at line 57 of file MergeTreeAutoencoder.h.

◆ origins2NoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::origins2NoZeroGrad_

protected

Definition at line 122 of file MergeTreeAutoencoder.h.

◆ origins2PrimeNoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::origins2PrimeNoZeroGrad_

protected

Definition at line 123 of file MergeTreeAutoencoder.h.

◆ originsMatchings_

std::vector<std::vector<std::tuple<ftm::idNode, ftm::idNode, double> > > ttk::MergeTreeAutoencoder::originsMatchings_

protected

Definition at line 112 of file MergeTreeAutoencoder.h.

◆ originsNoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::originsNoZeroGrad_

protected

Definition at line 121 of file MergeTreeAutoencoder.h.

◆ originsPrimeNoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::originsPrimeNoZeroGrad_

protected

Definition at line 121 of file MergeTreeAutoencoder.h.

◆ outputInit_

bool ttk::MergeTreeAutoencoder::outputInit_ = true

protected

Definition at line 124 of file MergeTreeAutoencoder.h.

◆ persCorrelationMatrix_

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

protected

Definition at line 117 of file MergeTreeAutoencoder.h.

◆ reconstMatchings_

std::vector<std::vector<std::tuple<ftm::idNode, ftm::idNode, double> > > ttk::MergeTreeAutoencoder::reconstMatchings_

protected

Definition at line 112 of file MergeTreeAutoencoder.h.

◆ reconstructionLossWeight_

double ttk::MergeTreeAutoencoder::reconstructionLossWeight_ = 1

protected

Definition at line 61 of file MergeTreeAutoencoder.h.

◆ scaleLayerAfterLatent_

bool ttk::MergeTreeAutoencoder::scaleLayerAfterLatent_ = false

protected

Definition at line 49 of file MergeTreeAutoencoder.h.

◆ t_allVectorCopy_time_

double ttk::MergeTreeAutoencoder::t_allVectorCopy_time_ = 0.0

protected

Definition at line 120 of file MergeTreeAutoencoder.h.

◆ trackingLossDecoding_

bool ttk::MergeTreeAutoencoder::trackingLossDecoding_ = false

protected

Definition at line 73 of file MergeTreeAutoencoder.h.

◆ trackingLossInitRandomness_

double ttk::MergeTreeAutoencoder::trackingLossInitRandomness_ = 0.0

protected

Definition at line 74 of file MergeTreeAutoencoder.h.

◆ trackingLossWeight_

double ttk::MergeTreeAutoencoder::trackingLossWeight_ = 0

protected

Definition at line 62 of file MergeTreeAutoencoder.h.

◆ vS2NoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::vS2NoZeroGrad_

protected

Definition at line 123 of file MergeTreeAutoencoder.h.

◆ vS2PrimeNoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::vS2PrimeNoZeroGrad_

protected

Definition at line 123 of file MergeTreeAutoencoder.h.

◆ vSNoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::vSNoZeroGrad_

protected

Definition at line 122 of file MergeTreeAutoencoder.h.

◆ vSPrimeNoZeroGrad_

std::vector<unsigned int> ttk::MergeTreeAutoencoder::vSPrimeNoZeroGrad_

protected

Definition at line 122 of file MergeTreeAutoencoder.h.

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

/home/julien/Pro/git/github/ttk-tierny/core/base/mergeTreeAutoencoder/MergeTreeAutoencoder.h
/home/julien/Pro/git/github/ttk-tierny/core/base/mergeTreeAutoencoder/MergeTreeAutoencoder.cpp

Public Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ MergeTreeAutoencoder()

Member Function Documentation

◆ execute()

Member Data Documentation

◆ activate_

◆ activateOutputInit_

◆ activationFunction_

◆ baryMatchings2_L0_

◆ baryMatchings_L0_

◆ baseRecLoss2_

◆ baseRecLoss_

◆ batchSize_

◆ bestLoss_

◆ beta1_

◆ beta2_

◆ bigValuesThreshold_

◆ branchesCorrelationMatrix_

◆ clusterAsgn_

◆ clusteringLossTemp_

◆ clusteringLossWeight_

◆ createOutput_

◆ customAlphas_

◆ customLossActivate_

◆ customLossDynamicWeight_

◆ customLossSpace_

◆ customMatchings_

◆ dataMatchings_

◆ distanceMatrix_

◆ doCompute_

◆ encoderNoLayers_

◆ euclideanVectorsInit_

◆ fullSymmetricAE_

◆ gradientStepSize_

◆ hasComputedOnce_

◆ initOriginPrimeStructByCopy_

◆ inputNumberOfAxes_

◆ inputOriginPrimeSizePercent_

◆ inputToBaryDistances_L0_

◆ iterationGap_

◆ latentSpaceOriginPrimeSizePercent_

◆ maxIteration_

◆ metricLossWeight_

◆ minIteration_

◆ noInit_

◆ noLayers_

◆ normalizeMetricLoss_

◆ optimizer_

◆ origins2NoZeroGrad_

◆ origins2PrimeNoZeroGrad_

◆ originsMatchings_

◆ originsNoZeroGrad_

◆ originsPrimeNoZeroGrad_

◆ outputInit_

◆ persCorrelationMatrix_

◆ reconstMatchings_

◆ reconstructionLossWeight_

◆ scaleLayerAfterLatent_

◆ t_allVectorCopy_time_

◆ trackingLossDecoding_

◆ trackingLossInitRandomness_

◆ trackingLossWeight_

◆ vS2NoZeroGrad_

◆ vS2PrimeNoZeroGrad_

◆ vSNoZeroGrad_

◆ vSPrimeNoZeroGrad_