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author | ROUVREAU Vincent <vincent.rouvreau@inria.fr> | 2020-04-03 09:49:54 +0200 |
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committer | ROUVREAU Vincent <vincent.rouvreau@inria.fr> | 2020-04-03 09:49:54 +0200 |
commit | 6e6b8c78350d1d8352242512ce537327934276cb (patch) | |
tree | f3141e5a60e44523f1adced07d9e8d1d9b6ed49e /src/Collapse/test | |
parent | 2098ccbe58c3b28fae24e466c8ea06b529b27b89 (diff) |
Add doc and start tests
Diffstat (limited to 'src/Collapse/test')
-rw-r--r-- | src/Collapse/test/CMakeLists.txt | 9 | ||||
-rw-r--r-- | src/Collapse/test/collapse_unit_test.cpp | 94 |
2 files changed, 103 insertions, 0 deletions
diff --git a/src/Collapse/test/CMakeLists.txt b/src/Collapse/test/CMakeLists.txt new file mode 100644 index 00000000..c7eafb46 --- /dev/null +++ b/src/Collapse/test/CMakeLists.txt @@ -0,0 +1,9 @@ +project(Collapse_tests) + +include(GUDHI_boost_test) + +add_executable ( Collapse_test_unit collapse_unit_test.cpp ) +if (TBB_FOUND) + target_link_libraries(Collapse_test_unit ${TBB_LIBRARIES}) +endif() +gudhi_add_boost_test(Collapse_test_unit) diff --git a/src/Collapse/test/collapse_unit_test.cpp b/src/Collapse/test/collapse_unit_test.cpp new file mode 100644 index 00000000..c2f08e57 --- /dev/null +++ b/src/Collapse/test/collapse_unit_test.cpp @@ -0,0 +1,94 @@ +/* This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT. + * See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details. + * Author(s): Vincent Rouvreau + * + * Copyright (C) 2020 Inria + * + * Modification(s): + * - YYYY/MM Author: Description of the modification + */ + +#include <iostream> +#include <fstream> +#include <string> +#include <algorithm> +#include <utility> // std::pair, std::make_pair +#include <cmath> // float comparison +#include <limits> +#include <functional> // greater +#include <tuple> // std::tie + +#define BOOST_TEST_DYN_LINK +#define BOOST_TEST_MODULE "collapse" +#include <boost/test/unit_test.hpp> +#include <boost/mpl/list.hpp> + +// ^ +// /!\ Nothing else from Simplex_tree shall be included to test includes are well defined. +#include "gudhi/FlagComplexSpMatrix.h" +#include "gudhi/Rips_edge_list.h" + +using namespace Gudhi; + +// Types definition +using Vector_of_points = std::vector<std::vector<double>>; + +using Simplex_tree = Gudhi::Simplex_tree<Gudhi::Simplex_tree_options_fast_persistence>; +using Filtration_value = double; +using Rips_complex = Gudhi::rips_complex::Rips_complex<Filtration_value>; +using Rips_edge_list = Gudhi::rips_edge_list::Rips_edge_list<Filtration_value>; +using Field_Zp = Gudhi::persistent_cohomology::Field_Zp; +using Persistent_cohomology = Gudhi::persistent_cohomology::Persistent_cohomology<Simplex_tree, Field_Zp>; +using Distance_matrix = std::vector<std::vector<Filtration_value>>; + + +BOOST_AUTO_TEST_CASE(collapse) { + typedef size_t Vertex_handle; + typedef std::vector<std::tuple<Filtration_value, Vertex_handle, Vertex_handle>> Filtered_sorted_edge_list; + + std::size_t number_of_points; + std::string off_file_points; + std::string filediag; + int dim_max; + int p; + double min_persistence; + + Map map_empty; + + Distance_matrix sparse_distances; + + + Vector_of_points point_vector {{0., 0.},{0., 1.},{1., 0.},{1., 1.}}; + + int dimension = point_vector[0].dimension(); + number_of_points = point_vector.size(); + std::cout << "Successfully read " << number_of_points << " point_vector.\n"; + std::cout << "Ambient dimension is " << dimension << ".\n"; + + std::cout << "Point Set Generated." << std::endl; + + double threshold = 1.; + Filtered_sorted_edge_list edge_t; + std::cout << "Computing the one-skeleton for threshold: " << threshold << std::endl; + + Rips_edge_list Rips_edge_list_from_file(point_vector, threshold, Gudhi::Euclidean_distance()); + Rips_edge_list_from_file.create_edges(edge_t); + + std::cout << "Sorted edge list computed" << std::endl; + std::cout << "Total number of edges before collapse are: " << edge_t.size() << std::endl; + + if (edge_t.size() <= 0) { + std::cerr << "Total number of egdes are zero." << std::endl; + exit(-1); + } + + // Now we will perform filtered edge collapse to sparsify the edge list edge_t. + std::cout << "Filtered edge collapse begins" << std::endl; + FlagComplexSpMatrix mat_filt_edge_coll(number_of_points, edge_t); + std::cout << "Matrix instansiated" << std::endl; + Filtered_sorted_edge_list collapse_edges; + collapse_edges = mat_filt_edge_coll.filtered_edge_collapse(); + +} + + |