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Public Member Functions | Protected Attributes | List of all members
ttk::MergeTreeTemporalReductionDecoding Class Reference
base

#include <MergeTreeTemporalReductionDecoding.h>

Inheritance diagram for ttk::MergeTreeTemporalReductionDecoding:
ttk::Debug ttk::MergeTreeBase ttk::BaseClass ttk::Debug ttk::BaseClass ttkMergeTreeTemporalReductionDecoding

Public Member Functions

 MergeTreeTemporalReductionDecoding ()
 
template<class dataType >
dataType computeDistance (ftm::MergeTree< dataType > &mTree1, ftm::MergeTree< dataType > &mTree2, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matching)
 
template<class dataType >
dataType computeDistance (ftm::MergeTree< dataType > &mTree1, ftm::MergeTree< dataType > &mTree2)
 
template<class dataType >
ftm::MergeTree< dataType > computeBarycenter (ftm::MergeTree< dataType > &mTree1, ftm::MergeTree< dataType > &mTree2, double alpha)
 
template<class dataType >
void execute (std::vector< ftm::MergeTree< dataType > > &mTrees, std::vector< std::tuple< double, int, int, int, int > > &coefs, std::vector< ftm::MergeTree< dataType > > &allMT, std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &allMatching)
 
- 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)
 
std::vector< std::vector< int > > getTreesNodeCorr ()
 
double mixDistancesMinMaxPairWeight (bool isFirstInput)
 
double mixDistancesWeight (bool isFirstInput)
 
template<class dataType >
double mixDistances (dataType distance1, dataType distance2)
 
template<class dataType >
void mixDistancesMatrix (std::vector< std::vector< dataType > > &distanceMatrix, std::vector< std::vector< dataType > > &distanceMatrix2)
 
template<class dataType >
void mergeSaddle (ftm::FTMTree_MT *tree, double epsilon, std::vector< std::vector< ftm::idNode > > &treeNodeMerged, bool mergeByPersistence=false)
 
template<class dataType >
void persistenceMerging (ftm::FTMTree_MT *tree, double epsilon2, double epsilon3=100)
 
template<class dataType >
void keepMostImportantPairs (ftm::FTMTree_MT *tree, int n, bool useBD)
 
template<class dataType >
void persistenceThresholding (ftm::FTMTree_MT *tree, double persistenceThresholdT, std::vector< ftm::idNode > &deletedNodes)
 
template<class dataType >
void persistenceThresholding (ftm::FTMTree_MT *tree, std::vector< ftm::idNode > &deletedNodes)
 
template<class dataType >
void persistenceThresholding (ftm::FTMTree_MT *tree, double persistenceThresholdT)
 
template<class dataType >
void persistenceThresholding (ftm::FTMTree_MT *tree)
 
template<class dataType >
void verifyOrigins (ftm::FTMTree_MT *tree)
 
template<class dataType >
void preprocessTree (ftm::FTMTree_MT *tree, bool deleteInconsistentNodes=true)
 
template<class dataType >
ftm::FTMTree_MT * computeBranchDecomposition (ftm::FTMTree_MT *tree, std::vector< std::vector< ftm::idNode > > &treeNodeMerged)
 
template<class dataType >
void dontUseMinMaxPair (ftm::FTMTree_MT *tree)
 
void verifyPairsTree (ftm::FTMTree_MT *tree)
 
template<class dataType >
void deleteMultiPersPairs (ftm::FTMTree_MT *tree, bool useBD)
 
template<class dataType >
void preprocessingPipeline (ftm::MergeTree< dataType > &mTree, double epsilonTree, double epsilon2Tree, double epsilon3Tree, bool branchDecompositionT, bool useMinMaxPairT, bool cleanTreeT, double persistenceThreshold, std::vector< int > &nodeCorr, bool deleteInconsistentNodes=true)
 
template<class dataType >
void preprocessingPipeline (ftm::MergeTree< dataType > &mTree, double epsilonTree, double epsilon2Tree, double epsilon3Tree, bool branchDecompositionT, bool useMinMaxPairT, bool cleanTreeT, std::vector< int > &nodeCorr, bool deleteInconsistentNodes=true)
 
void reverseNodeCorr (ftm::FTMTree_MT *tree, std::vector< int > &nodeCorr)
 
template<class dataType >
void mtFlattening (ftm::MergeTree< dataType > &mt)
 
template<class dataType >
void mtsFlattening (std::vector< ftm::MergeTree< dataType > > &mts)
 
double getSizeLimitMetric (std::vector< ftm::FTMTree_MT * > &trees)
 
template<class dataType >
void copyMinMaxPair (ftm::MergeTree< dataType > &mTree1, ftm::MergeTree< dataType > &mTree2, bool setOrigins=false)
 
template<class dataType >
std::tuple< int, dataType > fixMergedRootOrigin (ftm::FTMTree_MT *tree)
 
template<class dataType >
void branchDecompositionToTree (ftm::FTMTree_MT *tree)
 
template<class dataType >
void putBackMergedNodes (ftm::FTMTree_MT *tree)
 
template<class dataType >
void postprocessingPipeline (ftm::FTMTree_MT *tree)
 
template<class dataType >
void convertBranchDecompositionMatching (ftm::FTMTree_MT *tree1, ftm::FTMTree_MT *tree2, std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &outputMatching)
 
template<class dataType >
void convertBranchDecompositionMatching (ftm::FTMTree_MT *tree1, ftm::FTMTree_MT *tree2, std::vector< std::tuple< ftm::idNode, ftm::idNode > > &outputMatching)
 
template<class dataType >
void identifyRealMatching (ftm::FTMTree_MT *tree1, ftm::FTMTree_MT *tree2, std::vector< std::tuple< ftm::idNode, ftm::idNode > > &outputMatching, std::vector< std::tuple< ftm::idNode, ftm::idNode, bool > > &realMatching)
 
template<class dataType >
dataType computeDistance (dataType x1, dataType x2, dataType y1, dataType y2, double power=2)
 
template<class dataType >
dataType deleteCost (ftm::FTMTree_MT *tree, ftm::idNode nodeId)
 
template<class dataType >
dataType insertCost (ftm::FTMTree_MT *tree, ftm::idNode nodeId)
 
template<class dataType >
dataType relabelCostOnly (ftm::FTMTree_MT *tree1, ftm::idNode nodeId1, ftm::FTMTree_MT *tree2, ftm::idNode nodeId2)
 
template<class dataType >
dataType relabelCost (ftm::FTMTree_MT *tree1, ftm::idNode nodeId1, ftm::FTMTree_MT *tree2, ftm::idNode nodeId2)
 
void getParamNames (std::vector< std::string > &paramNames)
 
double getParamValueFromName (std::string &paramName)
 
void setParamValueFromName (std::string &paramName, double value)
 
void getTreesStats (std::vector< ftm::FTMTree_MT * > &trees, std::array< double, 3 > &stats)
 
void printTreesStats (std::vector< ftm::FTMTree_MT * > &trees)
 
template<class dataType >
void printTreesStats (std::vector< ftm::MergeTree< dataType > > &trees)
 
template<class dataType >
void printTableVector (std::vector< std::vector< dataType > > &table)
 
template<class dataType >
void printTable (dataType *table, int nRows, int nCols)
 
void printMatching (std::vector< MatchingType > &matchings)
 
void printMatching (std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &matchings)
 
void printMatching (std::vector< std::tuple< ftm::idNode, ftm::idNode > > &matchings)
 
template<class dataType >
void printPairs (std::vector< std::tuple< SimplexId, SimplexId, dataType > > &treePairs)
 
template<class dataType >
void printOutputMatching (std::vector< std::tuple< ftm::idNode, ftm::idNode > > &outputMatching, ftm::FTMTree_MT *tree1, ftm::FTMTree_MT *tree2, bool computeCosts=true)
 

Protected Attributes

std::vector< double > finalDistances_
 
std::vector< double > distancesToKeyFrames_
 
- 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 MergeTreeTemporalReductionDecoding class provides methods to compute the reconstruction of a reduced sequence of merge trees.

Author
Mathieu Pont (mathi.nosp@m.eu.p.nosp@m.ont@l.nosp@m.ip6..nosp@m.fr)
Date
2021.

This module defines the MergeTreeTemporalReductionDecoding class that computes the reconstruction of a reduced sequence of merge trees.

Related publication
"Wasserstein Distances, Geodesics and Barycenters of Merge Trees"
Mathieu Pont, Jules Vidal, Julie Delon, Julien Tierny.
Proc. of IEEE VIS 2021.
IEEE Transactions on Visualization and Computer Graphics, 2021

Online examples:

Definition at line 35 of file MergeTreeTemporalReductionDecoding.h.

Constructor & Destructor Documentation

◆ MergeTreeTemporalReductionDecoding()

ttk::MergeTreeTemporalReductionDecoding::MergeTreeTemporalReductionDecoding ( )

Definition at line 3 of file MergeTreeTemporalReductionDecoding.cpp.

Member Function Documentation

◆ computeBarycenter()

template<class dataType >
ftm::MergeTree< dataType > ttk::MergeTreeTemporalReductionDecoding::computeBarycenter ( ftm::MergeTree< dataType > &  mTree1,
ftm::MergeTree< dataType > &  mTree2,
double  alpha 
)
inline

Definition at line 83 of file MergeTreeTemporalReductionDecoding.h.

◆ computeDistance() [1/2]

template<class dataType >
dataType ttk::MergeTreeTemporalReductionDecoding::computeDistance ( ftm::MergeTree< dataType > &  mTree1,
ftm::MergeTree< dataType > &  mTree2 
)
inline

Definition at line 76 of file MergeTreeTemporalReductionDecoding.h.

◆ computeDistance() [2/2]

template<class dataType >
dataType ttk::MergeTreeTemporalReductionDecoding::computeDistance ( ftm::MergeTree< dataType > &  mTree1,
ftm::MergeTree< dataType > &  mTree2,
std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > &  matching 
)
inline

Definition at line 44 of file MergeTreeTemporalReductionDecoding.h.

◆ execute()

template<class dataType >
void ttk::MergeTreeTemporalReductionDecoding::execute ( std::vector< ftm::MergeTree< dataType > > &  mTrees,
std::vector< std::tuple< double, int, int, int, int > > &  coefs,
std::vector< ftm::MergeTree< dataType > > &  allMT,
std::vector< std::vector< std::tuple< ftm::idNode, ftm::idNode, double > > > &  allMatching 
)
inline

Definition at line 119 of file MergeTreeTemporalReductionDecoding.h.

Member Data Documentation

◆ distancesToKeyFrames_

std::vector<double> ttk::MergeTreeTemporalReductionDecoding::distancesToKeyFrames_
protected

Definition at line 38 of file MergeTreeTemporalReductionDecoding.h.

◆ finalDistances_

std::vector<double> ttk::MergeTreeTemporalReductionDecoding::finalDistances_
protected

Definition at line 38 of file MergeTreeTemporalReductionDecoding.h.

The documentation for this class was generated from the following files:
Generated on Thu Sep 26 2024 06:50:21 for TTK by doxygen 1.9.8