diff options
author | Gard Spreemann <gspr@nonempty.org> | 2019-09-25 14:29:41 +0200 |
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committer | Gard Spreemann <gspr@nonempty.org> | 2019-09-25 14:29:41 +0200 |
commit | 599d68cd916f533bdb66dd9e684dd5703233b6bb (patch) | |
tree | 4b825dc642cb6eb9a060e54bf8d69288fbee4904 /utilities/Bitmap_cubical_complex | |
parent | a2e642954ae39025e041471d486ecbac25dff440 (diff) |
Delete all files in order to incorporate upstream's move to git.
Diffstat (limited to 'utilities/Bitmap_cubical_complex')
4 files changed, 0 insertions, 227 deletions
diff --git a/utilities/Bitmap_cubical_complex/CMakeLists.txt b/utilities/Bitmap_cubical_complex/CMakeLists.txt deleted file mode 100644 index 416db67f..00000000 --- a/utilities/Bitmap_cubical_complex/CMakeLists.txt +++ /dev/null @@ -1,28 +0,0 @@ -project(Bitmap_cubical_complex_utilities) - -add_executable ( cubical_complex_persistence cubical_complex_persistence.cpp ) -if (TBB_FOUND) - target_link_libraries(cubical_complex_persistence ${TBB_LIBRARIES}) -endif() - -add_test(NAME Bitmap_cubical_complex_utility_persistence_one_sphere COMMAND $<TARGET_FILE:cubical_complex_persistence> - "${CMAKE_SOURCE_DIR}/data/bitmap/CubicalOneSphere.txt") - -add_test(NAME Bitmap_cubical_complex_utility_persistence_two_sphere COMMAND $<TARGET_FILE:cubical_complex_persistence> - "${CMAKE_SOURCE_DIR}/data/bitmap/CubicalTwoSphere.txt") - -add_executable ( periodic_cubical_complex_persistence periodic_cubical_complex_persistence.cpp ) -if (TBB_FOUND) - target_link_libraries(periodic_cubical_complex_persistence ${TBB_LIBRARIES}) -endif() - -add_test(NAME Bitmap_cubical_complex_utility_periodic_boundary_conditions_2d_torus - COMMAND $<TARGET_FILE:periodic_cubical_complex_persistence> - "${CMAKE_SOURCE_DIR}/data/bitmap/2d_torus.txt") - -add_test(NAME Bitmap_cubical_complex_utility_periodic_boundary_conditions_3d_torus - COMMAND $<TARGET_FILE:periodic_cubical_complex_persistence> - "${CMAKE_SOURCE_DIR}/data/bitmap/3d_torus.txt") - -install(TARGETS cubical_complex_persistence DESTINATION bin) -install(TARGETS periodic_cubical_complex_persistence DESTINATION bin) diff --git a/utilities/Bitmap_cubical_complex/cubical_complex_persistence.cpp b/utilities/Bitmap_cubical_complex/cubical_complex_persistence.cpp deleted file mode 100644 index 170aa684..00000000 --- a/utilities/Bitmap_cubical_complex/cubical_complex_persistence.cpp +++ /dev/null @@ -1,80 +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) 2015 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/reader_utils.h> -#include <gudhi/Bitmap_cubical_complex.h> -#include <gudhi/Persistent_cohomology.h> - -// standard stuff -#include <iostream> -#include <string> -#include <vector> -#include <cstddef> - -int main(int argc, char** argv) { - std::cout - << "This program computes persistent homology, by using bitmap_cubical_complex class, of cubical " - << "complexes provided in text files in Perseus style (the only numbered in the first line is a dimension D of a" - << "bitmap. In the lines I between 2 and D+1 there are numbers of top dimensional cells in the direction I. Let " - << "N denote product of the numbers in the lines between 2 and D. In the lines D+2 to D+2+N there are " - << "filtrations of top dimensional cells. We assume that the cells are in the lexicographical order. See " - << "CubicalOneSphere.txt or CubicalTwoSphere.txt for example.\n" - << std::endl; - - if (argc != 2) { - std::cerr << "Wrong number of parameters. Please provide the name of a file with a Perseus style bitmap at " - << "the input. The program will now terminate.\n"; - return 1; - } - - typedef Gudhi::cubical_complex::Bitmap_cubical_complex_base<double> Bitmap_cubical_complex_base; - typedef Gudhi::cubical_complex::Bitmap_cubical_complex<Bitmap_cubical_complex_base> Bitmap_cubical_complex; - typedef Gudhi::persistent_cohomology::Field_Zp Field_Zp; - typedef Gudhi::persistent_cohomology::Persistent_cohomology<Bitmap_cubical_complex, Field_Zp> Persistent_cohomology; - - Bitmap_cubical_complex b(argv[1]); - - // Compute the persistence diagram of the complex - Persistent_cohomology pcoh(b); - int p = 11; - double min_persistence = 0; - - pcoh.init_coefficients(p); // initializes the coefficient field for homology - pcoh.compute_persistent_cohomology(min_persistence); - - std::string output_file_name(argv[1]); - output_file_name += "_persistence"; - - std::size_t last_in_path = output_file_name.find_last_of("/\\"); - - if (last_in_path != std::string::npos) { - output_file_name = output_file_name.substr(last_in_path + 1); - } - - std::ofstream out(output_file_name.c_str()); - pcoh.output_diagram(out); - out.close(); - - std::cout << "Result in file: " << output_file_name << "\n"; - - return 0; -} diff --git a/utilities/Bitmap_cubical_complex/cubicalcomplex.md b/utilities/Bitmap_cubical_complex/cubicalcomplex.md deleted file mode 100644 index 5b0404c3..00000000 --- a/utilities/Bitmap_cubical_complex/cubicalcomplex.md +++ /dev/null @@ -1,37 +0,0 @@ ----
-layout: page
-title: "Cubical complex"
-meta_title: "Cubical complex"
-teaser: ""
-permalink: /cubicalcomplex/
----
-{::comment}
-Leave the lines above as it is required by the web site generator 'Jekyll'
-{:/comment}
-
-
-## cubical_complex_persistence ##
-This program computes persistent homology, by using the Bitmap_cubical_complex class, of cubical complexes provided in text files in Perseus style.
-See [here](/doc/latest/fileformats.html#FileFormatsPerseus) for a description of the file format.
-
-**Example**
-
-```
- cubical_complex_persistence data/bitmap/CubicalTwoSphere.txt
-```
-
-* Creates a Cubical Complex from the Perseus style file `CubicalTwoSphere.txt`,
-computes Persistence cohomology from it and writes the results in a persistence file `CubicalTwoSphere.txt_persistence`.
-
-## periodic_cubical_complex_persistence ##
-
-Same as above, but with periodic boundary conditions.
-
-**Example**
-
-```
- periodic_cubical_complex_persistence data/bitmap/3d_torus.txt
-```
-
-* Creates a Periodical Cubical Complex from the Perseus style file `3d_torus.txt`,
-computes Persistence cohomology from it and writes the results in a persistence file `3d_torus.txt_persistence`.
diff --git a/utilities/Bitmap_cubical_complex/periodic_cubical_complex_persistence.cpp b/utilities/Bitmap_cubical_complex/periodic_cubical_complex_persistence.cpp deleted file mode 100644 index e9ba5495..00000000 --- a/utilities/Bitmap_cubical_complex/periodic_cubical_complex_persistence.cpp +++ /dev/null @@ -1,82 +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) 2015 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/reader_utils.h> -#include <gudhi/Bitmap_cubical_complex.h> -#include <gudhi/Bitmap_cubical_complex_periodic_boundary_conditions_base.h> -#include <gudhi/Persistent_cohomology.h> - -// standard stuff -#include <iostream> -#include <sstream> -#include <vector> -#include <string> - -int main(int argc, char** argv) { - std::cout - << "This program computes persistent homology, by using " - << "Bitmap_cubical_complex_periodic_boundary_conditions class, of cubical complexes provided in text files in " - << "Perseus style (the only numbered in the first line is a dimension D of a bitmap. In the lines I between 2 " - << "and D+1 there are numbers of top dimensional cells in the direction I. Let N denote product of the numbers " - << "in the lines between 2 and D. In the lines D+2 to D+2+N there are filtrations of top dimensional cells. We " - << "assume that the cells are in the lexicographical order. See CubicalOneSphere.txt or CubicalTwoSphere.txt for" - << " example.\n" - << std::endl; - - if (argc != 2) { - std::cerr << "Wrong number of parameters. Please provide the name of a file with a Perseus style bitmap at " - << "the input. The program will now terminate.\n"; - return 1; - } - - typedef Gudhi::cubical_complex::Bitmap_cubical_complex_periodic_boundary_conditions_base<double> Bitmap_base; - typedef Gudhi::cubical_complex::Bitmap_cubical_complex<Bitmap_base> Bitmap_cubical_complex; - - Bitmap_cubical_complex b(argv[1]); - - typedef Gudhi::persistent_cohomology::Field_Zp Field_Zp; - typedef Gudhi::persistent_cohomology::Persistent_cohomology<Bitmap_cubical_complex, Field_Zp> Persistent_cohomology; - // Compute the persistence diagram of the complex - Persistent_cohomology pcoh(b, true); - - int p = 11; - double min_persistence = 0; - pcoh.init_coefficients(p); // initializes the coefficient field for homology - pcoh.compute_persistent_cohomology(min_persistence); - - std::string output_file_name(argv[1]); - output_file_name += "_persistence"; - - std::size_t last_in_path = output_file_name.find_last_of("/\\"); - - if (last_in_path != std::string::npos) { - output_file_name = output_file_name.substr(last_in_path + 1); - } - - std::ofstream out(output_file_name.c_str()); - pcoh.output_diagram(out); - out.close(); - - std::cout << "Result in file: " << output_file_name << "\n"; - - return 0; -} |