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author | vrouvrea <vrouvrea@636b058d-ea47-450e-bf9e-a15bfbe3eedb> | 2017-11-21 08:38:45 +0000 |
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committer | vrouvrea <vrouvrea@636b058d-ea47-450e-bf9e-a15bfbe3eedb> | 2017-11-21 08:38:45 +0000 |
commit | 36784120de86410bfbe51c563910df0d8718e2e9 (patch) | |
tree | c165cd33bc07e3134ce1473408ed91afb60e6e79 /src/Bottleneck_distance/utilities | |
parent | dc231e43e7d741e5e477de23140bf3b8982489ab (diff) | |
parent | c0c455e0afca340c70c5516ab19e0c44d961211e (diff) |
Merge add_utils_in_gudhi_v2 branch in trunk
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/trunk@2925 636b058d-ea47-450e-bf9e-a15bfbe3eedb
Former-commit-id: 7e7153337bed2b1641bb80c6c532d07f526f5b10
Diffstat (limited to 'src/Bottleneck_distance/utilities')
-rw-r--r-- | src/Bottleneck_distance/utilities/CMakeLists.txt | 16 | ||||
-rw-r--r-- | src/Bottleneck_distance/utilities/README | 10 | ||||
-rw-r--r-- | src/Bottleneck_distance/utilities/bottleneck_read_file.cpp | 50 |
3 files changed, 76 insertions, 0 deletions
diff --git a/src/Bottleneck_distance/utilities/CMakeLists.txt b/src/Bottleneck_distance/utilities/CMakeLists.txt new file mode 100644 index 00000000..063b6ae3 --- /dev/null +++ b/src/Bottleneck_distance/utilities/CMakeLists.txt @@ -0,0 +1,16 @@ +cmake_minimum_required(VERSION 2.6) +project(Bottleneck_distance_utilities) + +if (NOT CGAL_WITH_EIGEN3_VERSION VERSION_LESS 4.8.1) + add_executable (bottleneck_read_file bottleneck_read_file.cpp) + if (TBB_FOUND) + target_link_libraries(bottleneck_read_file ${TBB_LIBRARIES}) + endif(TBB_FOUND) + + add_test(NAME Bottleneck_distance_utilities_Bottleneck_read_file + COMMAND $<TARGET_FILE:bottleneck_read_file> + "${CMAKE_SOURCE_DIR}/data/persistence_diagram/first.pers" "${CMAKE_SOURCE_DIR}/data/persistence_diagram/second.pers") + + install(TARGETS bottleneck_read_file DESTINATION bin) + +endif (NOT CGAL_WITH_EIGEN3_VERSION VERSION_LESS 4.8.1) diff --git a/src/Bottleneck_distance/utilities/README b/src/Bottleneck_distance/utilities/README new file mode 100644 index 00000000..d9fdd252 --- /dev/null +++ b/src/Bottleneck_distance/utilities/README @@ -0,0 +1,10 @@ +# Bottleneck_distance #
+
+## `bottleneck_read_file_example` ##
+This program computes the Bottleneck distance between two persistence diagram files.
+
+Usage:
+`bottleneck_read_file_example <file_1.pers> <file_2.pers> [<tolerance>]`
+where
+`<file_1.pers>` and `<file_2.pers>` must be in the format described [here](http://gudhi.gforge.inria.fr/doc/latest/fileformats.html#FileFormatsPers).
+`<tolerance>` is an error bound on the bottleneck distance (set by default to the smallest positive double value).
diff --git a/src/Bottleneck_distance/utilities/bottleneck_read_file.cpp b/src/Bottleneck_distance/utilities/bottleneck_read_file.cpp new file mode 100644 index 00000000..9dd52b31 --- /dev/null +++ b/src/Bottleneck_distance/utilities/bottleneck_read_file.cpp @@ -0,0 +1,50 @@ +/* This file is part of the Gudhi Library. The Gudhi library + * (Geometric Understanding in Higher Dimensions) is a generic C++ + * library for computational topology. + * + * Authors: Francois Godi, small modifications by 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/Bottleneck.h> +#include <gudhi/reader_utils.h> +#include <iostream> +#include <vector> +#include <utility> // for pair +#include <string> +#include <limits> // for numeric_limits + +int main(int argc, char** argv) { + if (argc < 3) { + std::cout << "To run this program please provide as an input two files with persistence diagrams. Each file" << + " should contain a birth-death pair per line. Third, optional parameter is an error bound on the bottleneck" << + " distance (set by default to the smallest positive double value). If you set the error bound to 0, be" << + " aware this version is exact but expensive. The program will now terminate \n"; + return -1; + } + std::vector<std::pair<double, double>> diag1 = Gudhi::read_persistence_intervals_in_dimension(argv[1]); + std::vector<std::pair<double, double>> diag2 = Gudhi::read_persistence_intervals_in_dimension(argv[2]); + + double tolerance = std::numeric_limits<double>::min(); + if (argc == 4) { + tolerance = atof(argv[3]); + } + double b = Gudhi::persistence_diagram::bottleneck_distance(diag1, diag2, tolerance); + std::cout << "The distance between the diagrams is : " << b << ". The tolerance is : " << tolerance << std::endl; + + return 0; +} |