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[WIP] Path Mapping Barycenters#1025

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floWetzels wants to merge 86 commits intotopology-tool-kit:devtopology-tool-kit/ttk:devfrom floWetzels:path-mapping-preprocessingfloWetzels/ttk:path-mapping-preprocessingCopy head branch name to clipboard

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Commits

Commits on Nov 2, 2022

• Started working on Clustering integration of bdi-ed. Not working yet.

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Commits on Nov 9, 2022

• some work on bdi-ed clustering. (experimental state)

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Commits on Nov 14, 2022

• MergeTreeClustering: Mapping visualizations working for Path Mapping Distance. Branch Mapping Distance still buggy.

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Commits on Nov 16, 2022

• Some testing code for branch mapping distance.

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Commits on Nov 17, 2022

• merged dev branch and fixed conflicts

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Commits on Nov 18, 2022

• [MergeTreeVisu] dimension shift for planar layout

  MatPont

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• [MergeTreeVisu] custom shift and fix planar layout z shift

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• Some debugging/testing output in Branch Mapping Distance

  floWetzels

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• Merge branch 'mt_layout_dimension_shift' of https://github.com/MatPont/ttk into bdi-ed_clustering

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Commits on Nov 21, 2022

• Branch Mapping Distance fixed.

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Commits on Nov 24, 2022

• Some work on barycenters with path mapping distance.

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• Some work on barycenters with path mapping distance.

  floWetzels

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Commits on Dec 2, 2022

• enable custom bd for branch mapping

  MatPont

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• [PathMapping] change dummy node matching

  MatPont

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• [PlanarLayout] fix diff and offset for general branch decomposition

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• Merge branch 'branchMapping_layout_fix' into mapping_planar_layout

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• first working version of path mapping barycenter

  floWetzels

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  f2aa0f0

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• Merge branch 'mapping_planar_layout' of https://github.com/MatPont/ttk into bdi-ed_clustering

  floWetzels

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• implemented alphas for path mapping clustering and fixed some warnings

  floWetzels

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Commits on Dec 5, 2022

• Bugfixes for MergeTreeBarycenter with Path Mapping Distance. Still not working for join trees.

  floWetzels

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Commits on Dec 7, 2022

• Fixed bugs for barycenter computation with bdi-ed

  floWetzels

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• some cleanup in MergeTreeClustering

  floWetzels

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Commits on Dec 9, 2022

• [MergeTreeVisu] Branch Mapping planar layout

  MatPont

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Commits on Dec 12, 2022

• MergeTreeClustering working with Path Mapping Distance

  floWetzels

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• Merge branch 'dev' of https://github.com/topology-tool-kit/ttk into bdi-ed_clustering

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Commits on Dec 15, 2022

• [MergeTreeVisu] fix isImportantPair for general branch decomposition

  MatPont

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Commits on Dec 16, 2022

• Merge branch 'mapping_planar_layout' of https://github.com/MatPont/ttk into bdi-ed_clustering

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Commits on Jan 13, 2023

• Merge branch 'bdi-ed_clustering' into mapping_planar_layout

  MatPont

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  7c3d4a0

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• [PathLayout] add path layout filter parameter and remove some old code

  MatPont

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• [PathLayout] work on layout

  MatPont

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• [MergeTreeVisu] fix is important pair for general BD and put back persistence pre-positioning

  MatPont

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  e079a63

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• Merge branch 'mapping_planar_layout' of https://github.com/MatPont/ttk into mapping_planar_layout

  MatPont

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• [MergeTreeVisu] fix is important pair for general BD

  MatPont

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• [MergeTreeVisu] work on path planar layout

  MatPont

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Commits on Jan 18, 2023

• [MergeTreeClustering] path planar layout option in vtk layer

  MatPont

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• [MergeTreeVisu] path layout dummy node

  MatPont

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• [MergeTreeVisu] path planar layout shift according lowest node

  MatPont

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Commits on Feb 3, 2023

• [MergeTreeVisu] fix y dimension shift for 1 barycenter and 2 trees

  MatPont

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  8b35190

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• [MergeTreeBarycenter] remove unused variable

  MatPont

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• [MergeTreeVisu] work on trees layout alignment given barycenter

  MatPont

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• [MergeTreeVisu] work on special cases of tree planar layout alignment to barycenter

  MatPont

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Commits on Feb 15, 2023

• temporal reduction working for path mappings

  floWetzels

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Commits on Feb 17, 2023

• Merge branch 'mapping_planar_layout' of https://github.com/MatPont/ttk into bdi-ed_clustering

  floWetzels

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Commits on Mar 1, 2023

• added some debugging and testing options to MergeTreeClustering

  floWetzels

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Commits on Mar 2, 2023

• [MergeTreeVisu] fix dummy nodes and cells

  MatPont

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• [MT-AE] work on path layout points and cells data

  MatPont

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• Added path mapping output to vtk layer of MergeTreeClustering

  floWetzels

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• [MergeTreeVisu] path ids first version

  MatPont

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Commits on Mar 8, 2023

• [MergeTreeVisu] fix path layout seg fault for Wasserstein distance

  MatPont

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• [MergeTreeVisu] disable barycenter alignment for Wasserstein distance

  MatPont

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Commits on Mar 13, 2023

• [MergeTreeVisu] true node ids in matching

  MatPont

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Commits on Mar 31, 2023

• lots of changes on merge tree barycenter (mostly outputs for testing)

  floWetzels

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Commits on Feb 23, 2024

• fixed merge conflicts

  floWetzels

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Commits on Feb 29, 2024

• started work on preprecessing for path mappings

  floWetzels

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Commits on Mar 1, 2024

• preprocessing working for path mapping distance in clustering module

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• started work on path mapping preprocessing for remaing modules

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• path mapping preprocessing working for clustering with multiple clusters

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Commits on Apr 11, 2024

• preprocessing working for single path/branch mapping distance

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• renaming of path/branch mapping API

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Commits on Apr 12, 2024

• preprocessing for path/branch mappings working in MergeTreeDistanceMatrix

  floWetzels

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• parallel computation for path/branch mapping distance in MergeTreeistanceMatrix

  floWetzels

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Commits on Apr 15, 2024

• Parallel assignment for path mapping distance in MergeTreeBarycenter

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Commits on Apr 16, 2024

• added iteration limit for merge tree barycenter again

  floWetzels

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• Merge branch 'dev' of https://github.com/topology-tool-kit/ttk into path-mapping-preprocessing

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Commits on Apr 18, 2024

• removed convergence flag in MergeTreeBarycenter and allowed unlimited iterations through negative iterationLimit flag

  floWetzels

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• improved preprocessing in MergeTreeDistanceMatrix

  floWetzels

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Commits on Apr 25, 2024

• updated authors and publications in all edit distance related modules

  floWetzels

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• clang-format

  floWetzels

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• Merge branch 'dev' of https://github.com/topology-tool-kit/ttk into path-mapping-preprocessing

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Commits on Apr 29, 2024

• compiler warnings

  floWetzels

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Commits on May 2, 2024

• [MergeTreeClustering] filter backends and options

  MatPont

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  9cccc23

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• [MergeTreeClustering] fix compute barycenter option caching with edit distance

  MatPont

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  70547be

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• [MergeTreeClustering] fix barycenter dbug level when called in clustering

  MatPont

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• [MergeTreeClustering] fix xml conditions for barycenter options

  MatPont

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Commits on Jul 23, 2024

• fixed inverted squared-parameter in MergeTreeDistanceMatrix

  floWetzels

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Commits on Jul 24, 2024

• fixed cost array in matching output of MergeTreeClustering when using the path mapping distance

  floWetzels

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• fixed cost array in mapping output for branch mapping distance

  floWetzels

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  18d6307

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• clang format

  floWetzels

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  225e6e9

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• removed old code and fixed some warnings

  floWetzels

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  b83a149

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Commits on Aug 26, 2024

• [MergeTreeClustering] compute barycenter option caching

  MatPont

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Commits on Aug 28, 2024

• [MergeTree] xml doc

  MatPont

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Commits on Dec 19, 2024

• [BranchMappingDistance] fixed type of cost array

  floWetzels

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• [BranchMappingDistance] fixed missing entries in cost array

  floWetzels

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  ebc62ec

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• Merge branch 'dev' of https://github.com/topology-tool-kit/ttk into path-mapping-preprocessing

  floWetzels

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• [BranchMappingDistance] removed outcommented code

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Commits on Dec 25, 2024

• Merge https://github.com/topology-tool-kit/ttk into path-mapping-preprocessing

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