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#!/usr/bin/env python
import gudhi
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"
def is_file_perseus(file):
num_lines = open(file).read().count('\n')
try:
f = open(file)
num_dim = int(f.readline())
coeff = 1
for dim in range(0, num_dim):
try:
line = int(f.readline())
coeff *= abs(line)
except ValueError:
return False
if num_lines == (1 + num_dim + coeff):
return True
else:
return False
except ValueError:
return False
parser = argparse.ArgumentParser(description='Periodic cubical complex from a '
'Perseus-style file name.',
epilog='Example: '
'./periodic_cubical_complex_barcode_persistence_from_perseus_file_example.py'
' -f ../data/bitmap/CubicalTwoSphere.txt')
parser.add_argument("-f", "--file", type=str, required=True)
parser.add_argument('--no-barcode', default=False, action='store_true' , help='Flag for not to display the barcodes')
args = parser.parse_args()
if is_file_perseus(args.file):
print("#####################################################################")
print("PeriodicCubicalComplex creation")
periodic_cubical_complex = gudhi.PeriodicCubicalComplex(perseus_file=args.file)
print("persistence(homology_coeff_field=3, min_persistence=0)=")
diag = periodic_cubical_complex.persistence(homology_coeff_field=3, min_persistence=0)
print(diag)
print("betti_numbers()=")
print(periodic_cubical_complex.betti_numbers())
if args.no_barcode == False:
gudhi.plot_persistence_barcode(diag)
else:
print(args.file, "is not a valid perseus style file")
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