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#include <gudhi/Alpha_complex_3d.h>
#include <gudhi/Alpha_complex.h>
// to construct a simplex_tree from alpha complex
#include <gudhi/Simplex_tree.h>
#include <gudhi/random_point_generators.h>
#include <gudhi/Clock.h>
#include <iostream>
#include <string>
#include <vector>
#include <limits> // for numeric limits
#include <fstream>
#include <CGAL/Epick_d.h>
#include <CGAL/Epeck_d.h>
#include <CGAL/Random.h>
std::ofstream results_csv("results.csv");
template <typename Kernel>
void benchmark_points_on_torus_dD(const std::string& msg) {
std::cout << "+ " << msg << std::endl;
results_csv << "\"" << msg << "\";" << std::endl;
results_csv << "\"nb_points\";"
<< "\"nb_simplices\";"
<< "\"alpha_creation_time(sec.)\";"
<< "\"complex_creation_time(sec.)\";" << std::endl;
using K = CGAL::Epick_d<CGAL::Dimension_tag<3>>;
for (int nb_points = 1000; nb_points <= 125000; nb_points *= 5) {
std::cout << " Alpha complex dD on torus with " << nb_points << " points." << std::endl;
std::vector<K::Point_d> points_on_torus = Gudhi::generate_points_on_torus_3D<K>(nb_points, 1.0, 0.5);
std::vector<typename Kernel::Point_d> points;
for (auto p : points_on_torus) {
points.push_back(typename Kernel::Point_d(p.begin(), p.end()));
}
Gudhi::Clock ac_create_clock(" benchmark_points_on_torus_dD - Alpha complex 3d creation");
ac_create_clock.begin();
Gudhi::alpha_complex::Alpha_complex<Kernel> alpha_complex_from_points(points);
ac_create_clock.end();
std::cout << ac_create_clock;
Gudhi::Simplex_tree<> complex;
Gudhi::Clock st_create_clock(" benchmark_points_on_torus_dD - complex creation");
st_create_clock.begin();
alpha_complex_from_points.create_complex(complex);
st_create_clock.end();
std::cout << st_create_clock;
results_csv << nb_points << ";" << complex.num_simplices() << ";" << ac_create_clock.num_seconds() << ";"
<< st_create_clock.num_seconds() << ";" << std::endl;
std::cout << " benchmark_points_on_torus_dD - nb simplices = " << complex.num_simplices() << std::endl;
}
}
template <typename Alpha_complex_3d>
void benchmark_points_on_torus_3D(const std::string& msg) {
using K = CGAL::Epick_d<CGAL::Dimension_tag<3>>;
std::cout << "+ " << msg << std::endl;
results_csv << "\"" << msg << "\";" << std::endl;
results_csv << "\"nb_points\";"
<< "\"nb_simplices\";"
<< "\"alpha_creation_time(sec.)\";"
<< "\"complex_creation_time(sec.)\";" << std::endl;
for (int nb_points = 1000; nb_points <= 125000; nb_points *= 5) {
std::cout << " Alpha complex 3d on torus with " << nb_points << " points." << std::endl;
std::vector<K::Point_d> points_on_torus = Gudhi::generate_points_on_torus_3D<K>(nb_points, 1.0, 0.5);
std::vector<typename Alpha_complex_3d::Point_3> points;
for (auto p : points_on_torus) {
points.push_back(typename Alpha_complex_3d::Point_3(p[0], p[1], p[2]));
}
Gudhi::Clock ac_create_clock(" benchmark_points_on_torus_3D - Alpha complex 3d creation");
ac_create_clock.begin();
Alpha_complex_3d alpha_complex_from_points(points);
ac_create_clock.end();
std::cout << ac_create_clock;
Gudhi::Simplex_tree<> complex;
Gudhi::Clock st_create_clock(" benchmark_points_on_torus_3D - complex creation");
st_create_clock.begin();
alpha_complex_from_points.create_complex(complex);
st_create_clock.end();
std::cout << st_create_clock;
results_csv << nb_points << ";" << complex.num_simplices() << ";" << ac_create_clock.num_seconds() << ";"
<< st_create_clock.num_seconds() << ";" << std::endl;
std::cout << " benchmark_points_on_torus_3D - nb simplices = " << complex.num_simplices() << std::endl;
}
}
template <typename Weighted_alpha_complex_3d>
void benchmark_weighted_points_on_torus_3D(const std::string& msg) {
using K = CGAL::Epick_d<CGAL::Dimension_tag<3>>;
std::cout << "+ " << msg << std::endl;
results_csv << "\"" << msg << "\";" << std::endl;
results_csv << "\"nb_points\";"
<< "\"nb_simplices\";"
<< "\"alpha_creation_time(sec.)\";"
<< "\"complex_creation_time(sec.)\";" << std::endl;
CGAL::Random random(8);
for (int nb_points = 1000; nb_points <= 125000; nb_points *= 5) {
std::cout << " Alpha complex 3d on torus with " << nb_points << " points." << std::endl;
std::vector<K::Point_d> points_on_torus = Gudhi::generate_points_on_torus_3D<K>(nb_points, 1.0, 0.5);
using Point = typename Weighted_alpha_complex_3d::Bare_point_3;
using Weighted_point = typename Weighted_alpha_complex_3d::Weighted_point_3;
std::vector<Weighted_point> points;
for (auto p : points_on_torus) {
points.push_back(Weighted_point(Point(p[0], p[1], p[2]), 0.9 + random.get_double(0., 0.01)));
}
Gudhi::Clock ac_create_clock(" benchmark_weighted_points_on_torus_3D - Alpha complex 3d creation");
ac_create_clock.begin();
Weighted_alpha_complex_3d alpha_complex_from_points(points);
ac_create_clock.end();
std::cout << ac_create_clock;
Gudhi::Simplex_tree<> complex;
Gudhi::Clock st_create_clock(" benchmark_weighted_points_on_torus_3D - complex creation");
st_create_clock.begin();
alpha_complex_from_points.create_complex(complex);
st_create_clock.end();
std::cout << st_create_clock;
results_csv << nb_points << ";" << complex.num_simplices() << ";" << ac_create_clock.num_seconds() << ";"
<< st_create_clock.num_seconds() << ";" << std::endl;
std::cout << " benchmark_weighted_points_on_torus_3D - nb simplices = " << complex.num_simplices() << std::endl;
}
}
template <typename Periodic_alpha_complex_3d>
void benchmark_periodic_points(const std::string& msg) {
std::cout << "+ " << msg << std::endl;
results_csv << "\"" << msg << "\";" << std::endl;
results_csv << "\"nb_points\";"
<< "\"nb_simplices\";"
<< "\"alpha_creation_time(sec.)\";"
<< "\"complex_creation_time(sec.)\";" << std::endl;
CGAL::Random random(8);
for (double nb_points = 10.; nb_points <= 40.; nb_points += 10.) {
std::cout << " Periodic alpha complex 3d with " << nb_points * nb_points * nb_points << " points." << std::endl;
using Point = typename Periodic_alpha_complex_3d::Point_3;
std::vector<Point> points;
for (double i = 0; i < nb_points; i++) {
for (double j = 0; j < nb_points; j++) {
for (double k = 0; k < nb_points; k++) {
points.push_back(
Point(i + random.get_double(0., 0.1), j + random.get_double(0., 0.1), k + random.get_double(0., 0.1)));
}
}
}
Gudhi::Clock ac_create_clock(" benchmark_periodic_points - Alpha complex 3d creation");
ac_create_clock.begin();
Periodic_alpha_complex_3d alpha_complex_from_points(points, 0., 0., 0., nb_points, nb_points, nb_points);
ac_create_clock.end();
std::cout << ac_create_clock;
Gudhi::Simplex_tree<> complex;
Gudhi::Clock st_create_clock(" benchmark_periodic_points - complex creation");
st_create_clock.begin();
alpha_complex_from_points.create_complex(complex);
st_create_clock.end();
std::cout << st_create_clock;
results_csv << nb_points * nb_points * nb_points << ";" << complex.num_simplices() << ";"
<< ac_create_clock.num_seconds() << ";" << st_create_clock.num_seconds() << ";" << std::endl;
std::cout << " benchmark_periodic_points - nb simplices = " << complex.num_simplices() << std::endl;
}
}
template <typename Weighted_periodic_alpha_complex_3d>
void benchmark_weighted_periodic_points(const std::string& msg) {
std::cout << "+ " << msg << std::endl;
results_csv << "\"" << msg << "\";" << std::endl;
results_csv << "\"nb_points\";"
<< "\"nb_simplices\";"
<< "\"alpha_creation_time(sec.)\";"
<< "\"complex_creation_time(sec.)\";" << std::endl;
CGAL::Random random(8);
for (double nb_points = 10.; nb_points <= 40.; nb_points += 10.) {
std::cout << " Weighted periodic alpha complex 3d with " << nb_points * nb_points * nb_points << " points."
<< std::endl;
using Point = typename Weighted_periodic_alpha_complex_3d::Bare_point_3;
using Weighted_point = typename Weighted_periodic_alpha_complex_3d::Weighted_point_3;
std::vector<Weighted_point> points;
for (double i = 0; i < nb_points; i++) {
for (double j = 0; j < nb_points; j++) {
for (double k = 0; k < nb_points; k++) {
points.push_back(Weighted_point(
Point(i + random.get_double(0., 0.1), j + random.get_double(0., 0.1), k + random.get_double(0., 0.1)),
random.get_double(0., (nb_points * nb_points) / 64.)));
}
}
}
Gudhi::Clock ac_create_clock(" benchmark_weighted_periodic_points - Alpha complex 3d creation");
ac_create_clock.begin();
Weighted_periodic_alpha_complex_3d alpha_complex_from_points(points, 0., 0., 0., nb_points, nb_points, nb_points);
ac_create_clock.end();
std::cout << ac_create_clock;
Gudhi::Simplex_tree<> complex;
Gudhi::Clock st_create_clock(" benchmark_weighted_periodic_points - complex creation");
st_create_clock.begin();
alpha_complex_from_points.create_complex(complex);
st_create_clock.end();
std::cout << st_create_clock;
results_csv << nb_points * nb_points * nb_points << ";" << complex.num_simplices() << ";"
<< ac_create_clock.num_seconds() << ";" << st_create_clock.num_seconds() << ";" << std::endl;
std::cout << " benchmark_weighted_periodic_points - nb simplices = " << complex.num_simplices() << std::endl;
}
}
int main(int argc, char** argv) {
benchmark_points_on_torus_dD<CGAL::Epick_d<CGAL::Dimension_tag<3>>>("Fast static dimension version");
benchmark_points_on_torus_dD<CGAL::Epick_d<CGAL::Dynamic_dimension_tag>>("Fast dynamic dimension version");
benchmark_points_on_torus_dD<CGAL::Epeck_d<CGAL::Dimension_tag<3>>>("Exact static dimension version");
benchmark_points_on_torus_dD<CGAL::Epeck_d<CGAL::Dynamic_dimension_tag>>("Exact dynamic dimension version");
benchmark_points_on_torus_3D<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::FAST, false, false>>("Fast version");
benchmark_points_on_torus_3D<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::SAFE, false, false>>("Safe version");
benchmark_points_on_torus_3D<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::EXACT, false, false>>("Exact version");
benchmark_weighted_points_on_torus_3D<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::FAST, true, false>>("Fast version");
benchmark_weighted_points_on_torus_3D<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::SAFE, true, false>>("Safe version");
benchmark_weighted_points_on_torus_3D<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::EXACT, true, false>>("Exact version");
benchmark_periodic_points<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::FAST, false, true>>("Fast version");
benchmark_periodic_points<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::SAFE, false, true>>("Safe version");
benchmark_periodic_points<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::EXACT, false, true>>("Exact version");
benchmark_weighted_periodic_points<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::FAST, true, true>>("Fast version");
benchmark_weighted_periodic_points<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::SAFE, true, true>>("Safe version");
benchmark_weighted_periodic_points<
Gudhi::alpha_complex::Alpha_complex_3d<Gudhi::alpha_complex::complexity::EXACT, true, true>>("Exact version");
return 0;
}
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