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2018-07-02Fix unitary tests after trunk mergevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_nerve_gic_vincent@3658 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 13570cb36f31c353cd8fa58f5b66ac0a00bb0eec
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
2018-06-14css for https version of the website must be in a valid https locationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3616 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6a85178a0299c744e26b7a98e92c515d9a721039
2018-06-14New website header to facilitate releasesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3614 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: aca53e98d8dbfcdde96df5be045acc012ba8608f
2018-06-13Rollback these commit (was just for beta version documentation website)vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3602 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c0182e445f444bbf1add347dac217322262db033
2018-06-13Fix cppcheck issuesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3601 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 44cc04b1609d3b3d40382fd02d4fe15e5ba0159f
2018-06-06Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3544 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 52665a1261ca785f1afe641c483bd65d28045f62
2018-06-06Fix sphinx warning and issues due to new version of sphinxvrouvrea
Modify the doc for persistence diagram git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3543 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3efbc052bce9a11a6b4a758f8229e91eece2a7f4
2018-06-05Add new layout for documentation website for Doxygen (C++) and sphinx (Python)vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3539 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2dc9edea317426fad7a7d99d849145845eb75bb9
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
2018-05-30Add install requires matplotlib and numpy in setup.pyvrouvrea
Add Python test fail explanation git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3494 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1bac18228a22ea718bb8c77d38efdf84f9b228eb
2018-05-22Add CMake 3.1 in installation requirements.vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3450 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: bae61cf108841dae3ff1be5953eb9f87f1713e41
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
2018-04-27Code 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
2018-04-24Fix Python tangential complex versionvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_2.1.0_fix_vincent@3392 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f0d9e008229a6cd7868f4afd11eaf3c566e81adf
2018-04-04Merge sparse rips branch in trunkvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3336 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 01dcab006197637ccba9c29f8990375fe05ad7b4
2018-04-03Add warnings for rips persistence from correlation matrix (points under the ↵vrouvrea
diagonal). Use range instead of vector in write_persistence_intervals_to_stream git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/rips_complex_from_correlation_matrix@3326 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ea0fdc32c91f1927c5a9f2a3864360895ce8128a
2018-03-20Finish the documentation and examplesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_nerve_gic_vincent@3299 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d60f4db274962c1c6aaef3c4ab6787bda8c0640f
2018-03-19Add nerve_gic voronoi partvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_nerve_gic_vincent@3298 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c1cada23c1c492692df8e6764ed5371b494ccea8
2018-03-19Documentation for Nerve_gicvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_nerve_gic_vincent@3297 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3e80b2592386707ac760d0f7cd4bce9d2e9fd7e6
2018-02-02Merge last trunk modificatvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/rips_complex_from_correlation_matrix@3212 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ea6296547b67ad82f5983d4309493e9131da7dd0
2018-02-02Fix after version release of Cover complex and Persistence representation ↵vrouvrea
installations Fix utils download link git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3211 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9596df8b0d0cdc3d8df79aa367a26b34a96d7f5e
2018-01-31Modify header (cpp and python) to fit with the new website sectionsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3192 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1dc2f0745020db4a27649c55dc1d01397b0a403c
2018-01-26Add doc Copyright for Python partvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3168 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: fccabadc27b805caecaab99517df80fab1113d73
2017-12-19Boost minimal version is 1.48.0 (modification rollback) - if boost_version ↵vrouvrea
use static_vector (from Boost 1.54.0) git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3090 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 487d902c645793f2647191a0d8f9218184fa19de
2017-12-18Boost minimal version is now 1.56.0vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3081 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c3f409eb75ecb7a7f08735a99549c15662b7e5fe
2017-12-09Doc review: bad example link for euclidean strong witness Python examplevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3063 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 16af7cb7d034eb3ca17ecd037f97e6d4d44e3d54
2017-12-08File formats for iso cuboid and perseus in the Python versionvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@3057 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6eb0a025d8549320e03727ce491563b2a941c82d
2017-11-17Homogenize shebang for Python scripts used as executablesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2903 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 904aff059b880e4e197fd81c46160d53b5794998
2017-11-09Merge last trunk modificationsvrouvrea
Comment some bad code Try to cythonize rips from correlation matrix git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/rips_complex_from_correlation_matrix@2858 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3b9bcdfdeae247ed5486e20cb62f2812fdd14b0d
2017-10-01Euclidean Witness examples requires CGAL >= 4.8.1 because it is using ↵vrouvrea
subsampling (CMake and install doc) Bad link to Gudhi bibtex git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2741 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 8c1b84a4030029ec7d1470c49662e15836cf02de
2017-09-29Build doc issuevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2736 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 438179e355d47083f9db2c237d7ceb132c7b0168
2017-09-29Doc issue fixvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2733 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ea0323fed1ca42ecee50d6fbf9db9fbfb3e64cc9
2017-09-28Fix some doc issuevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/rips_complex_from_correlation_matrix@2728 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9a9745d18a37b53618aa3054114f26a8bdbc0009
2017-09-28Remove python rips_complex construction from files as it can lead to errors ↵vrouvrea
with correlation matrix Add examples for doxygen Cythonization of rips correlation matrix git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/rips_complex_from_correlation_matrix@2727 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 8aae33839fa27f9d26897e625904671b2c05e0e7
2017-09-25Do not advertise nor use the exact bottleneck distance versionvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2711 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e441b042d15bfbe727789803ca17b17711a48d9c
2017-09-18Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2679 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e4d0575f2279f2541329644c177c05c40614b761
2017-09-12Fix sphinx build for python3 on Ubuntuvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2667 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c720b8be2919344e06f3d71cefdd7693439f63f0
2017-09-07Fix doc for user_versionvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2650 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 18aebd67968fd48ccfcfcfbff75c614496f4424e
2017-09-07Python documentation is now built from sources to the build directory.vrouvrea
Missing bibtex and images to be "as before" git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2649 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 0deda91875e34ce534c88a601cfb167d9c7dfa01
2017-08-25bug in Python SimplexTree (needs string)vrouvrea
Doc issue in alpha_complex user doc git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2629 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ab35f6f64af33414002d6899275170f781e9cfa8
2017-08-22Version files modification for new releasevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2616 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 8296050aef9e6658cd98080075f4047487e21b68
2017-08-18Fix sphinx bug when python3 is not in /usr/binvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/persistence_diagram_improvement@2613 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 07f67d4cc1f3b558b191115e0979ce3ce0580206
2017-08-18Add display function in file format docvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/persistence_diagram_improvement@2612 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b51ffdf8f7be07c6745ca2b6501c51a350deffd2
2017-08-17Add file formats for Python.vrouvrea
Binding for persistence write files Launch py.test with the command "python -m pytest" (shall work everywhere) git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/persistence_diagram_improvement@2611 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9443a7eb5b580ece7708ff57949ad08339c1c5c3
2017-08-09Merge last trunk modificationsvrouvrea
persistence file reader Python interface persistence_graphical_tools improvement (max_plots and max_barcodes, and from a persistence file) git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/persistence_diagram_improvement@2604 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: db80333d4f34151be0c32024af597d90d221a97f
2017-07-06Plot functions now returns a plot that can be modified before to be shownvrouvrea
Add confidence band in plot_persistence_diagram Cythonization of read_lower_triangular_matrix_from_csv_file and read_persistence_intervals functions Add Python tests of read functions git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/persistence_diagram_improvement@2590 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 522ec31e9ad3a9a688875612d246114704b8c74e
2017-07-04Add Gudhi namespace for reader_utilsvrouvrea
Add confidence band in persistence_graphical_tools.py Persistence_diagram returns a plot that is no more showed. git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/persistence_diagram_improvement@2582 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 4125f4f525057e89c8b0d5d164ea0b9d1df1bd72
2017-05-09Doc issuevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2407 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 59aa4cbeef583b93f5e0e4416a4cd2903643d8f0
2017-05-02typosglisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2392 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6f20690dcf711382a244eef6ce6eccab76315710
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