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2017-10-05Doc review : prune_above_filtration about automatic_dimension_set mechanism ↵vrouvrea
was too strict. git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2760 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: bccef80ba3f70f87dff28cfa3a85c50f072f695e
2017-10-05Merge the branch graph_expansion_with_blocker_oracle for the Simplex_treevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2759 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: fa4cf79042f8e9b162617a5a571e06a3feb4c191
2017-10-05Doc review : fix find_child explanationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/graph_expansion_with_blocker_oracle@2758 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 30759214110b29a525cbbf2d97ff84b92b4eace2
2017-10-02Fix weighted periodic alpa complex 3d example testvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/weighted_alpha_complex_fix@2748 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ddf754a1f8046c7b17db89668cf8d4dd95f69dac
2017-10-02remove test_cgalvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/weighted_alpha_complex_fix@2747 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9b036eb3ccef79e012eacb045a0dda37db1de994
2017-10-02Fix weighted periodicvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/weighted_alpha_complex_fix@2746 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: bf90bfffbc00efe5f391e45ac8ece6ff6e9d57ea
2017-10-02Fix weighted_alpha_complex_3d_persistence to work with CGAL 4.11 (2 cpp and ↵vrouvrea
cmake compiles the correct one) Homogeneize alpha_complex_3d* codes Fix weighted_periodic_alpha_complex_3d_persistence with CGAL doc help Add grid off file with weights to test weighted_periodic_alpha_complex_3d_persistence git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/weighted_alpha_complex_fix@2744 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ecc4f3629e75bd986ffd22ec348f0412163e4dbd
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
2017-09-29Gudhi version 2.0.1vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2734 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3ce829b94a61b9649b663ee85bc68b74f75eb59e
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
2017-09-29Rename a few functions in Kd_tree_searchcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2730 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f009977d25c76cc0f6116093a448fab258c8626b
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
2017-09-27Merge last trunk modificationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_remove_useless_global_filtration@2720 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 37cec1ea1e06c9e9656962614fcddc0fa022c5d0
2017-09-27Replace INFINITY with std::numeric_limits<Filtration_value>::infinity()vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_remove_useless_global_filtration@2719 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b24d3381da60cd634142e3024d5f5ed53294f8e8
2017-09-26adding a version of periodic weighted alpha shape (that unfortunatelly do ↵pdlotko
not work yet...) git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/weighted_alpha_complex_fix@2718 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 611967b7fc8257fb2ae27ecc42f0e303c183755a
2017-09-26Doc review : Simplex tree remove maximal simplex is an implementatino detail ↵vrouvrea
that is not needed by the developper git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/graph_expansion_with_blocker_oracle@2717 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d096485bf30e50c804cf349f040f57764770136f
2017-09-26Merge weighted alpha complex fix branchvrouvrea
Add some text to 3d alpha complexes in the usage function git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2716 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6f2ee1897438a6bf75b484c2c625c43f2571ab41
2017-09-26Gudhi 2.0.1-rc2 versionvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2715 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 76499766ca670017df0c963c3b5a49c343eb1a47
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
2017-09-25Fix weighted alpha complex 3dvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/weighted_alpha_complex_fix@2709 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3e7d1f73038d193b566e790a3095b6f802c48b48
2017-09-22Remove global filtration attribute of te simplex tree (including getter and ↵vrouvrea
setter) git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_remove_useless_global_filtration@2705 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: a6c179ae47e61d1ca12d1f54c4ae1fc0e3c1fde2
2017-09-22Remove automatic_dimension_set call from remove and prune functionsvrouvrea
Make it public to be available Modify tests accordingly git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2703 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2ff42d5327ae76b121390a913c4e548d6f59ea99
2017-09-21Remove set_dimension from examplesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2698 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: cde0919e6bb53ad8ace21f1c6894708468449276
2017-09-21Add some comments for readabilityvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2697 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 986cc3b862ceca993a6fdd8cdee6da2c1ed4cc14
2017-09-20Roll back simplex tree set_filtration modification (assign_filtration ↵vrouvrea
asserts in debug) and modify test git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2694 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d08cc4b4f310784975b81d10b7ebd78063c42378
2017-09-20Separate and improve simplex tree iostream operators to test automatic ↵vrouvrea
dimension set on iostream operators git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2693 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: dafd077f3ed20eafaccdb27d56e02b3d9e5c44a7
2017-09-20Add tests limitsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2690 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: fc3e0cb28170f49a598d50fc7e32ac2d9d191447
2017-09-20Merge modifications for simplex_tree automatic dimension setvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_automatic_dimension_set@2689 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c18c6316d51f476a795b59c8b870db1aaf0b4591
2017-09-19Fix memory leakvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/python_memory_leak_fix@2686 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: a8fd65accb5be293e9d3f5fe411225745cb76b0b
2017-09-19git-svn-id: ↵mcarrier
svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Nerve_GIC@2685 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 67dbe745f209891bd76978382bf114f63e3a1c83
2017-09-18git-svn-id: ↵mcarrier
svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Nerve_GIC@2683 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: cacaa8d543cb35bfd709092262809deb102230d5
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
2017-09-18Add a function to launch py.test as required for no cache files in sourcesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2678 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 92ca1aabcbe276198fa29ea75f763fb0aa3c504f
2017-09-18Add warning for developper version that sphinx is configured for user versionvrouvrea
Removes GudhUI ERROR mesages (just warnings git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2677 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 0111272d9f6d6dc10e370360b2242eff4828611b
2017-09-13radius search => near searchcjamin
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/call_it_near_search@2669 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e77c8b7de12df9cf5d0a6ef8d79e4b14a28237b3
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
2017-09-12Bottleneck 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
2017-09-12Modification rollbackvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2665 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2f977f8b93c6104d2b7c8f16c13da974b36f1535
2017-09-12Add debug tracesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2664 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e4c572d98f4628e7f9b36fd9925ba7ce68e3cf81
2017-09-12Fix in Python3 if sphinx is not installedvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2663 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 0005d7fe2e7e8513a276543295c02351456595cc
2017-09-12Euclidean witness requires CGAL 4.6.0vrouvrea
Subsampling requires CGAL 4.8.1 All modules requiring CGAL requires also Eigen3 git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2662 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: df4c03882b8c5eb91f12939b460b3c9b85cbb870
2017-09-11Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/graph_expansion_with_blocker_oracle@2661 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2625074cdd2104ead455753c2f2fb8583be89478
2017-09-11Doc review: bad doc review fixvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/graph_expansion_with_blocker_oracle@2660 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: a024a1570e282c5ebd1c675d687372ee3dab0ed0
2017-09-11Doc review: rephrasevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/graph_expansion_with_blocker_oracle@2659 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b8a04218fa043e2bd273f77233d794e2c9522060
2017-09-11Code review: remove reference and explicit type (instead of auto)vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/graph_expansion_with_blocker_oracle@2658 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 3ba33efc13a3a650f2c2d20bb803aca3b475603a
2017-09-11Code review: constify find_child and for instead of while loopvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/graph_expansion_with_blocker_oracle@2657 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e136c1a8b6d5bbc213383f1e6a2e00a875424ad1
2017-09-11remove debug tracesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2656 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 4ea039d0564268458ca64950113fbffdc86c10b3
2017-09-11Add comment for the dependencyvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cythonization_improvement@2655 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: ab03b16bc884fe3291e3308e4a975b7c6232a861
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
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