diff options
Diffstat (limited to 'utilities/Persistence_representations/persistence_heat_maps')
10 files changed, 0 insertions, 700 deletions
diff --git a/utilities/Persistence_representations/persistence_heat_maps/CMakeLists.txt b/utilities/Persistence_representations/persistence_heat_maps/CMakeLists.txt deleted file mode 100644 index 89ef232f..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/CMakeLists.txt +++ /dev/null @@ -1,14 +0,0 @@ -project(Persistence_representations_heat_maps_utilities) - -add_persistence_representation_creation_utility(create_pssk "10" "-1" "-1" "4" "-1") -add_persistence_representation_creation_utility(create_p_h_m_weighted_by_arctan_of_their_persistence "10" "-1" "-1" "4" "-1") -add_persistence_representation_creation_utility(create_p_h_m_weighted_by_distance_from_diagonal "10" "-1" "-1" "4" "-1") -add_persistence_representation_creation_utility(create_p_h_m_weighted_by_squared_diag_distance "10" "-1" "-1" "4" "-1") -# Need to set grid min and max for further average, distance and scalar_product -add_persistence_representation_creation_utility(create_persistence_heat_maps "10" "0" "35" "10" "-1") - -add_persistence_representation_plot_utility(plot_persistence_heat_map ".mps") - -add_persistence_representation_function_utility(average_persistence_heat_maps ".mps") -add_persistence_representation_function_utility(compute_distance_of_persistence_heat_maps ".mps" "1") -add_persistence_representation_function_utility(compute_scalar_product_of_persistence_heat_maps ".mps") diff --git a/utilities/Persistence_representations/persistence_heat_maps/average_persistence_heat_maps.cpp b/utilities/Persistence_representations/persistence_heat_maps/average_persistence_heat_maps.cpp deleted file mode 100644 index 2cbd812b..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/average_persistence_heat_maps.cpp +++ /dev/null @@ -1,63 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <vector> - -using constant_scaling_function = Gudhi::Persistence_representations::constant_scaling_function; -using Persistence_heat_maps = Gudhi::Persistence_representations::Persistence_heat_maps<constant_scaling_function>; - -int main(int argc, char** argv) { - std::cout << "This program computes average of persistence heat maps stored in files (the files needs to be " - << "created beforehand).\n" - << "The parameters of this programs are names of files with persistence heat maps.\n"; - - if (argc < 3) { - std::cout << "Wrong number of parameters, the program will now terminate \n"; - return 1; - } - - std::vector<const char*> filenames; - for (int i = 1; i < argc; ++i) { - filenames.push_back(argv[i]); - } - - std::vector<Persistence_heat_maps*> maps; - for (size_t i = 0; i != filenames.size(); ++i) { - Persistence_heat_maps* l = new Persistence_heat_maps; - l->load_from_file(filenames[i]); - maps.push_back(l); - } - - Persistence_heat_maps av; - av.compute_average(maps); - av.print_to_file("average.mps"); - - for (size_t i = 0; i != filenames.size(); ++i) { - delete maps[i]; - } - - std::cout << "Average can be found in 'average.mps' file\n"; - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/compute_distance_of_persistence_heat_maps.cpp b/utilities/Persistence_representations/persistence_heat_maps/compute_distance_of_persistence_heat_maps.cpp deleted file mode 100644 index 14d0db8f..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/compute_distance_of_persistence_heat_maps.cpp +++ /dev/null @@ -1,94 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <sstream> -#include <limits> -#include <vector> - -using constant_scaling_function = Gudhi::Persistence_representations::constant_scaling_function; -using Persistence_heat_maps = Gudhi::Persistence_representations::Persistence_heat_maps<constant_scaling_function>; - -int main(int argc, char** argv) { - std::cout << "This program computes distance of persistence heat maps stored in files (the files needs to be " - << "created beforehand).\n" - << "The first parameter of a program is an integer p. The program compute L^p distance of the two heat " - << "maps. For L^infty distance choose p = -1. \n" - << "The remaining parameters of this program are names of files with persistence heat maps.\n"; - - if (argc < 3) { - std::cout << "Wrong number of parameters, the program will now terminate \n"; - return 1; - } - - int pp = atoi(argv[1]); - double p = std::numeric_limits<double>::max(); - if (pp != -1) { - p = pp; - } - - std::vector<const char*> filenames; - for (int i = 2; i < argc; ++i) { - filenames.push_back(argv[i]); - } - std::vector<Persistence_heat_maps> maps; - maps.reserve(filenames.size()); - for (size_t file_no = 0; file_no != filenames.size(); ++file_no) { - Persistence_heat_maps l; - l.load_from_file(filenames[file_no]); - maps.push_back(l); - } - - // and now we will compute the scalar product of landscapes. - - // first we prepare an array: - std::vector<std::vector<double> > distance(filenames.size()); - for (size_t i = 0; i != filenames.size(); ++i) { - std::vector<double> v(filenames.size(), 0); - distance[i] = v; - } - - // and now we can compute the distances: - for (size_t i = 0; i != filenames.size(); ++i) { - for (size_t j = i; j != filenames.size(); ++j) { - distance[i][j] = distance[j][i] = maps[i].distance(maps[j], p); - } - } - - // and now output the result to the screen and a file: - std::ofstream out; - out.open("distance.mps"); - for (size_t i = 0; i != distance.size(); ++i) { - for (size_t j = 0; j != distance.size(); ++j) { - std::cout << distance[i][j] << " "; - out << distance[i][j] << " "; - } - std::cout << std::endl; - out << std::endl; - } - out.close(); - - std::cout << "Distance can be found in 'distance.mps' file\n"; - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/compute_scalar_product_of_persistence_heat_maps.cpp b/utilities/Persistence_representations/persistence_heat_maps/compute_scalar_product_of_persistence_heat_maps.cpp deleted file mode 100644 index 12fceedc..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/compute_scalar_product_of_persistence_heat_maps.cpp +++ /dev/null @@ -1,85 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <sstream> -#include <vector> - -using constant_scaling_function = Gudhi::Persistence_representations::constant_scaling_function; -using Persistence_heat_maps = Gudhi::Persistence_representations::Persistence_heat_maps<constant_scaling_function>; - -int main(int argc, char** argv) { - std::cout << "This program computes scalar product of persistence heat maps stored in a file (the file needs to be " - << "created beforehand). \n" - << "The parameters of this programs are names of files with persistence heat maps.\n"; - - if (argc < 3) { - std::cout << "Wrong number of parameters, the program will now terminate \n"; - return 1; - } - - std::vector<const char*> filenames; - for (int i = 1; i < argc; ++i) { - filenames.push_back(argv[i]); - } - std::vector<Persistence_heat_maps> maps; - maps.reserve(filenames.size()); - for (size_t file_no = 0; file_no != filenames.size(); ++file_no) { - Persistence_heat_maps l; - l.load_from_file(filenames[file_no]); - maps.push_back(l); - } - - // and now we will compute the scalar product of landscapes. - - // first we prepare an array: - std::vector<std::vector<double> > scalar_product(filenames.size()); - for (size_t i = 0; i != filenames.size(); ++i) { - std::vector<double> v(filenames.size(), 0); - scalar_product[i] = v; - } - - // and now we can compute the scalar product: - for (size_t i = 0; i != maps.size(); ++i) { - for (size_t j = i; j != maps.size(); ++j) { - scalar_product[i][j] = scalar_product[j][i] = maps[i].compute_scalar_product(maps[j]); - } - } - - // and now output the result to the screen and a file: - std::ofstream out; - out.open("scalar_product.mps"); - for (size_t i = 0; i != scalar_product.size(); ++i) { - for (size_t j = 0; j != scalar_product.size(); ++j) { - std::cout << scalar_product[i][j] << " "; - out << scalar_product[i][j] << " "; - } - std::cout << std::endl; - out << std::endl; - } - out.close(); - - std::cout << "Distance can be found in 'scalar_product.mps' file\n"; - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_arctan_of_their_persistence.cpp b/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_arctan_of_their_persistence.cpp deleted file mode 100644 index 21c553b9..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_arctan_of_their_persistence.cpp +++ /dev/null @@ -1,81 +0,0 @@ -/* 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): Pawel Dlotko -* -* Copyright (C) 2016 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/>. -*/ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <sstream> -#include <limits> -#include <vector> - -using arc_tan_of_persistence_of_point = Gudhi::Persistence_representations::arc_tan_of_persistence_of_point; -using Persistence_heat_maps = - Gudhi::Persistence_representations::Persistence_heat_maps<arc_tan_of_persistence_of_point>; - -int main(int argc, char** argv) { - std::cout << "This program creates persistence heat map files (*.mps) of persistence diagrams files (*.pers) " - << "provided as an input.The Gaussian kernels are weighted by the arc tangential of their persistence.\n" - << "The first parameter of a program is an integer, a size of a grid.\n" - << "The second and third parameters are min and max of the grid. If you want those numbers to be computed " - << "based on the data, set them both to -1 \n" - << "The fourth parameter is an integer, the standard deviation of a Gaussian kernel expressed in a number " - << "of pixels.\n" - << "The fifth parameter of this program is a dimension of persistence that will be used in creation of " - << "the persistence heat maps." - << "If your input files contains persistence pairs of various dimension, as a fifth parameter of the " - << "procedure please provide the dimension of persistence you want to use." - << "If in your files there are only birth-death pairs of the same dimension, set the fifth parameter to " - << "-1.\n" - << "The remaining parameters are the names of files with persistence diagrams. \n"; - - if (argc < 7) { - std::cout << "Wrong parameter list, the program will now terminate \n"; - return 1; - } - - size_t size_of_grid = (size_t)atoi(argv[1]); - double min_ = atof(argv[2]); - double max_ = atof(argv[3]); - size_t stdiv = atof(argv[4]); - - unsigned dimension = std::numeric_limits<unsigned>::max(); - int dim = atoi(argv[5]); - if (dim >= 0) { - dimension = (unsigned)dim; - } - - std::vector<const char*> filenames; - for (int i = 6; i < argc; ++i) { - filenames.push_back(argv[i]); - } - - std::vector<std::vector<double> > filter = Gudhi::Persistence_representations::create_Gaussian_filter(stdiv, 1); - for (size_t i = 0; i != filenames.size(); ++i) { - std::cout << "Creating a heat map based on a file : " << filenames[i] << std::endl; - Persistence_heat_maps l(filenames[i], filter, false, size_of_grid, min_, max_, dimension); - - std::stringstream ss; - ss << filenames[i] << ".mps"; - l.print_to_file(ss.str().c_str()); - } - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_distance_from_diagonal.cpp b/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_distance_from_diagonal.cpp deleted file mode 100644 index 99b0bd17..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_distance_from_diagonal.cpp +++ /dev/null @@ -1,81 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <sstream> -#include <limits> -#include <vector> - -using distance_from_diagonal_scaling = Gudhi::Persistence_representations::distance_from_diagonal_scaling; -using Persistence_heat_maps = Gudhi::Persistence_representations::Persistence_heat_maps<distance_from_diagonal_scaling>; - -int main(int argc, char** argv) { - std::cout << "This program creates persistence heat map files (*.mps) of persistence diagrams files (*.pers) " - << "provided as an input.The Gaussian kernels are weighted by the distance of a center from the " - << "diagonal.\n" - << "The first parameter of a program is an integer, a size of a grid.\n" - << "The second and third parameters are min and max of the grid. If you want those numbers to be computed " - << "based on the data, set them both to -1 \n" - << "The fourth parameter is an integer, the standard deviation of a Gaussian kernel expressed in a number " - << "of pixels.\n" - << "The fifth parameter of this program is a dimension of persistence that will be used in creation of " - << "the persistence heat maps." - << "If your input files contains persistence pairs of various dimension, as a fifth parameter of the " - << "procedure please provide the dimension of persistence you want to use." - << "If in your files there are only birth-death pairs of the same dimension, set the fifth parameter to " - << "-1.\n" - << "The remaining parameters are the names of files with persistence diagrams. \n"; - - if (argc < 7) { - std::cout << "Wrong parameter list, the program will now terminate \n"; - return 1; - } - - size_t size_of_grid = (size_t)atoi(argv[1]); - double min_ = atof(argv[2]); - double max_ = atof(argv[3]); - size_t stdiv = atof(argv[4]); - - unsigned dimension = std::numeric_limits<unsigned>::max(); - int dim = atoi(argv[5]); - if (dim >= 0) { - dimension = (unsigned)dim; - } - - std::vector<const char*> filenames; - for (int i = 6; i != argc; ++i) { - filenames.push_back(argv[i]); - } - - std::vector<std::vector<double> > filter = Gudhi::Persistence_representations::create_Gaussian_filter(stdiv, 1); - for (size_t i = 0; i != filenames.size(); ++i) { - std::cout << "Creating a heat map based on a file : " << filenames[i] << std::endl; - Persistence_heat_maps l(filenames[i], filter, false, size_of_grid, min_, max_, dimension); - - std::stringstream ss; - ss << filenames[i] << ".mps"; - l.print_to_file(ss.str().c_str()); - } - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_squared_diag_distance.cpp b/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_squared_diag_distance.cpp deleted file mode 100644 index a4b6e458..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/create_p_h_m_weighted_by_squared_diag_distance.cpp +++ /dev/null @@ -1,83 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <sstream> -#include <limits> -#include <vector> - -using squared_distance_from_diagonal_scaling = - Gudhi::Persistence_representations::squared_distance_from_diagonal_scaling; -using Persistence_heat_maps = - Gudhi::Persistence_representations::Persistence_heat_maps<squared_distance_from_diagonal_scaling>; - -int main(int argc, char** argv) { - std::cout << "This program creates persistence heat map files (*.mps) of persistence diagrams files (*.pers) " - << "provided as an input.The Gaussian kernels are weighted by the square of distance of a center from the " - << "diagonal.\n" - << "The first parameter of a program is an integer, a size of a grid.\n" - << "The second and third parameters are min and max of the grid. If you want those numbers to be computed " - << "based on the data, set them both to -1 \n" - << "The fourth parameter is an integer, the standard deviation of a Gaussian kernel expressed in a number " - << "of pixels.\n" - << "The fifth parameter of this program is a dimension of persistence that will be used in creation of " - << "the persistence heat maps." - << "If your input files contains persistence pairs of various dimension, as a fifth parameter of the " - << "procedure please provide the dimension of persistence you want to use." - << "If in your files there are only birth-death pairs of the same dimension, set the fifth parameter to " - << "-1.\n" - << "The remaining parameters are the names of files with persistence diagrams. \n"; - - if (argc < 7) { - std::cout << "Wrong parameter list, the program will now terminate \n"; - return 1; - } - - size_t size_of_grid = (size_t)atoi(argv[1]); - double min_ = atof(argv[2]); - double max_ = atof(argv[3]); - size_t stdiv = atof(argv[4]); - - unsigned dimension = std::numeric_limits<unsigned>::max(); - int dim = atoi(argv[5]); - if (dim >= 0) { - dimension = (unsigned)dim; - } - - std::vector<const char*> filenames; - for (int i = 6; i < argc; ++i) { - filenames.push_back(argv[i]); - } - - std::vector<std::vector<double> > filter = Gudhi::Persistence_representations::create_Gaussian_filter(stdiv, 1); - for (size_t i = 0; i != filenames.size(); ++i) { - std::cout << "Creating a heat map based on a file : " << filenames[i] << std::endl; - Persistence_heat_maps l(filenames[i], filter, false, size_of_grid, min_, max_, dimension); - - std::stringstream ss; - ss << filenames[i] << ".mps"; - l.print_to_file(ss.str().c_str()); - } - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/create_persistence_heat_maps.cpp b/utilities/Persistence_representations/persistence_heat_maps/create_persistence_heat_maps.cpp deleted file mode 100644 index 5960a89f..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/create_persistence_heat_maps.cpp +++ /dev/null @@ -1,78 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <sstream> -#include <limits> -#include <vector> - -using constant_scaling_function = Gudhi::Persistence_representations::constant_scaling_function; -using Persistence_heat_maps = Gudhi::Persistence_representations::Persistence_heat_maps<constant_scaling_function>; - -int main(int argc, char** argv) { - std::cout << "This program creates persistence heat map files (*.mps) of persistence diagrams files (*.pers) " - << "provided as an input.\n" - << "The first parameter of a program is an integer, a size of a grid.\n" - << "The second and third parameters are min and max of the grid. If you want those numbers to be computed " - << "based on the data, set them both to -1 \n" - << "The fourth parameter is an integer, the standard deviation of a Gaussian kernel expressed in a number " - << "of pixels.\n" - << "The fifth parameter of this program is a dimension of persistence that will be used in creation of " - << "the persistence heat maps." - << "If your input files contains persistence pairs of various dimension, as a fifth parameter of the " - << "procedure please provide the dimension of persistence you want to use." - << "If in your files there are only birth-death pairs of the same dimension, set the fifth parameter to " - << "-1.\n" - << "The remaining parameters are the names of files with persistence diagrams. \n"; - - if (argc < 7) { - std::cout << "Wrong parameter list, the program will now terminate \n"; - return 1; - } - size_t size_of_grid = (size_t)atoi(argv[1]); - double min_ = atof(argv[2]); - double max_ = atof(argv[3]); - size_t stdiv = atof(argv[4]); - - unsigned dimension = std::numeric_limits<unsigned>::max(); - int dim = atoi(argv[5]); - if (dim >= 0) { - dimension = (unsigned)dim; - } - std::vector<const char*> filenames; - for (int i = 6; i < argc; ++i) { - filenames.push_back(argv[i]); - } - - std::vector<std::vector<double> > filter = Gudhi::Persistence_representations::create_Gaussian_filter(stdiv, 1); - for (size_t i = 0; i != filenames.size(); ++i) { - std::cout << "Creating a heat map based on file : " << filenames[i] << std::endl; - Persistence_heat_maps l(filenames[i], filter, false, size_of_grid, min_, max_, dimension); - - std::stringstream ss; - ss << filenames[i] << ".mps"; - l.print_to_file(ss.str().c_str()); - } - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/create_pssk.cpp b/utilities/Persistence_representations/persistence_heat_maps/create_pssk.cpp deleted file mode 100644 index 04f33915..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/create_pssk.cpp +++ /dev/null @@ -1,79 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/PSSK.h> - -#include <iostream> -#include <sstream> -#include <limits> -#include <vector> - -using PSSK = Gudhi::Persistence_representations::PSSK; - -int main(int argc, char** argv) { - std::cout << "This program creates PSSK files (*.pssk) of persistence diagrams files (*.pers) " - << "provided as an input.\n" - << "The first parameter of a program is an integer, a size of a grid.\n" - << "The second and third parameters are min and max of the grid. If you want those numbers to be computed " - << "based on the data, set them both to -1 \n" - << "The fourth parameter is an integer, the standard deviation of a Gaussian kernel expressed in a number " - << "of pixels.\n" - << "The fifth parameter of this program is a dimension of persistence that will be used in creation of " - << "the PSSK." - << "If your input files contains persistence pairs of various dimension, as a fifth parameter of the " - << "procedure please provide the dimension of persistence you want to use." - << "If in your files there are only birth-death pairs of the same dimension, set the first parameter to " - << "-1.\n" - << "The remaining parameters are the names of files with persistence diagrams. \n"; - - if (argc < 7) { - std::cout << "Wrong parameter list, the program will now terminate \n"; - return 1; - } - - size_t size_of_grid = (size_t)atoi(argv[1]); - double min_ = atof(argv[2]); - double max_ = atof(argv[3]); - size_t stdiv = atof(argv[4]); - - unsigned dimension = std::numeric_limits<unsigned>::max(); - int dim = atoi(argv[5]); - if (dim >= 0) { - dimension = (unsigned)dim; - } - - std::vector<const char*> filenames; - for (int i = 6; i < argc; ++i) { - filenames.push_back(argv[i]); - } - - std::vector<std::vector<double> > filter = Gudhi::Persistence_representations::create_Gaussian_filter(stdiv, 1); - for (size_t i = 0; i != filenames.size(); ++i) { - std::cout << "Creating a PSSK based on a file : " << filenames[i] << std::endl; - PSSK l(filenames[i], filter, size_of_grid, min_, max_, dimension); - - std::stringstream ss; - ss << filenames[i] << ".pssk"; - l.print_to_file(ss.str().c_str()); - } - return 0; -} diff --git a/utilities/Persistence_representations/persistence_heat_maps/plot_persistence_heat_map.cpp b/utilities/Persistence_representations/persistence_heat_maps/plot_persistence_heat_map.cpp deleted file mode 100644 index e4402589..00000000 --- a/utilities/Persistence_representations/persistence_heat_maps/plot_persistence_heat_map.cpp +++ /dev/null @@ -1,42 +0,0 @@ -/* 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): Pawel Dlotko - * - * Copyright (C) 2016 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/>. - */ - -#include <gudhi/Persistence_heat_maps.h> - -#include <iostream> -#include <sstream> - -using constant_scaling_function = Gudhi::Persistence_representations::constant_scaling_function; -using Persistence_heat_maps = Gudhi::Persistence_representations::Persistence_heat_maps<constant_scaling_function>; - -int main(int argc, char** argv) { - std::cout << "This program creates a gnuplot script from a persistence heat maps stored in a file (the file needs " - << "to be created beforehand). Please call the code with the name of a single heat maps file \n"; - if (argc != 2) { - std::cout << "Wrong parameter list, the program will now terminate \n"; - return 1; - } - Persistence_heat_maps l; - l.load_from_file(argv[1]); - l.plot(argv[1]); - return 0; -} |