diff options
author | vrouvrea <vrouvrea@636b058d-ea47-450e-bf9e-a15bfbe3eedb> | 2016-06-09 08:31:11 +0000 |
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committer | vrouvrea <vrouvrea@636b058d-ea47-450e-bf9e-a15bfbe3eedb> | 2016-06-09 08:31:11 +0000 |
commit | fee0420f4e8ef4a23934c1966938dfc0f41131be (patch) | |
tree | 2319916df7526524ec97236435e0e3146de8d773 /src/cython/example | |
parent | 24cf70e130a5e999cb16de3fcecd7c53d98c381b (diff) |
Witness complex cythonization
Review of graphical tools
git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_cythonize@1264 636b058d-ea47-450e-bf9e-a15bfbe3eedb
Former-commit-id: 35d1204190e4324cb9f9e4f8679c13c8ad080f51
Diffstat (limited to 'src/cython/example')
4 files changed, 79 insertions, 4 deletions
diff --git a/src/cython/example/alpha_complex_from_file_example.py b/src/cython/example/alpha_complex_from_file_example.py index d1040e83..beb5d101 100755 --- a/src/cython/example/alpha_complex_from_file_example.py +++ b/src/cython/example/alpha_complex_from_file_example.py @@ -59,4 +59,4 @@ print(alpha_complex.betti_numbers()) gudhi.diagram_persistence(diag) -gudhi.bar_code_persistence(diag) +gudhi.barcode_persistence(diag) diff --git a/src/cython/example/gudhi_graphical_tools_example.py b/src/cython/example/gudhi_graphical_tools_example.py index c43b2338..40558bee 100755 --- a/src/cython/example/gudhi_graphical_tools_example.py +++ b/src/cython/example/gudhi_graphical_tools_example.py @@ -34,9 +34,14 @@ print("Show palette colors values for dimension") gudhi.show_palette_values() print("#####################################################################") -print("Show bar code persistence example") +print("Show barcode persistence example") persistence = [(2, (1.0, float('inf'))), (1, (1.4142135623730951, float('inf'))), (1, (1.4142135623730951, float('inf'))), (0, (0.0, float('inf'))), (0, (0.0, 1.0)), (0, (0.0, 1.0)), (0, (0.0, 1.0))] -gudhi.bar_code_persistence(persistence) +gudhi.barcode_persistence(persistence) + +print("#####################################################################") +print("Show diagram persistence example") + +gudhi.diagram_persistence(persistence) diff --git a/src/cython/example/rips_complex_from_file_example.py b/src/cython/example/rips_complex_from_file_example.py index 1831a5e9..9385aba0 100755 --- a/src/cython/example/rips_complex_from_file_example.py +++ b/src/cython/example/rips_complex_from_file_example.py @@ -59,4 +59,4 @@ print(rips_complex.betti_numbers()) gudhi.diagram_persistence(diag) -gudhi.bar_code_persistence(diag) +gudhi.barcode_persistence(diag) diff --git a/src/cython/example/witness_complex_from_file_example.py b/src/cython/example/witness_complex_from_file_example.py new file mode 100755 index 00000000..9d1a940f --- /dev/null +++ b/src/cython/example/witness_complex_from_file_example.py @@ -0,0 +1,70 @@ +#!/usr/bin/env python + +import gudhi +import pandas +import argparse + +"""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): Vincent Rouvreau + + 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/>. +""" + +__author__ = "Vincent Rouvreau" +__copyright__ = "Copyright (C) 2016 INRIA" +__license__ = "GPL v3" + +print("#####################################################################") +print("WitnessComplex creation from points read in a file") + +parser = argparse.ArgumentParser(description='WitnessComplex creation from ' + 'points read in a file.', + epilog='Example: ' + 'example/witness_complex_from_file_example.py' + ' data/500_random_points_on_3D_Torus.csv ' + '- Constructs a witness complex with the ' + 'points from the given file. File format ' + 'is X1, X2, ..., Xn') +parser.add_argument('file', type=argparse.FileType('r')) +args = parser.parse_args() + +points = pandas.read_csv(args.file, header=None) + +print("WitnessComplex with number_of_landmarks=5") + +witness_complex = gudhi.WitnessComplex(points=points.values, + number_of_landmarks=200) + +print("filtered_tree=", witness_complex.get_filtered_tree()) + +witness_complex.initialize_filtration() +diag = witness_complex.persistence(homology_coeff_field=2, min_persistence=0.1) + +print("diag=", diag) + +gudhi.diagram_persistence(diag) + +""" +print("betti_numbers()=") +print(witness_complex.betti_numbers()) + +gudhi.diagram_persistence(diag) + +gudhi.barcode_persistence(diag) +"""
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