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2019-06-13Change CopyrightROUVREAU Vincent
2019-06-12Merge branch 'master' into persistence_intervals_numpy_arrays_vincentROUVREAU Vincent
2019-06-04Fix #7 : document better get_persistence_pairs (C++) and persistence_pairs ↵ROUVREAU Vincent
(Python) methods
2019-06-03Fix #55ROUVREAU Vincent
2019-05-27long linesMarc Glisse
2019-05-21Use numpy to speed computations for plot_persistence_density and fix code reviewROUVREAU Vincent
2019-05-10Clarify doc of witness complexMarc Glisse
2019-04-26numpy is now a hard dependency. persistence_intervals_in_dimension and ↵ROUVREAU Vincent
read_persistence_intervals_in_dimension now returns a numpy array of dimension 2 (list of [birth, death]).
2019-03-12Add some documentation for Fix #31ROUVREAU Vincent
Cythonization of Fix #31 Add some tests
2018-10-18Add persistence_dim_max argument in simplex tree persistence documentationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3963 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ef8f3b0c2b0e3cdbda73687f1e65877213918830
2018-10-17Merge branch sparserips-pythonvrouvrea
Fix doxygen bad link on sparsify point set function Fix some lines too long git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3961 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 94946e2dd7853bd65d6790546ad2ef8a35d298c1
2018-10-06Doc tweaks.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/sparserips-python@3936 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3c75c674876bcb38d0a87de41d406832baf61b55
2018-10-06merge from trunkglisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/sparserips-python@3935 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 81f81cb6b39ece77718c8b03d408a90789946c0f
2018-10-05pastoglisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3933 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3fc8b696f0c457256e0c8bf74ffffa580dbb69d4
2018-10-04Merge of branch plot_persistence_density_vincentvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3927 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: a996b8e1ddcdb53f9ea6dff341ae5f1bad26639c
2018-10-02More doc changes for python sparse ripsglisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/sparserips-python@3921 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f9a33e3c4a6fc6d68a81b753a88ff9d39bdcfb9f
2018-10-02Doc review : Explain that plot persistence density function doesn't handle ↵vrouvrea
degenerate data git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3920 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 7794f7959b98b0245e26077d2f2639f33655d5c9
2018-10-02Code review : remove executable propertyvrouvrea
Doc review : Rephrase inf_delta explanation git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3919 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b45697b675a20cdca7bb42fa7a555df6c35fe0fd
2018-10-02Doc review : "Selected points are" -> "Selected intervals are"vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3918 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 79857a4609428fc623f8f4656762261ea664cf12
2018-10-02Doc review: max_intervals documentation in plot_persistence_densityvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3917 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 90cfd77ad4aad4cdb0937f43dd4f802688f98295
2018-09-18git-svn-id: ↵mcarrier
svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Nerve_GIC@3897 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f5fe42a6f42443ca7217c69f8a18780cdb85669e
2018-09-10Code review : More explicit message when import fails in plot persistence ↵vrouvrea
graphical tools git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3881 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 96f9e3da3bd68d6cba65242b9890c4beb463c863
2018-09-10Doc review : Add a link to scipy.stats.gaussian_kde official documentationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3878 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: dd6e1a4131be1ed0306a48f9b095e0d09ddee848
2018-08-28added function to read point cloud from array in memory + changed a little ↵mcarrier
bit the API git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Nerve_GIC@3841 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f31a3a60b2438d7b767a1ee310d859477330a743
2018-08-17Code review : rename max_plots and max_barcodes as max_intervals for ↵vrouvrea
peristence_graphical_tools git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3803 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ad73f7e6cc6d72c3ba24b5ac947265c78a29f387
2018-08-17Code review : Rename max_plots with max_intervals for persistence densityvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3801 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 8d20ee2f721b856bba69bc5bc10db26032649129
2018-08-17Doc review : inf_delta explanation improvementvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3800 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 01fff74d79228431d77a46b713ac656ab7e84dc0
2018-08-17Code review : Add a bw_method parameter to plot_persistence_density for the ↵vrouvrea
standard deviation of the Gaussian git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3799 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3bbc988434951bb429acd44b1f31f8310bb9ba9c
2018-08-17Doc review : rephrase max_plots explanationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3795 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f6059d3a242eed53dfdddb76ffed33f99892f4bc
2018-08-17Code review : add a parameter to select dimension for ↵vrouvrea
plot_persistence_density. Default is None and mix all dimensions git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3794 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 493f5ecfad2bcf0ee4a40ec7b315863c471d088f
2018-08-16Bug fixvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3788 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d8b898ca963d8d956307bb1dfd8abea1acbe6c96
2018-08-16Code review : Try to import module. Functions are unavailable if not available.vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3785 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 53c89a30f7992aa8d20e8330628c03291cea6473
2018-08-09Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3763 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 96af633598ea1efa65ce9b78742628722f469d9e
2018-08-09Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3759 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1f3867c19d9a559dc8d56c81d6088820acc4ac9c
2018-08-09Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ninja_cmake_warning_fix_vincent@3757 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f7f31a9a2448c7e894aa63b46360f59bc92f54b3
2018-08-09Make soft dependency for matplotlib and numpy dependenciesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ninja_cmake_warning_fix_vincent@3756 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 13a2e6e3eea8a36d0b9bdb4ab1c34f940a8932dc
2018-08-06Fix issue #14 : [RipsComplex] max_edge_length documented with type 'int'vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3743 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9ef2e20e818fc1c573ce784cd34acb3c6d9970b7
2018-08-06Fix issue #15 : [python - subsampling] sparsify_point_set wrong documentationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3742 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: fcb4ba73cb1c4527a9f772bb9412f5e15c4eafaa
2018-08-03plot persistence density functionnality with its documentationvrouvrea
Fix some documentation issue in other graphiacl tools Add scipy as a dependency git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/plot_persistence_density_vincent@3736 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6481f1d6aa176bcf587f8875298a91cd22ac0319
2018-07-20First try at interfacing the sparse rips in python. Needs at least ↵glisse
documentation and tests. git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/sparserips-python@3697 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 75bef59e90355853ee24807ca7453c4bb0a38f43
2018-07-02Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_nerve_gic_vincent@3656 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1f02e2f3b3e716d6578be49437e7d0b33fa99e5b
2018-06-07fix Cubical python documentation (no more simplicial references for periodic)vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3555 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 198a65222029760e0ff5cd5e576c3281833b307c
2018-06-06Doc review : warn about cubical betti numbers function and remove simplicial ↵vrouvrea
references for cubical git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3546 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 41399f9e8aec2ab914368822cd288b1a08839085
2018-05-30Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3495 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 4033114216c767ad4028e3f6d4ccb5f5dfb88f78
2018-05-23Legend in the right bottom cornervrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3453 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 221e39777dd55397a0260a2c83f590db610fdb76
2018-05-23Modify documentation for Simplex_tree make_filtration_non_decreasingvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3452 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 304779c7952985d651750aded78cb32c6e583555
2018-05-02Add Python Simplex_tree make_filtration_non_decreasing interface and its testsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3409 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6a3af66b3d90c6114886e54c5c34287a13f4b863
2018-04-27Remove show_palette_valuesvrouvrea
Add legend flag to display the legend Set rips threshold to 0.3 for users not to be surprised when playing with threshold git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3406 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 03999711eafb81748a82b5725482a9f0d4307861
2018-04-27persistence_graphical_tools documentation clarificationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3405 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 5b38ba745e20585c35263e2880b8511299e11129
2018-04-27Code and doc review with IFPEN :vrouvrea
plot_*: c'est quoi ce paramètre alpha ? band_boot: Renommer en 'band', sans référence au bootstrap. Ne pas l'utiliser dans la majorité des exemples / tutos. max_plots: mettre une valeur par défaut, pour éviter qu'on se retrouve trop facilement coincé à attendre 1h qu'il affiche des points. Éventuellement afficher un message indiquant que certains points n'ont pas été affichés et comment changer ça. barcode: trier les barres par date de naissance (le faire tout le temps ou avoir une option et le faire par défaut). git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3404 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: cfa775e425fbf12da1758d601ccbd80a2c7d3bc9
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