#!/usr/bin/env python import argparse import errno import os import gudhi """ This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT. See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details. Author(s): Vincent Rouvreau Copyright (C) 2016 Inria Modification(s): - YYYY/MM Author: Description of the modification """ __author__ = "Vincent Rouvreau" __copyright__ = "Copyright (C) 2016 Inria" __license__ = "MIT" 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: import matplotlib.pyplot as plot gudhi.plot_persistence_barcode(diag) plot.show() else: raise FileNotFoundError(errno.ENOENT, os.strerror(errno.ENOENT), args.file)