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2016-04-08Merge of alpha complex feature from trunkvrouvrea
Add Eigen3 in installation Add alpha complex in introduction All examples directory moved to example (was example/common, example/Alpha_complex) git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1110 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 0b88a4f2b102e2189f4b916b8358ffb2458a72f0
2016-04-08Modification on CMakeLists.txt for code coverage were not propagated on ↵vrouvrea
these 2 test files git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1109 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 8dc143d808040f903ac9c5e0b967fcf3fc4c9ba4
2016-04-08Merge last trunk developmentvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1107 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: a8fcecf0beb0517a1da01c57d2e1c2e32a2aba89
2016-04-08GUDHIConfig.cmake fixvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1106 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 79bac32f28985e759f0e3c04a470e29325ecd64f
2016-04-07get_point_cloud can be constvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1105 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c9b905e8f01c671964b4151883a6385e47adaa06
2016-04-07Fix Doxygen warningvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1104 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c5873a4a207f01e20729d3ce964ae67f6cf55331
2016-04-07Remove insertion check for duplicate points case.vrouvrea
Cpplint fixes git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1103 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 7ee7cf0ca7085966039d048199c35b6adf945aa2
2016-04-06Marc review fixvrouvrea
cpplint/cppcheck fix git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1102 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f47277da05debb56dd9a4a96bf89ec7b3ffa2e27
2016-04-06GUDHIConfig.cmake fixvrouvrea
Modules were missing in src/CMakeLists.txt generate_version.sh must copy GUDHIConfig.cmake and not GUDHIConfig.cmake.in nor CMakeGUDHIVersion.txt git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1100 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2b618b7a395017cb1bde8a9a7afd7c9e54c29710
2016-04-06CGAL version requires 4.7 to access CGAL Point_d dimension() functionvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1099 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: fe6bb4958f7d98427fb705b7c02b64bddb7e190d
2016-04-06Replace Delaunay_triangulation_off_io.h and ↵vrouvrea
Delaunay_triangulation_off_rw.cpp with Points_off_io.h and CGAL_points_off_reader.cpp Adapt UT and examples for this Adapt Alpha complex for it Alpha complex is now inserting points in a faster way (after a spatial_sort). Remove Alpha complex construction from a pointer on Delaunay triangulation (no more needed). Adapt documentation to all these modifications Forbid copy/move constructor/assignment operator on Alpha complex git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1098 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 08a673b66451b5cb03fbdf482d696d93b35d220f
2016-04-06Last modifvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1097 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d02c8b6bf27616ef515464a35e48b7871a69f9a8
2016-04-01cpplint/cppcheck fixesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1091 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1c274cd8c8a3c76fe35f96c7186bcbf3d8bee3e8
2016-04-01Rollback of class #include<gudhi/XXX.h>. Done from Doxyfile with ↵vrouvrea
STRIP_FROM_INC_PATH. Modified Gudhi banner to fix "Geometric Uderstanding" into "Geometry Uderstanding" git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1090 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c5830fb6f583118a5078254fde5d4a97210c10b7
2016-03-31Unset CGAL_FOUND if CGAL version is less than 4.4 to fix compilation issue ↵vrouvrea
with CGAL 4.2. Documentation says CGAL > 4.4 is recommended. git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1089 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: b20d01d56e080572b067898df94ebe2eebd5893d
2016-03-31Remove Upcoming page. Now available on Gudhi web sitevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1088 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 09edbd70b95b6bd60f1324faebda1e24533be9a9
2016-03-31Fix #include<gudhi/YYY.h> issue in generated documentationvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1087 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2b837671f261bb093f599f6c421a3cf21f52b423
2016-03-31Fix TBB issue in CMakevrouvrea
Add TBB in Doxygen git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1086 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e3d3251431193d21ebf9344c230d12df624cd905
2016-03-30Add cubical complex to main pagevrouvrea
Homogeneize the author/copyright sections of modules Exclude data and GudhUI from doxygen git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1085 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1b89161f3253553a02935885334b2fc6cf58055e
2016-03-30Merge TBB fix for cubical parallel sortvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1084 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 95e375a69590a620b34ca887d8194eeb402ebf5a
2016-03-30Cubical complex for new doxygen versionvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1083 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 77e7fa96f9ed2f2ccd9f65bb1f6b325737f863f5
2016-03-30Fix use of TBB parallel sort.vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1082 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 337109ed520bf0e5836ceb0dba11948b75cafae2
2016-03-30Merge of bitmap featurevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1081 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: c9a5b64ecfd667cdfbd8e8fa5532a9172c324973
2016-03-30cpplint/cppcheck fixesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1079 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 812004416560ad653025d02ea7ff05677ec5b3fc
2016-03-30cpplint/cppcheck fixesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1078 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 794e42d37fa8417489d92d6d67d05399225d6fcd
2016-03-30Fix cppcheck/cpplintvrouvrea
Add TBB for parallel sort git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1077 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 8d4692b14e59bf7a6556bc7f69dbdc18582d6c0d
2016-03-29Add include numeric for std::iotavrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1076 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6bb361c7ff62c5a8812db125cfd0375d64696504
2016-03-29Merge VR_bitmapvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1074 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 4c9ac225ffcfb924371c72fccc44cbd6ecb3d6e3
2016-03-24prune_above_filtration version that is no more using filtration vector.vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1073 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 95dca83fa459abd902624bf2a5f631925e4cf9b0
2016-03-23An alternative to prune_above_filtration in comment. Fix UT for alternativevrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1072 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1958a5ee06c339d8cd8cdaae92358d2fff445a7a
2016-03-23prune_above_filtration returns filtration vector modification information ↵vrouvrea
instead of calling initialize_filtration() git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1071 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 6fdc1797ac6e7b452abe150643f0ec9578c3bbab
2016-03-22GUDHI_CHECK was not intuitive.vrouvrea
Reverse GUDHI_CHECK calls. No exception when no point is given in contrction. git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1070 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: bf6a08d48b5b29a5b24bf5107116e399dfc0a6bc
2016-03-22Add a comment to say Alpha complex takes the ownership of the pointer on the ↵vrouvrea
Delaunay Triangulation. Add public typedef Delaunay_triangulation, Point_d and Geom_traits git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1067 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1137a9912ebac38a14d680921e62cd36e0068153
2016-03-22Delaunay triangulation is point dimension.vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1066 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 672164328b3b1ac104811fb2fd79a3771c92d60e
2016-03-21Add titles for Persistence diagramvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1065 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 27e728ca0b06af56ca9cb3824938f67f897a80ae
2016-03-21Merge of trunk Witness feature + add witness in package top listvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1064 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f5555f6096c5d3786d519679f118467303ac6172
2016-03-21Answers to comments.pdlotko
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1063 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 99cebe0573d75c98c8559ae4572b8f510e5cd9c0
2016-03-21fix #include "gudhi/Simplex_tree.h" in generated docvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/Doxygen_for_GUDHI_1.3.0@1062 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: f7d2fad28cb01ea0970b63d695f53ec9e65723c3
2016-03-20Merge from trunk.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1061 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: a9684c0981a81be9db4362e5bd6c8fb9590661ca
2016-03-20Quiet a signed/unsigned comparison warning.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1060 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: e7640912b59f8bb7357316e4a5cf3d75898dca21
2016-03-20answering Marc's commentspdlotko
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1059 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 2f0e6e894c0c48ffc80a0864f4a4992066fd2273
2016-03-20Clarify some details in the concept FilteredComplex.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1058 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 825978488684e4dcf5b4fc491e6c4467332dbd20
2016-03-20Let the witness code match its doc better.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@1057 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 99dc557a03f1ea85730ce286b80e384257ab2a77
2016-03-18Merge last trunk modificationsvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/witness@1055 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: de98d729fddbaa5c434e1facd8081940198c59f6
2016-03-18Fix cpplint/cppcheck issuesvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/witness@1054 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9f850be55ab0565a2004ba23f6a5098aa227a92a
2016-03-17Use post and exception doxygen tag instead of warnings everywhere.vrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1053 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 5e263835e662d66ef068c73d3efe71f72f90de10
2016-03-17Fix cpplint/cppcheckvrouvrea
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1052 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: d598999dec360fb4a80ca3e228128d889bfed3c7
2016-03-17Add in a comment an alternative version of prune_above_filtrationvrouvrea
Fix some cpplint/cppcheck defaults git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/alphashapes@1051 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9cfd8c7f7f9c82998a4c9d2d00f105ed16690208
2016-03-17Merge from trunk.glisse
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1050 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 1a32dd3528c771a78d5749ac2c04503a3d979fe4
2016-03-17cleanning up the stuff with iterators in Bitmap_cubical_complex_base.h class. pdlotko
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/bitmap@1049 636b058d-ea47-450e-bf9e-a15bfbe3eedb Former-commit-id: 9630d6df6a2ecdb51ab25150454a563cd928b09a
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