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Diffstat (limited to 'src/Bottleneck/include/gudhi/Persistence_diagrams_graph.h')
-rw-r--r-- | src/Bottleneck/include/gudhi/Persistence_diagrams_graph.h | 147 |
1 files changed, 147 insertions, 0 deletions
diff --git a/src/Bottleneck/include/gudhi/Persistence_diagrams_graph.h b/src/Bottleneck/include/gudhi/Persistence_diagrams_graph.h new file mode 100644 index 00000000..7e278209 --- /dev/null +++ b/src/Bottleneck/include/gudhi/Persistence_diagrams_graph.h @@ -0,0 +1,147 @@ +/* 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): Francois Godi + * + * Copyright (C) 2015 INRIA Saclay (France) + * + * 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 SRC_BOTTLENECK_INCLUDE_GUDHI_PERSISTENCE_DIAGRAMS_GRAPH_H_ +#define SRC_BOTTLENECK_INCLUDE_GUDHI_PERSISTENCE_DIAGRAMS_GRAPH_H_ + +#include <vector> +#include <set> +#include <cmath> +#include <utility> // for pair<> +#include <algorithm> // for max + +namespace Gudhi { + +namespace bottleneck { + +// Diagram_point is the type of the persistence diagram's points +typedef typename std::pair<double, double> Diagram_point; + +// Return the used index for encoding none of the points +int null_point_index(); + +// Persistence_diagrams_graph is the interface beetwen any external representation of the two persistence diagrams and +// the bottleneck distance computation. An interface is necessary to ensure basic functions complexity. + +class Persistence_diagrams_graph { + public: + // Persistence_diagram1 and 2 are the types of any externals representations of persistence diagrams. + // They have to have an iterator over points, which have to have fields first (for birth) and second (for death). + template<typename Persistence_diagram1, typename Persistence_diagram2> + Persistence_diagrams_graph(Persistence_diagram1& diag1, Persistence_diagram2& diag2, double e = 0.); + Persistence_diagrams_graph(); + bool on_the_u_diagonal(int u_point_index) const; + bool on_the_v_diagonal(int v_point_index) const; + int corresponding_point_in_u(int v_point_index) const; + int corresponding_point_in_v(int u_point_index) const; + double distance(int u_point_index, int v_point_index) const; + int size() const; + std::vector<double>* sorted_distances(); + + private: + std::vector<Diagram_point> u; + std::vector<Diagram_point> v; + Diagram_point get_u_point(int u_point_index) const; + Diagram_point get_v_point(int v_point_index) const; +}; + +inline int null_point_index() { + return -1; +} + +template<typename Persistence_diagram1, typename Persistence_diagram2> +Persistence_diagrams_graph::Persistence_diagrams_graph(Persistence_diagram1& diag1, Persistence_diagram2& diag2, double e) + : u(), v() { + for (auto it = diag1.cbegin(); it != diag1.cend(); ++it) + if (it->second - it->first > e) + u.emplace_back(*it); + for (auto it = diag2.cbegin(); it != diag2.cend(); ++it) + if (it->second - it->first > e) + v.emplace_back(*it); + if (u.size() < v.size()) + swap(u, v); +} + +Persistence_diagrams_graph::Persistence_diagrams_graph::Persistence_diagrams_graph() + : u(), v() { } + +inline bool Persistence_diagrams_graph::on_the_u_diagonal(int u_point_index) const { + return u_point_index >= static_cast<int> (u.size()); +} + +inline bool Persistence_diagrams_graph::on_the_v_diagonal(int v_point_index) const { + return v_point_index >= static_cast<int> (v.size()); +} + +inline int Persistence_diagrams_graph::corresponding_point_in_u(int v_point_index) const { + return on_the_v_diagonal(v_point_index) ? + v_point_index - static_cast<int> (v.size()) : v_point_index + static_cast<int> (u.size()); +} + +inline int Persistence_diagrams_graph::corresponding_point_in_v(int u_point_index) const { + return on_the_u_diagonal(u_point_index) ? + u_point_index - static_cast<int> (u.size()) : u_point_index + static_cast<int> (v.size()); +} + +inline double Persistence_diagrams_graph::distance(int u_point_index, int v_point_index) const { + // could be optimized for the case where one point is the projection of the other + if (on_the_u_diagonal(u_point_index) && on_the_v_diagonal(v_point_index)) + return 0; + Diagram_point p_u = get_u_point(u_point_index); + Diagram_point p_v = get_v_point(v_point_index); + return std::max(std::fabs(p_u.first - p_v.first), std::fabs(p_u.second - p_v.second)); +} + +inline int Persistence_diagrams_graph::size() const { + return static_cast<int> (u.size() + v.size()); +} + +inline std::vector<double>* Persistence_diagrams_graph::sorted_distances() { + // could be optimized + std::set<double> sorted_distances; + for (int u_point_index = 0; u_point_index < size(); ++u_point_index) + for (int v_point_index = 0; v_point_index < size(); ++v_point_index) + sorted_distances.emplace(distance(u_point_index, v_point_index)); + return new std::vector<double>(sorted_distances.cbegin(), sorted_distances.cend()); +} + +inline Diagram_point Persistence_diagrams_graph::get_u_point(int u_point_index) const { + if (!on_the_u_diagonal(u_point_index)) + return u.at(u_point_index); + Diagram_point projector = v.at(corresponding_point_in_v(u_point_index)); + double x = (projector.first + projector.second) / 2; + return Diagram_point(x, x); +} + +inline Diagram_point Persistence_diagrams_graph::get_v_point(int v_point_index) const { + if (!on_the_v_diagonal(v_point_index)) + return v.at(v_point_index); + Diagram_point projector = u.at(corresponding_point_in_u(v_point_index)); + double x = (projector.first + projector.second) / 2; + return Diagram_point(x, x); +} + +} // namespace bottleneck + +} // namespace Gudhi + +#endif // SRC_BOTTLENECK_INCLUDE_GUDHI_PERSISTENCE_DIAGRAMS_GRAPH_H_ |