ttkMergeTreeAutoencoder Class Reference

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

#include <ttkMergeTreeAutoencoder.h>

Inheritance diagram for ttkMergeTreeAutoencoder:

Public Types
typedef ttkAlgorithm	Superclass
Public Types inherited from ttkAlgorithm
typedef vtkAlgorithm	Superclass

Public Member Functions
void	SetInputArrayToProcess (const char *name)
void	SetNormalizedWasserstein (bool nW)
bool	GetNormalizedWasserstein ()
void	SetNumberOfEncoderLayers (unsigned int numberOfEncoderLayers)
unsigned int	GetNumberOfEncoderLayers ()
void	SetScaleLayerAfterLatent (unsigned int scaleLayerAfterLatent)
unsigned int	GetScaleLayerAfterLatent ()
void	SetInputNumberOfAxes (unsigned int numberOfAxes)
unsigned int	GetInputNumberOfAxes ()
void	SetInputOriginPrimeSizePercent (double originSize)
double	GetInputOriginPrimeSizePercent ()
void	SetNumberOfAxes (unsigned int numberOfAxes)
unsigned int	GetNumberOfAxes ()
void	SetLatentSpaceOriginPrimeSizePercent (double originSize)
double	GetLatentSpaceOriginPrimeSizePercent ()
void	SetNumberOfProjectionSteps (unsigned int noSteps)
unsigned int	GetNumberOfProjectionSteps ()
void	SetBarycenterSizeLimitPercent (double percent)
double	GetBarycenterSizeLimitPercent ()
void	SetMinIteration (unsigned int minIteration)
unsigned int	GetMinIteration ()
void	SetMaxIteration (unsigned int maxIteration)
unsigned int	GetMaxIteration ()
void	SetIterationGap (unsigned int iterationGap)
double	GetIterationGap ()
void	SetBatchSize (double bs)
double	GetBatchSize ()
void	SetOptimizer (int optimizer)
int	GetOptimizer ()
void	SetGradientStepSize (double lr)
double	GetGradientStepSize ()
void	SetBeta1 (double beta)
double	GetBeta1 ()
void	SetBeta2 (double beta)
double	GetBeta2 ()
void	SetReconstructionLossWeight (double reconstructionLossWeight)
double	GetReconstructionLossWeight ()
void	SetTrackingLossWeight (double trackingLossWeight)
double	GetTrackingLossWeight ()
void	SetMetricLossWeight (double metricLossWeight)
double	GetMetricLossWeight ()
void	SetClusteringLossWeight (double clusteringLossWeight)
double	GetClusteringLossWeight ()
void	SetCustomLossSpace (bool customLossSpace)
bool	GetCustomLossSpace ()
void	SetCustomLossActivate (bool customLossActivate)
bool	GetCustomLossActivate ()
void	SetNormalizeMetricLoss (bool normalizeMetricLoss)
bool	GetNormalizeMetricLoss ()
void	SetClusteringLossTemperature (double clusteringLossTemperature)
double	GetClusteringLossTemperature ()
void	SetCustomLossDynamicWeight (bool customLossDynamicWeight)
bool	GetCustomLossDynamicWeight ()
void	SetNumberOfInit (unsigned int noInit)
unsigned int	GetNumberOfInit ()
void	SetEuclideanVectorsInit (bool euclideanVectorsInit)
bool	GetEuclideanVectorsInit ()
void	SetInitOriginPrimeStructByCopy (bool initOriginPrimeStructByCopy)
bool	GetInitOriginPrimeStructByCopy ()
void	SetTrackingLossDecoding (double trackingLossDecoding)
double	GetTrackingLossDecoding ()
void	SetTrackingLossInitRandomness (double trackingLossInitRandomness)
double	GetTrackingLossInitRandomness ()
void	SetDeterministic (bool deterministic)
bool	GetDeterministic ()
void	SetActivate (bool activate)
bool	GetActivate ()
void	SetActivationFunction (unsigned int activationFunction)
unsigned int	GetActivationFunction ()
void	SetFullSymmetricAE (bool fullSymmetricAE)
bool	GetFullSymmetricAE ()
void	SetActivateOutputInit (bool activateOutputInit)
bool	GetActivateOutputInit ()
void	SetJoinSplitMixtureCoefficient (double joinSplitMixtureCoefficient)
double	GetJoinSplitMixtureCoefficient ()
void	SetDiagramPairTypes (int diagramPairTypes)
virtual int	GetDiagramPairTypes ()
void	SetEpsilon1UseFarthestSaddle (bool epsilon1UseFarthestSaddle)
bool	GetEpsilon1UseFarthestSaddle ()
void	SetEpsilonTree1 (double epsilonTree1)
double	GetEpsilonTree1 ()
void	SetEpsilon2Tree1 (double epsilon2Tree1)
double	GetEpsilon2Tree1 ()
void	SetEpsilon3Tree1 (double epsilon3Tree1)
double	GetEpsilon3Tree1 ()
void	SetPersistenceThreshold (double persistenceThreshold)
double	GetPersistenceThreshold ()
void	SetDeleteMultiPersPairs (bool delMultiPersPairs)
bool	GetDeleteMultiPersPairs ()
void	SetNodePerTask (int nodePerTask)
int	GetNodePerTask ()
void	SetCreateOutput (bool createOutput)
bool	GetCreateOutput ()
virtual const char *	GetClassName ()
virtual int	IsA (const char *type)
Public Member Functions inherited from ttkAlgorithm
void	UpdateThreadNumber ()
void	SetThreadNumber (int threadNumber)
void	SetUseAllCores (bool useAllCores)
void	SetDebugLevel (int debugLevel)
void	SetCompactTriangulationCacheSize (float cacheSize)
vtkDataArray *	GetOptionalArray (const bool &enforceArrayIndex, const int &arrayIndex, const std::string &arrayName, vtkDataSet *const inputData, const int &inputPort=0)
vtkDataArray *	GetOrderArray (vtkDataSet *const inputData, const int scalarArrayIdx, ttk::Triangulation *triangulation, const bool getGlobalOrder=false, const int orderArrayIdx=0, const bool enforceOrderArrayIdx=false)
vtkDataArray *	checkForGlobalAndComputeOrderArray (vtkDataSet *const inputData, vtkDataArray *scalarArray, const int scalarArrayIdx, const bool getGlobalOrder, vtkDataArray *orderArray, ttk::Triangulation *triangulation, const bool enforceOrderArrayIdx)
vtkDataArray *	ComputeOrderArray (vtkDataSet *const inputData, vtkDataArray *scalarArray, const int scalarArrayIdx, const bool getGlobalOrder, vtkDataArray *oldOrderArray, ttk::Triangulation *triangulation)
ttk::SimplexId *	GetIdentifierArrayPtr (const bool &enforceArrayIndex, const int &arrayIndex, const std::string &arrayName, vtkDataSet *const inputData, std::vector< ttk::SimplexId > &spareStorage, const int inputPort=0, const bool printErr=true)
ttk::Triangulation *	GetTriangulation (vtkDataSet *dataSet)
int	ProcessRequest (vtkInformation *request, vtkInformationVector **inputVectors, vtkInformationVector *outputVector) override
vtkDataSet *	GetOutput ()
vtkDataSet *	GetOutput (int)
void	SetInputData (vtkDataSet *)
void	SetInputData (int, vtkDataSet *)
void	AddInputData (vtkDataSet *)
void	AddInputData (int, vtkDataSet *)
template<typename inputType>
int	checkEmptyMPIInput (inputType *input)
	This method tests whether the input is a nullptr. If the computation is being done on multiple processes, it is possible that the domain of one process or more is empty, but not others, therefore in that particular case the rest of the filter will not be computed but an error message will not be sent.
Public Member Functions inherited from ttk::Debug
	Debug ()
	~Debug () override
virtual int	setDebugLevel (const int &debugLevel)
int	setWrapper (const Wrapper *wrapper) override
int	printMsg (const std::string &msg, const debug::Priority &priority=debug::Priority::INFO, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const
int	printMsg (const std::vector< std::string > &msgs, const debug::Priority &priority=debug::Priority::INFO, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const
int	printErr (const std::string &msg, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cerr) const
int	printWrn (const std::string &msg, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cerr) const
int	printMsg (const std::string &msg, const double &progress, const double &time, const int &threads, const double &memory, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const
int	printMsg (const std::string &msg, const double &progress, const double &time, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const
int	printMsg (const std::string &msg, const double &progress, const double &time, const int &threads, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const
int	printMsg (const std::string &msg, const double &progress, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::PERFORMANCE, std::ostream &stream=std::cout) const
int	printMsg (const std::string &msg, const double &progress, const debug::Priority &priority, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const
int	printMsg (const std::vector< std::vector< std::string > > &rows, const debug::Priority &priority=debug::Priority::INFO, const bool hasHeader=true, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const
int	printMsg (const debug::Separator &separator, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::INFO, std::ostream &stream=std::cout) const
int	printMsg (const debug::Separator &separator, const debug::Priority &priority, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const
int	printMsg (const std::string &msg, const debug::Separator &separator, const debug::LineMode &lineMode=debug::LineMode::NEW, const debug::Priority &priority=debug::Priority::INFO, std::ostream &stream=std::cout) const
void	setDebugMsgPrefix (const std::string &prefix)
Public Member Functions inherited from ttk::BaseClass
	BaseClass ()
virtual	~BaseClass ()=default
int	getThreadNumber () const
virtual int	setThreadNumber (const int threadNumber)

Static Public Member Functions
static ttkMergeTreeAutoencoder *	New ()
static int	IsTypeOf (const char *type)
static ttkMergeTreeAutoencoder *	SafeDownCast (vtkObject *o)
Static Public Member Functions inherited from ttkAlgorithm
static ttkAlgorithm *	New ()
static int	IsTypeOf (const char *type)
static ttkAlgorithm *	SafeDownCast (vtkObject *o)
static std::string	GetOrderArrayName (vtkDataArray *const array)
static vtkInformationIntegerKey *	SAME_DATA_TYPE_AS_INPUT_PORT ()

Protected Member Functions
	ttkMergeTreeAutoencoder ()
int	FillInputPortInformation (int port, vtkInformation *info) override
int	FillOutputPortInformation (int port, vtkInformation *info) override
int	RequestData (vtkInformation *request, vtkInformationVector **inputVector, vtkInformationVector *outputVector) override
int	run (vtkInformationVector *outputVector, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees2)
int	runCompute (vtkInformationVector *outputVector, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees2)
int	runOutput (vtkInformationVector *outputVector, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees, std::vector< vtkSmartPointer< vtkMultiBlockDataSet > > &inputTrees2)
Protected Member Functions inherited from ttkAlgorithm
	ttkAlgorithm ()
	~ttkAlgorithm () override
void	MPIGhostPipelinePreconditioning (vtkDataSet *input)
void	MPIPipelinePreconditioning (vtkDataSet *input, std::vector< int > &neighbors, std::map< int, int > &neighToId, ttk::Triangulation *triangulation=nullptr)
bool	checkGlobalIdValidity (ttk::LongSimplexId *globalIds, ttk::SimplexId simplexNumber, unsigned char *ghost, int *rankArray)
int	GenerateGlobalIds (vtkDataSet *input, std::unordered_map< ttk::SimplexId, ttk::SimplexId > &vertGtoL, std::vector< int > &neighborRanks, std::map< int, int > &neighborsToId)
void	MPITriangulationPreconditioning (ttk::Triangulation *triangulation, vtkDataSet *input)
virtual int	RequestDataObject (vtkInformation *request, vtkInformationVector **inputVectors, vtkInformationVector *outputVector)
virtual int	RequestInformation (vtkInformation *ttkNotUsed(request), vtkInformationVector **ttkNotUsed(inputVectors), vtkInformationVector *ttkNotUsed(outputVector))
virtual int	RequestUpdateTime (vtkInformation *ttkNotUsed(request), vtkInformationVector **ttkNotUsed(inputVectors), vtkInformationVector *ttkNotUsed(outputVector))
virtual int	RequestUpdateTimeDependentInformation (vtkInformation *ttkNotUsed(request), vtkInformationVector **ttkNotUsed(inputVectors), vtkInformationVector *ttkNotUsed(outputVector))
virtual int	RequestUpdateExtent (vtkInformation *ttkNotUsed(request), vtkInformationVector **ttkNotUsed(inputVectors), vtkInformationVector *ttkNotUsed(outputVector))
virtual int	RequestDataNotGenerated (vtkInformation *ttkNotUsed(request), vtkInformationVector **ttkNotUsed(inputVectors), vtkInformationVector *ttkNotUsed(outputVector))
virtual int	RequestData (vtkInformation *ttkNotUsed(request), vtkInformationVector **ttkNotUsed(inputVectors), vtkInformationVector *ttkNotUsed(outputVector))
int	FillInputPortInformation (int ttkNotUsed(port), vtkInformation *ttkNotUsed(info)) override
int	FillOutputPortInformation (int ttkNotUsed(port), vtkInformation *ttkNotUsed(info)) override
Protected Member Functions inherited from ttk::Debug
int	printMsgInternal (const std::string &msg, const std::string &right, const std::string &filler, const debug::Priority &priority=debug::Priority::INFO, const debug::LineMode &lineMode=debug::LineMode::NEW, std::ostream &stream=std::cout) const
int	printMsgInternal (const std::string &msg, const debug::Priority &priority, const debug::LineMode &lineMode, std::ostream &stream=std::cout) const
int	welcomeMsg (std::ostream &stream)
Protected Member Functions inherited from ttk::MergeTreeAutoencoder
	MergeTreeAutoencoder ()
Protected Member Functions inherited from ttk::MergeTreeNeuralNetwork
	MergeTreeNeuralNetwork ()
void	execute (std::vector< ftm::MergeTree< float > > &trees, std::vector< ftm::MergeTree< float > > &trees2)
Protected Member Functions inherited from ttk::MergeTreeNeuralBase
	MergeTreeNeuralBase ()
Protected Member Functions inherited from ttk::MergeTreeAxesAlgorithmBase
	MergeTreeAxesAlgorithmBase ()
void	setDeterministic (const bool deterministic)
void	setNumberOfProjectionSteps (const unsigned int k)
void	setBarycenterSizeLimitPercent (const double barycenterSizeLimitPercent)
void	setProbabilisticVectorsInit (const bool probabilisticVectorsInit)
template<class dataType>
void	computeOneDistance (const ftm::MergeTree< dataType > &tree1, const 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 (const ftm::MergeTree< dataType > &tree1, const 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, int barycenterInitIndex, bool oneIter, 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, 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>
std::tuple< dataType, dataType >	getParametrizedBirthDeath (ftm::FTMTree_MT *tree, ftm::idNode node)
template<class dataType>
void	computeBranchesCorrelationMatrix (const 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)
Protected Member Functions inherited from ttk::MergeTreeBase
	MergeTreeBase ()
void	setAssignmentSolver (int assignmentSolver)
void	setEpsilon1UseFarthestSaddle (bool b)
void	setEpsilonTree1 (double epsilon)
void	setEpsilonTree2 (double epsilon)
void	setEpsilon2Tree1 (double epsilon)
void	setEpsilon2Tree2 (double epsilon)
void	setEpsilon3Tree1 (double epsilon)
void	setEpsilon3Tree2 (double epsilon)
void	setPersistenceThreshold (double pt)
void	setParallelize (bool para)
void	setNodePerTask (int npt)
void	setBranchDecomposition (bool useBD)
void	setNormalizedWasserstein (bool normalizedWasserstein)
void	setKeepSubtree (bool keepSubtree)
void	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)

Additional Inherited Members
Protected Attributes inherited from ttkAlgorithm
float	CompactTriangulationCacheSize {0.2f}
Protected Attributes inherited from ttk::Debug
int	debugLevel_
std::string	debugMsgPrefix_
std::string	debugMsgNamePrefix_
Protected Attributes inherited from ttk::BaseClass
bool	lastObject_
int	threadNumber_
Wrapper *	wrapper_
Protected Attributes inherited from ttk::MergeTreeAutoencoder
int	encoderNoLayers_ = 1
bool	scaleLayerAfterLatent_ = false
unsigned int	inputNumberOfAxes_ = 16
double	inputOriginPrimeSizePercent_ = 15
double	latentSpaceOriginPrimeSizePercent_ = 10
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
bool	trackingLossDecoding_ = false
double	trackingLossInitRandomness_ = 0.0
bool	fullSymmetricAE_ = false
double	baseRecLoss_
double	baseRecLoss2_
std::vector< std::vector< float > >	distanceMatrix_
std::vector< std::vector< float > >	customAlphas_
Protected Attributes inherited from ttk::MergeTreeNeuralNetwork
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
unsigned int	noInit_ = 4
bool	activateOutputInit_ = false
double	originPrimeSizePercent_ = 15
double	trainTestSplit_ = 1.0
bool	shuffleBeforeSplit_ = true
bool	createOutput_ = true
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_
unsigned	noLayers_
float	bestLoss_
std::vector< unsigned int >	clusterAsgn_
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< 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_
Protected Attributes inherited from ttk::MergeTreeNeuralBase
double	dropout_ = 0.0
bool	euclideanVectorsInit_ = false
bool	randomAxesInit_ = false
bool	initBarycenterRandom_ = false
bool	initBarycenterOneIter_ = false
bool	initOriginPrimeStructByCopy_ = true
bool	initOriginPrimeValuesByCopy_ = true
double	initOriginPrimeValuesByCopyRandomness_ = 0.0
bool	activate_ = true
unsigned int	activationFunction_ = 1
bool	useGpu_ = false
float	bigValuesThreshold_ = 0
Protected Attributes inherited from ttk::MergeTreeAxesAlgorithmBase
bool	deterministic_ = true
unsigned int	numberOfAxes_ = 2
unsigned int	k_ = 16
double	barycenterSizeLimitPercent_ = 20.0
bool	probabilisticVectorsInit_ = false
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_
Static Protected Attributes inherited from ttk::Debug
static COMMON_EXPORTS debug::LineMode	lastLineMode = ttk::debug::LineMode::NEW

Detailed Description

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

Author

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

Date

2023.

This VTK filter uses the ttk::MergeTreeAutoencoder module to compute an auto-encoder of merge trees or persistence diagrams.

Parameters

Input	vtkMultiBlockDataSet Input trees
Input	(optional) vtkMultiBlockDataSet Input trees. If input are merge trees, then this input can be used to process join and split trees together. Pass as input either join or split trees in the first input and the other type of trees in the second input. If input are persistence diagrams, then this has no effect to use this input.
Input	(optional) vtkTable Info (such as clustering assigment)
Output	vtkMultiBlockDataSet Origins
Output	vtkMultiBlockDataSet Bases Axes
Output	vtkMultiBlockDataSet Coefficients
Output	vtkMultiBlockDataSet Processed Input Trees

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

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

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

See also

ttk::MergeTreeAutoencoder

ttkAlgorithm

Online examples:

• Merge tree Wasserstein Auto-Encoder example
  
• Persistence Diagram Wasserstein Auto-Encoder example
  

Definition at line 59 of file ttkMergeTreeAutoencoder.h.

Member Typedef Documentation

Superclass

typedef ttkAlgorithm ttkMergeTreeAutoencoder::Superclass

Definition at line 524 of file ttkMergeTreeAutoencoder.h.

Constructor & Destructor Documentation

ttkMergeTreeAutoencoder()

ttkMergeTreeAutoencoder::ttkMergeTreeAutoencoder ( )

protected

Implement the filter constructor and destructor (see cpp file)

Implement the filter constructor and destructor in the cpp file.

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

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

Definition at line 36 of file ttkMergeTreeAutoencoder.cpp.

Member Function Documentation

FillInputPortInformation()

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

overrideprotected

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

Specify the required input data type of each input port

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

Definition at line 48 of file ttkMergeTreeAutoencoder.cpp.

FillOutputPortInformation()

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

overrideprotected

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

Specify the data object type of each output port

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

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

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

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

Definition at line 78 of file ttkMergeTreeAutoencoder.cpp.

GetActivate()

bool ttkMergeTreeAutoencoder::GetActivate ( )

inline

Definition at line 397 of file ttkMergeTreeAutoencoder.h.

GetActivateOutputInit()

bool ttkMergeTreeAutoencoder::GetActivateOutputInit ( )

inline

Definition at line 424 of file ttkMergeTreeAutoencoder.h.

GetActivationFunction()

unsigned int ttkMergeTreeAutoencoder::GetActivationFunction ( )

inline

Definition at line 406 of file ttkMergeTreeAutoencoder.h.

GetBarycenterSizeLimitPercent()

double ttkMergeTreeAutoencoder::GetBarycenterSizeLimitPercent ( )

inline

Definition at line 181 of file ttkMergeTreeAutoencoder.h.

GetBatchSize()

double ttkMergeTreeAutoencoder::GetBatchSize ( )

inline

Definition at line 217 of file ttkMergeTreeAutoencoder.h.

GetBeta1()

double ttkMergeTreeAutoencoder::GetBeta1 ( )

inline

Definition at line 244 of file ttkMergeTreeAutoencoder.h.

GetBeta2()

double ttkMergeTreeAutoencoder::GetBeta2 ( )

inline

Definition at line 253 of file ttkMergeTreeAutoencoder.h.

GetClassName()

virtual const char * ttkMergeTreeAutoencoder::GetClassName ( )

virtual

Reimplemented from ttkAlgorithm.

GetClusteringLossTemperature()

double ttkMergeTreeAutoencoder::GetClusteringLossTemperature ( )

inline

Definition at line 325 of file ttkMergeTreeAutoencoder.h.

GetClusteringLossWeight()

double ttkMergeTreeAutoencoder::GetClusteringLossWeight ( )

inline

Definition at line 289 of file ttkMergeTreeAutoencoder.h.

GetCreateOutput()

bool ttkMergeTreeAutoencoder::GetCreateOutput ( )

inline

Definition at line 515 of file ttkMergeTreeAutoencoder.h.

GetCustomLossActivate()

bool ttkMergeTreeAutoencoder::GetCustomLossActivate ( )

inline

Definition at line 307 of file ttkMergeTreeAutoencoder.h.

GetCustomLossDynamicWeight()

bool ttkMergeTreeAutoencoder::GetCustomLossDynamicWeight ( )

inline

Definition at line 334 of file ttkMergeTreeAutoencoder.h.

GetCustomLossSpace()

bool ttkMergeTreeAutoencoder::GetCustomLossSpace ( )

inline

Definition at line 298 of file ttkMergeTreeAutoencoder.h.

GetDeleteMultiPersPairs()

bool ttkMergeTreeAutoencoder::GetDeleteMultiPersPairs ( )

inline

Definition at line 495 of file ttkMergeTreeAutoencoder.h.

GetDeterministic()

bool ttkMergeTreeAutoencoder::GetDeterministic ( )

inline

Definition at line 388 of file ttkMergeTreeAutoencoder.h.

GetDiagramPairTypes()

virtual int ttkMergeTreeAutoencoder::GetDiagramPairTypes ( )

virtual

GetEpsilon1UseFarthestSaddle()

bool ttkMergeTreeAutoencoder::GetEpsilon1UseFarthestSaddle ( )

inline

Definition at line 449 of file ttkMergeTreeAutoencoder.h.

GetEpsilon2Tree1()

double ttkMergeTreeAutoencoder::GetEpsilon2Tree1 ( )

inline

Definition at line 468 of file ttkMergeTreeAutoencoder.h.

GetEpsilon3Tree1()

double ttkMergeTreeAutoencoder::GetEpsilon3Tree1 ( )

inline

Definition at line 477 of file ttkMergeTreeAutoencoder.h.

GetEpsilonTree1()

double ttkMergeTreeAutoencoder::GetEpsilonTree1 ( )

inline

Definition at line 459 of file ttkMergeTreeAutoencoder.h.

GetEuclideanVectorsInit()

bool ttkMergeTreeAutoencoder::GetEuclideanVectorsInit ( )

inline

Definition at line 352 of file ttkMergeTreeAutoencoder.h.

GetFullSymmetricAE()

bool ttkMergeTreeAutoencoder::GetFullSymmetricAE ( )

inline

Definition at line 415 of file ttkMergeTreeAutoencoder.h.

GetGradientStepSize()

double ttkMergeTreeAutoencoder::GetGradientStepSize ( )

inline

Definition at line 235 of file ttkMergeTreeAutoencoder.h.

GetInitOriginPrimeStructByCopy()

bool ttkMergeTreeAutoencoder::GetInitOriginPrimeStructByCopy ( )

inline

Definition at line 361 of file ttkMergeTreeAutoencoder.h.

GetInputNumberOfAxes()

unsigned int ttkMergeTreeAutoencoder::GetInputNumberOfAxes ( )

inline

Definition at line 135 of file ttkMergeTreeAutoencoder.h.

GetInputOriginPrimeSizePercent()

double ttkMergeTreeAutoencoder::GetInputOriginPrimeSizePercent ( )

inline

Definition at line 144 of file ttkMergeTreeAutoencoder.h.

GetIterationGap()

double ttkMergeTreeAutoencoder::GetIterationGap ( )

inline

Definition at line 208 of file ttkMergeTreeAutoencoder.h.

GetJoinSplitMixtureCoefficient()

double ttkMergeTreeAutoencoder::GetJoinSplitMixtureCoefficient ( )

inline

Definition at line 433 of file ttkMergeTreeAutoencoder.h.

GetLatentSpaceOriginPrimeSizePercent()

double ttkMergeTreeAutoencoder::GetLatentSpaceOriginPrimeSizePercent ( )

inline

Definition at line 163 of file ttkMergeTreeAutoencoder.h.

GetMaxIteration()

unsigned int ttkMergeTreeAutoencoder::GetMaxIteration ( )

inline

Definition at line 199 of file ttkMergeTreeAutoencoder.h.

GetMetricLossWeight()

double ttkMergeTreeAutoencoder::GetMetricLossWeight ( )

inline

Definition at line 280 of file ttkMergeTreeAutoencoder.h.

GetMinIteration()

unsigned int ttkMergeTreeAutoencoder::GetMinIteration ( )

inline

Definition at line 190 of file ttkMergeTreeAutoencoder.h.

GetNodePerTask()

int ttkMergeTreeAutoencoder::GetNodePerTask ( )

inline

Definition at line 505 of file ttkMergeTreeAutoencoder.h.

GetNormalizedWasserstein()

bool ttkMergeTreeAutoencoder::GetNormalizedWasserstein ( )

inline

Definition at line 108 of file ttkMergeTreeAutoencoder.h.

GetNormalizeMetricLoss()

bool ttkMergeTreeAutoencoder::GetNormalizeMetricLoss ( )

inline

Definition at line 316 of file ttkMergeTreeAutoencoder.h.

GetNumberOfAxes()

unsigned int ttkMergeTreeAutoencoder::GetNumberOfAxes ( )

inline

Definition at line 154 of file ttkMergeTreeAutoencoder.h.

GetNumberOfEncoderLayers()

unsigned int ttkMergeTreeAutoencoder::GetNumberOfEncoderLayers ( )

inline

Definition at line 117 of file ttkMergeTreeAutoencoder.h.

GetNumberOfInit()

unsigned int ttkMergeTreeAutoencoder::GetNumberOfInit ( )

inline

Definition at line 343 of file ttkMergeTreeAutoencoder.h.

GetNumberOfProjectionSteps()

unsigned int ttkMergeTreeAutoencoder::GetNumberOfProjectionSteps ( )

inline

Definition at line 172 of file ttkMergeTreeAutoencoder.h.

GetOptimizer()

int ttkMergeTreeAutoencoder::GetOptimizer ( )

inline

Definition at line 226 of file ttkMergeTreeAutoencoder.h.

GetPersistenceThreshold()

double ttkMergeTreeAutoencoder::GetPersistenceThreshold ( )

inline

Definition at line 486 of file ttkMergeTreeAutoencoder.h.

GetReconstructionLossWeight()

double ttkMergeTreeAutoencoder::GetReconstructionLossWeight ( )

inline

Definition at line 262 of file ttkMergeTreeAutoencoder.h.

GetScaleLayerAfterLatent()

unsigned int ttkMergeTreeAutoencoder::GetScaleLayerAfterLatent ( )

inline

Definition at line 126 of file ttkMergeTreeAutoencoder.h.

GetTrackingLossDecoding()

double ttkMergeTreeAutoencoder::GetTrackingLossDecoding ( )

inline

Definition at line 370 of file ttkMergeTreeAutoencoder.h.

GetTrackingLossInitRandomness()

double ttkMergeTreeAutoencoder::GetTrackingLossInitRandomness ( )

inline

Definition at line 379 of file ttkMergeTreeAutoencoder.h.

GetTrackingLossWeight()

double ttkMergeTreeAutoencoder::GetTrackingLossWeight ( )

inline

Definition at line 271 of file ttkMergeTreeAutoencoder.h.

IsA()

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

virtual

Reimplemented from ttkAlgorithm.

IsTypeOf()

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

static

New()

static ttkMergeTreeAutoencoder * ttkMergeTreeAutoencoder::New ( )

static

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

RequestData()

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

overrideprotected

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

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

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

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

Definition at line 101 of file ttkMergeTreeAutoencoder.cpp.

run()

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

protected

runCompute()

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

protected

runOutput()

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

protected

SafeDownCast()

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

static

SetActivate()

void ttkMergeTreeAutoencoder::SetActivate ( bool activate )

inline

Definition at line 392 of file ttkMergeTreeAutoencoder.h.

SetActivateOutputInit()

void ttkMergeTreeAutoencoder::SetActivateOutputInit ( bool activateOutputInit )

inline

Definition at line 419 of file ttkMergeTreeAutoencoder.h.

SetActivationFunction()

void ttkMergeTreeAutoencoder::SetActivationFunction ( unsigned int activationFunction )

inline

Definition at line 401 of file ttkMergeTreeAutoencoder.h.

SetBarycenterSizeLimitPercent()

void ttkMergeTreeAutoencoder::SetBarycenterSizeLimitPercent ( double percent )

inline

Definition at line 176 of file ttkMergeTreeAutoencoder.h.

SetBatchSize()

void ttkMergeTreeAutoencoder::SetBatchSize ( double bs )

inline

Definition at line 212 of file ttkMergeTreeAutoencoder.h.

SetBeta1()

void ttkMergeTreeAutoencoder::SetBeta1 ( double beta )

inline

Definition at line 239 of file ttkMergeTreeAutoencoder.h.

SetBeta2()

void ttkMergeTreeAutoencoder::SetBeta2 ( double beta )

inline

Definition at line 248 of file ttkMergeTreeAutoencoder.h.

SetClusteringLossTemperature()

void ttkMergeTreeAutoencoder::SetClusteringLossTemperature ( double clusteringLossTemperature )

inline

Definition at line 320 of file ttkMergeTreeAutoencoder.h.

SetClusteringLossWeight()

void ttkMergeTreeAutoencoder::SetClusteringLossWeight ( double clusteringLossWeight )

inline

Definition at line 284 of file ttkMergeTreeAutoencoder.h.

SetCreateOutput()

void ttkMergeTreeAutoencoder::SetCreateOutput ( bool createOutput )

inline

Definition at line 510 of file ttkMergeTreeAutoencoder.h.

SetCustomLossActivate()

void ttkMergeTreeAutoencoder::SetCustomLossActivate ( bool customLossActivate )

inline

Definition at line 302 of file ttkMergeTreeAutoencoder.h.

SetCustomLossDynamicWeight()

void ttkMergeTreeAutoencoder::SetCustomLossDynamicWeight ( bool customLossDynamicWeight )

inline

Definition at line 329 of file ttkMergeTreeAutoencoder.h.

SetCustomLossSpace()

void ttkMergeTreeAutoencoder::SetCustomLossSpace ( bool customLossSpace )

inline

Definition at line 293 of file ttkMergeTreeAutoencoder.h.

SetDeleteMultiPersPairs()

void ttkMergeTreeAutoencoder::SetDeleteMultiPersPairs ( bool delMultiPersPairs )

inline

Definition at line 490 of file ttkMergeTreeAutoencoder.h.

SetDeterministic()

void ttkMergeTreeAutoencoder::SetDeterministic ( bool deterministic )

inline

Definition at line 383 of file ttkMergeTreeAutoencoder.h.

SetDiagramPairTypes()

void ttkMergeTreeAutoencoder::SetDiagramPairTypes ( int diagramPairTypes )

inline

Definition at line 437 of file ttkMergeTreeAutoencoder.h.

SetEpsilon1UseFarthestSaddle()

void ttkMergeTreeAutoencoder::SetEpsilon1UseFarthestSaddle ( bool epsilon1UseFarthestSaddle )

inline

Definition at line 444 of file ttkMergeTreeAutoencoder.h.

SetEpsilon2Tree1()

void ttkMergeTreeAutoencoder::SetEpsilon2Tree1 ( double epsilon2Tree1 )

inline

Definition at line 463 of file ttkMergeTreeAutoencoder.h.

SetEpsilon3Tree1()

void ttkMergeTreeAutoencoder::SetEpsilon3Tree1 ( double epsilon3Tree1 )

inline

Definition at line 472 of file ttkMergeTreeAutoencoder.h.

SetEpsilonTree1()

void ttkMergeTreeAutoencoder::SetEpsilonTree1 ( double epsilonTree1 )

inline

Definition at line 453 of file ttkMergeTreeAutoencoder.h.

SetEuclideanVectorsInit()

void ttkMergeTreeAutoencoder::SetEuclideanVectorsInit ( bool euclideanVectorsInit )

inline

Definition at line 347 of file ttkMergeTreeAutoencoder.h.

SetFullSymmetricAE()

void ttkMergeTreeAutoencoder::SetFullSymmetricAE ( bool fullSymmetricAE )

inline

Definition at line 410 of file ttkMergeTreeAutoencoder.h.

SetGradientStepSize()

void ttkMergeTreeAutoencoder::SetGradientStepSize ( double lr )

inline

Definition at line 230 of file ttkMergeTreeAutoencoder.h.

SetInitOriginPrimeStructByCopy()

void ttkMergeTreeAutoencoder::SetInitOriginPrimeStructByCopy ( bool initOriginPrimeStructByCopy )

inline

Definition at line 356 of file ttkMergeTreeAutoencoder.h.

SetInputArrayToProcess()

void ttkMergeTreeAutoencoder::SetInputArrayToProcess ( const char * name )

inline

Definition at line 99 of file ttkMergeTreeAutoencoder.h.

SetInputNumberOfAxes()

void ttkMergeTreeAutoencoder::SetInputNumberOfAxes ( unsigned int numberOfAxes )

inline

Definition at line 130 of file ttkMergeTreeAutoencoder.h.

SetInputOriginPrimeSizePercent()

void ttkMergeTreeAutoencoder::SetInputOriginPrimeSizePercent ( double originSize )

inline

Definition at line 139 of file ttkMergeTreeAutoencoder.h.

SetIterationGap()

void ttkMergeTreeAutoencoder::SetIterationGap ( unsigned int iterationGap )

inline

Definition at line 203 of file ttkMergeTreeAutoencoder.h.

SetJoinSplitMixtureCoefficient()

void ttkMergeTreeAutoencoder::SetJoinSplitMixtureCoefficient ( double joinSplitMixtureCoefficient )

inline

Definition at line 428 of file ttkMergeTreeAutoencoder.h.

SetLatentSpaceOriginPrimeSizePercent()

void ttkMergeTreeAutoencoder::SetLatentSpaceOriginPrimeSizePercent ( double originSize )

inline

Definition at line 158 of file ttkMergeTreeAutoencoder.h.

SetMaxIteration()

void ttkMergeTreeAutoencoder::SetMaxIteration ( unsigned int maxIteration )

inline

Definition at line 194 of file ttkMergeTreeAutoencoder.h.

SetMetricLossWeight()

void ttkMergeTreeAutoencoder::SetMetricLossWeight ( double metricLossWeight )

inline

Definition at line 275 of file ttkMergeTreeAutoencoder.h.

SetMinIteration()

void ttkMergeTreeAutoencoder::SetMinIteration ( unsigned int minIteration )

inline

Definition at line 185 of file ttkMergeTreeAutoencoder.h.

SetNodePerTask()

void ttkMergeTreeAutoencoder::SetNodePerTask ( int nodePerTask )

inline

Definition at line 500 of file ttkMergeTreeAutoencoder.h.

SetNormalizedWasserstein()

void ttkMergeTreeAutoencoder::SetNormalizedWasserstein ( bool nW )

inline

Definition at line 103 of file ttkMergeTreeAutoencoder.h.

SetNormalizeMetricLoss()

void ttkMergeTreeAutoencoder::SetNormalizeMetricLoss ( bool normalizeMetricLoss )

inline

Definition at line 311 of file ttkMergeTreeAutoencoder.h.

SetNumberOfAxes()

void ttkMergeTreeAutoencoder::SetNumberOfAxes ( unsigned int numberOfAxes )

inline

Definition at line 149 of file ttkMergeTreeAutoencoder.h.

SetNumberOfEncoderLayers()

void ttkMergeTreeAutoencoder::SetNumberOfEncoderLayers ( unsigned int numberOfEncoderLayers )

inline

Definition at line 112 of file ttkMergeTreeAutoencoder.h.

SetNumberOfInit()

void ttkMergeTreeAutoencoder::SetNumberOfInit ( unsigned int noInit )

inline

Definition at line 338 of file ttkMergeTreeAutoencoder.h.

SetNumberOfProjectionSteps()

void ttkMergeTreeAutoencoder::SetNumberOfProjectionSteps ( unsigned int noSteps )

inline

Definition at line 167 of file ttkMergeTreeAutoencoder.h.

SetOptimizer()

void ttkMergeTreeAutoencoder::SetOptimizer ( int optimizer )

inline

Definition at line 221 of file ttkMergeTreeAutoencoder.h.

SetPersistenceThreshold()

void ttkMergeTreeAutoencoder::SetPersistenceThreshold ( double persistenceThreshold )

inline

Definition at line 481 of file ttkMergeTreeAutoencoder.h.

SetReconstructionLossWeight()

void ttkMergeTreeAutoencoder::SetReconstructionLossWeight ( double reconstructionLossWeight )

inline

Definition at line 257 of file ttkMergeTreeAutoencoder.h.

SetScaleLayerAfterLatent()

void ttkMergeTreeAutoencoder::SetScaleLayerAfterLatent ( unsigned int scaleLayerAfterLatent )

inline

Definition at line 121 of file ttkMergeTreeAutoencoder.h.

SetTrackingLossDecoding()

void ttkMergeTreeAutoencoder::SetTrackingLossDecoding ( double trackingLossDecoding )

inline

Definition at line 365 of file ttkMergeTreeAutoencoder.h.

SetTrackingLossInitRandomness()

void ttkMergeTreeAutoencoder::SetTrackingLossInitRandomness ( double trackingLossInitRandomness )

inline

Definition at line 374 of file ttkMergeTreeAutoencoder.h.

SetTrackingLossWeight()

void ttkMergeTreeAutoencoder::SetTrackingLossWeight ( double trackingLossWeight )

inline

Definition at line 266 of file ttkMergeTreeAutoencoder.h.

---

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

• /home/julien/Pro/git/github/thomas/ttk-dani/core/vtk/ttkMergeTreeAutoencoder/ttkMergeTreeAutoencoder.h
• /home/julien/Pro/git/github/thomas/ttk-dani/core/vtk/ttkMergeTreeAutoencoder/ttkMergeTreeAutoencoder.cpp