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2017-10-04Fix some CMakeLists.txt filescjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/add_utils_in_gudhi_v2@2753 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f895fab289a0c508ded97fcc5d9c8f5dd3670224
2017-10-04Document utilies in README files using Markdown + move/rename some utilitiescjamin
Only missing doc for now: Garland_heckbert git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/add_utils_in_gudhi_v2@2752 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 7ba0113762b6622130835dc9e372acfae29c2db8
2017-09-29Merge from trunkcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/add_utils_in_gudhi_v2@2732 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 7872aa224ee471c05e9213b81192d304254e608a
2017-09-27Fix some cpplintsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_remove_useless_global_filtration@2721 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 76b127e54d9511b70294ab48336ca6dbd6fdb1d6
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
2017-09-12Bottleneck does not require Eigen3 (C++ and Python)vrouvrea
Doc issue about examples requiring Eigen3 git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2666 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 5e127d4e8137a44ee3bd688c32653acfb4a55007
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
2017-06-28Merge of branch boost_system_no_deprecated_test in order to :vrouvrea
- remove boost_system library dependency - repair conda package compilation issues found - Use Gudhi::Clock instead of boost::date_time library git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2565 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d68764ab186bd44f2b2253ba21ad1c0e09584455
2017-06-13This should never have been commented outcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2540 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 5e5fc971986908e5b9383130704536686e1b66ea
2017-06-09Missing "return"cjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2532 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 8905e0d3406cbe26615b83ab7056e7fd5bd8ed0e
2017-06-09Change names and adapt examplecjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2531 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 833a51dd03ddccca38c6011834bb58667d63ccbf
2017-06-02Get rid of Boost_system library linkvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/boost_system_no_deprecated_test@2509 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 52deba0f2212767b99b801810d356e55417225db
2017-05-31Move 1 example from Bottleneck_distance to utilitiescjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/add_utils_in_gudhi_v2@2493 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9ca00220e5c3c4e2d2ad9c3aa3b3a54ed320f223
2017-05-31Test bottleneck_read_file_examplecjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2490 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: dbbce2ac4862dfdd3c01a619bf68120112ab44d5
2017-05-31Merge from trunkcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2482 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 5487cc3f399d42f736ec008f40c4082d51e3f683
2017-05-30Clean-upcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2474 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9586b4987dad745fa60bca1a433349a2f78fa9bd
2017-05-30Remove debug codecjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2473 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 458dcfcf18b36f8dd0023dfe5af0d6083d1c7684
2017-05-30Make install examples mechanismvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cmake_modules_for_gudhi@2467 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 018b6e55c392b37d02503e7822e0a586061c987d
2017-05-29Add 2 new variants of read_persistence_diagram_from_filecjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2463 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: bd0dd2c981856c8e1a51b2b97ac10d9edd59f694
2017-05-23read_persistence_diagram_from_file now uses an output iteratorcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2455 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3969666dcde3581a75789c5a4b62817dea553f9f
2017-05-19Remove DEBUG_TRACEScjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2446 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2290435a73db6bea9297fa79e10f7e36be10a43e
2017-05-16Use read_persistence_diagram_from_file in this examplecjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/read_persistence_from_file@2440 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: cb5cbba3f968c6cd16025250076bbe1df4f2e11a
2017-05-09Fix Windows python module compilationvrouvrea
rips_complex_diagram_persistence_from_distance_matrix_file_example.py shall use csv_file instead of off_file git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2409 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b73613ce923e4bb72f5eae110cf290dc2215994d
2017-04-19Rename tests and examples to be consistent with the naming rulesvrouvrea
xml test results is now generated out of source git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/add_test_windows@2364 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ae2dd1592b63f4e7da5e17655761697b6daf7dd0
2017-04-12Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2334 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9461830172c72a205520ae197656c480b1cfcaaf
2017-04-11Move Euclidean_distance in Gudhi namespacevrouvrea
Fix cpplints git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2331 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: bc5609c2df490db50e82b56a5e6d899dc6370182
2017-04-05Use an unordered_set for unmatched_in_u instead of an open-coded flat_set.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2312 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 37137a43f781e4646c4149d9528a6a95e1c642be
2017-04-05In Kd_tree::remove, test the point index instead of the coordinates.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2311 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e8d50867d77eea455c34dc5a89ed9e0f45fbeeb7
2017-03-29Declare the Kd_tree directly.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2282 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c017cc9368a167fe99b5004636bcbe8734266d3a
2017-03-28Longer commentsglisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2270 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: fa5f87490ae2b94cbe6b4789001b0075f8a4726a
2017-03-28Different strategies to remove points from unmatched_in_u.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2266 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 5ff3d02d50ed3f1be537070d2c840f7ba4c6b433
2017-03-28Replace list with vector, save 30% of the running time...glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2265 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 92ba2895af0715166924abdc1600f20665c76af4
2017-03-28Replace some lists with vectors.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2261 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 05dc215157f2a91c0d2150def3392e54af58ad21
2017-03-27Avoid copying Persistence_graph at the same time as Graph_matching.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2255 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c3e494295aabd3647bf37e69f18c8537c5f04910
2017-03-27Use any neighbor near enough, not necessarily the closest.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck-glisse@2254 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2b6776b10bbf565799a16472da4c35c72e63bb9c
2017-03-24Workaround for CGAL version 4.8 compilation issuevrouvrea
New target CGAL_WITH_EIGEN3_VERSION set with CGAL_VERSION when CGAL and Eigen3 found to ease CMakeLists.txt git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cgal_4.8_issue@2241 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2fbf1f9397aa1549ba05aa26ac6852b882dce147
2017-03-24cpplint fixesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2232 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ac02d5dd3b2aedd4795f775c228fe5ef7e1b3320
2017-03-24Fix cpplint on cython interfacesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2229 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 41a958b1be51ac938b45b384cde7940a85e9dea0
2017-03-07Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/gudhi_doc_2.0.0@2175 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b9b7b4ead23265e8d94ff2fdbae1df2a0d675c92
2017-03-03Add GPL copyrights on images directoriesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/gudhi_doc_2.0.0@2142 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d6bdcfdefb00263199b22fcc39cdb8826f8f3dbe
2017-03-03Link with TBBcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/botteleneck-parallel-sort@2141 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 80325216eace3cb1dbadbde3f4e5a3985b8feab0
2017-03-02Use parallel_sort to sort distancescjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/botteleneck-parallel-sort@2134 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b3a43683ab1d452845138605488a845a4b694432
2017-01-26Merge bottleneck-doc-glisse dev in trunkvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2012 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 52eadba00ed5f4e072dbee58de00b0f68b1f0cfb
2017-01-24Add Alpha Rips persistence bottleneck distance example and its test in cmakevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck_misc_fixes@1996 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 30c7f3c253730ea8384ae143a629e9b22ef6d507
2017-01-24Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck_misc_fixes@1994 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9f0adf9d7d1be7f0cb85f1ff2d0e41295d6e9ae0
2017-01-24Remove utils for bottleneckvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck_misc_fixes@1993 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2bcefc9c6c59f7fae41306c7dfd844942ad5ccff
2017-01-24Moved from utils to examplevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck_misc_fixes@1992 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: efa6dbfb45341eae13cd0cc3b050e45174596cab
2017-01-24Last modificationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck_misc_fixes@1991 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1e7e28db5a3f79ba5f65f4a3c025d23703638362
2017-01-24Bottleneck does not require Eigen3vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1990 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b04a823f288760750f9146c7b88211c56f4d4f22
2017-01-23Add an util to compute bottleneck distance between the alpha and a ripsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bottleneck_misc_fixes@1984 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d036fa6129f4ee326335787ed2968f505c5bb276
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