diff options
Diffstat (limited to 'src/cython/include/Kernels_interface.h')
| -rw-r--r-- | src/cython/include/Kernels_interface.h | 46 |
1 files changed, 20 insertions, 26 deletions
diff --git a/src/cython/include/Kernels_interface.h b/src/cython/include/Kernels_interface.h index 1742d016..0da28245 100644 --- a/src/cython/include/Kernels_interface.h +++ b/src/cython/include/Kernels_interface.h @@ -34,25 +34,24 @@ namespace Gudhi { namespace persistence_diagram { - double sw(const std::vector<std::pair<double, double>>& diag1, - const std::vector<std::pair<double, double>>& diag2, - double sigma, int N) { + + // ******************* + // Kernel evaluations. + // ******************* + + double sw(const std::vector<std::pair<double, double>>& diag1, const std::vector<std::pair<double, double>>& diag2, double sigma, int N) { Gudhi::Persistence_representations::Sliced_Wasserstein sw1(diag1, sigma, N); Gudhi::Persistence_representations::Sliced_Wasserstein sw2(diag2, sigma, N); return sw1.compute_scalar_product(sw2); } - double pwg(const std::vector<std::pair<double, double>>& diag1, - const std::vector<std::pair<double, double>>& diag2, - double sigma, int N) { - Gudhi::Persistence_representations::Persistence_weighted_gaussian pwg1(diag1, sigma, N, Gudhi::Persistence_representations::Persistence_weighted_gaussian::arctan_weight); - Gudhi::Persistence_representations::Persistence_weighted_gaussian pwg2(diag2, sigma, N, Gudhi::Persistence_representations::Persistence_weighted_gaussian::arctan_weight); + double pwg(const std::vector<std::pair<double, double>>& diag1, const std::vector<std::pair<double, double>>& diag2, double sigma, int N, double C, double p) { + Gudhi::Persistence_representations::Persistence_weighted_gaussian pwg1(diag1, sigma, N, Gudhi::Persistence_representations::Persistence_weighted_gaussian::arctan_weight(C,p)); + Gudhi::Persistence_representations::Persistence_weighted_gaussian pwg2(diag2, sigma, N, Gudhi::Persistence_representations::Persistence_weighted_gaussian::arctan_weight(C,p)); return pwg1.compute_scalar_product(pwg2); } - double pss(const std::vector<std::pair<double, double>>& diag1, - const std::vector<std::pair<double, double>>& diag2, - double sigma, int N) { + double pss(const std::vector<std::pair<double, double>>& diag1, const std::vector<std::pair<double, double>>& diag2, double sigma, int N) { std::vector<std::pair<double, double>> pd1 = diag1; int numpts = diag1.size(); for(int i = 0; i < numpts; i++) pd1.emplace_back(diag1[i].second,diag1[i].first); std::vector<std::pair<double, double>> pd2 = diag2; numpts = diag2.size(); for(int i = 0; i < numpts; i++) pd2.emplace_back(diag2[i].second,diag2[i].first); @@ -62,9 +61,7 @@ namespace persistence_diagram { return pwg1.compute_scalar_product (pwg2) / (16*Gudhi::Persistence_representations::pi*sigma); } - double pss_sym(const std::vector<std::pair<double, double>>& diag1, - const std::vector<std::pair<double, double>>& diag2, - double sigma, int N) { + double pss_sym(const std::vector<std::pair<double, double>>& diag1, const std::vector<std::pair<double, double>>& diag2, double sigma, int N) { Gudhi::Persistence_representations::Persistence_weighted_gaussian pwg1(diag1, 2*std::sqrt(sigma), N, Gudhi::Persistence_representations::Persistence_weighted_gaussian::pss_weight); Gudhi::Persistence_representations::Persistence_weighted_gaussian pwg2(diag2, 2*std::sqrt(sigma), N, Gudhi::Persistence_representations::Persistence_weighted_gaussian::pss_weight); @@ -72,9 +69,11 @@ namespace persistence_diagram { } - std::vector<std::vector<double> > sw_matrix(const std::vector<std::vector<std::pair<double, double> > >& s1, - const std::vector<std::vector<std::pair<double, double> > >& s2, - double sigma, int N){ + // **************** + // Kernel matrices. + // **************** + + std::vector<std::vector<double> > sw_matrix(const std::vector<std::vector<std::pair<double, double> > >& s1, const std::vector<std::vector<std::pair<double, double> > >& s2, double sigma, int N){ std::vector<std::vector<double> > matrix; std::vector<Gudhi::Persistence_representations::Sliced_Wasserstein> ss1; int num_diag_1 = s1.size(); for(int i = 0; i < num_diag_1; i++){Gudhi::Persistence_representations::Sliced_Wasserstein sw1(s1[i], sigma, N); ss1.push_back(sw1);} @@ -87,22 +86,17 @@ namespace persistence_diagram { return matrix; } - std::vector<std::vector<double> > pwg_matrix(const std::vector<std::vector<std::pair<double, double> > >& s1, - const std::vector<std::vector<std::pair<double, double> > >& s2, - double sigma, int N){ + std::vector<std::vector<double> > pwg_matrix(const std::vector<std::vector<std::pair<double, double> > >& s1, const std::vector<std::vector<std::pair<double, double> > >& s2, double sigma, int N, double C, double p){ std::vector<std::vector<double> > matrix; int num_diag_1 = s1.size(); int num_diag_2 = s2.size(); for(int i = 0; i < num_diag_1; i++){ std::cout << 100.0*i/num_diag_1 << " %" << std::endl; - std::vector<double> ps; for(int j = 0; j < num_diag_2; j++) ps.push_back(pwg(s1[i], s2[j], sigma, N)); matrix.push_back(ps); + std::vector<double> ps; for(int j = 0; j < num_diag_2; j++) ps.push_back(pwg(s1[i], s2[j], sigma, N, C, p)); matrix.push_back(ps); } return matrix; } - std::vector<std::vector<double> > pss_matrix(const std::vector<std::vector<std::pair<double, double> > >& s1, - const std::vector<std::vector<std::pair<double, double> > >& s2, - double sigma, int N){ - std::vector<std::vector<std::pair<double, double> > > ss1, ss2; - std::vector<std::vector<double> > matrix; int num_diag_1 = s1.size(); int num_diag_2 = s2.size(); + std::vector<std::vector<double> > pss_matrix(const std::vector<std::vector<std::pair<double, double> > >& s1, const std::vector<std::vector<std::pair<double, double> > >& s2, double sigma, int N){ + std::vector<std::vector<std::pair<double, double> > > ss1, ss2; std::vector<std::vector<double> > matrix; int num_diag_1 = s1.size(); int num_diag_2 = s2.size(); for(int i = 0; i < num_diag_1; i++){ std::vector<std::pair<double, double>> pd1 = s1[i]; int numpts = s1[i].size(); for(int j = 0; j < numpts; j++) pd1.emplace_back(s1[i][j].second,s1[i][j].first); |