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-rw-r--r--cython/include/Reader_utils_interface.h56
-rw-r--r--cython/include/Rips_complex_interface.h6
-rw-r--r--cython/include/Simplex_tree_interface.h8
3 files changed, 65 insertions, 5 deletions
diff --git a/cython/include/Reader_utils_interface.h b/cython/include/Reader_utils_interface.h
new file mode 100644
index 00000000..8ec34f61
--- /dev/null
+++ b/cython/include/Reader_utils_interface.h
@@ -0,0 +1,56 @@
+/* This file is part of the Gudhi Library. The Gudhi library
+ * (Geometric Understanding in Higher Dimensions) is a generic C++
+ * library for computational topology.
+ *
+ * Author(s): Vincent Rouvreau
+ *
+ * Copyright (C) 2017 INRIA
+ *
+ * This program is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program. If not, see <http://www.gnu.org/licenses/>.
+ */
+
+#ifndef INCLUDE_READER_UTILS_INTERFACE_H_
+#define INCLUDE_READER_UTILS_INTERFACE_H_
+
+#include <gudhi/reader_utils.h>
+
+#include <iostream>
+#include <vector>
+#include <string>
+#include <map>
+#include <utility> // for pair<>
+
+namespace Gudhi {
+
+// Redefine functions with a different name in order the original name can be used in the Python version.
+std::vector<std::vector<double>> read_matrix_from_csv_file(const std::string& filename,
+ const char separator = ';') {
+ return read_lower_triangular_matrix_from_csv_file<double>(filename, separator);
+}
+
+inline std::map<int, std::vector<std::pair<double, double>>>
+ read_pers_intervals_grouped_by_dimension(std::string const& filename) {
+ return read_persistence_intervals_grouped_by_dimension(filename);
+}
+
+inline std::vector<std::pair<double, double>>
+ read_pers_intervals_in_dimension(std::string const& filename, int only_this_dim = -1) {
+ return read_persistence_intervals_in_dimension(filename, only_this_dim);
+}
+
+
+} // namespace Gudhi
+
+
+#endif // INCLUDE_READER_UTILS_INTERFACE_H_
diff --git a/cython/include/Rips_complex_interface.h b/cython/include/Rips_complex_interface.h
index 6d813f4a..02985727 100644
--- a/cython/include/Rips_complex_interface.h
+++ b/cython/include/Rips_complex_interface.h
@@ -66,11 +66,15 @@ class Rips_complex_interface {
} else {
// Rips construction where values is a distance matrix
Distance_matrix distances =
- read_lower_triangular_matrix_from_csv_file<Simplex_tree_interface<>::Filtration_value>(file_name);
+ Gudhi::read_lower_triangular_matrix_from_csv_file<Simplex_tree_interface<>::Filtration_value>(file_name);
rips_complex_ = new Rips_complex<Simplex_tree_interface<>::Filtration_value>(distances, threshold);
}
}
+ ~Rips_complex_interface() {
+ delete rips_complex_;
+ }
+
void create_simplex_tree(Simplex_tree_interface<>* simplex_tree, int dim_max) {
rips_complex_->create_complex(*simplex_tree, dim_max);
simplex_tree->initialize_filtration();
diff --git a/cython/include/Simplex_tree_interface.h b/cython/include/Simplex_tree_interface.h
index 45ce1916..09e7e992 100644
--- a/cython/include/Simplex_tree_interface.h
+++ b/cython/include/Simplex_tree_interface.h
@@ -70,14 +70,14 @@ class Simplex_tree_interface : public Simplex_tree<SimplexTreeOptions> {
}
// Do not interface this function, only used in strong witness interface for complex creation
- bool insert_simplex(const std::vector<std::size_t>& complex, Filtration_value filtration = 0) {
- Insertion_result result = Base::insert_simplex(complex, filtration);
+ bool insert_simplex(const std::vector<std::size_t>& simplex, Filtration_value filtration = 0) {
+ Insertion_result result = Base::insert_simplex(simplex, filtration);
return (result.second);
}
// Do not interface this function, only used in strong witness interface for complex creation
- bool insert_simplex_and_subfaces(const std::vector<std::size_t>& complex, Filtration_value filtration = 0) {
- Insertion_result result = Base::insert_simplex_and_subfaces(complex, filtration);
+ bool insert_simplex_and_subfaces(const std::vector<std::size_t>& simplex, Filtration_value filtration = 0) {
+ Insertion_result result = Base::insert_simplex_and_subfaces(simplex, filtration);
return (result.second);
}