#!/usr/bin/env python

import gudhi
import argparse

""" 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):       <NAME>

    Copyright (C) 2018 Inria

    Modification(s):
      - YYYY/MM Author: Description of the modification
"""

__author__ = "<NAME>"
__copyright__ = "Copyright (C) 2018 Inria"
__license__ = "MIT"

parser = argparse.ArgumentParser(
    description="Functional GIC " "from points read in a OFF file.",
    epilog="Example: "
    "example/functional_graph_induced_complex.py "
    "-o ../data/points/COIL_database/lucky_cat.off "
    "-f ../data/points/COIL_database/lucky_cat_PCA1"
    "- Constructs the functional GIC with the "
    "points from the given OFF and function files.",
)
parser.add_argument("-o", "--off-file", type=str, required=True)
parser.add_argument("-f", "--function-file", type=str, required=True)
parser.add_argument(
    "-v",
    "--verbose",
    default=False,
    action="store_true",
    help="Flag for program verbosity",
)

args = parser.parse_args()

nerve_complex = gudhi.CoverComplex()
nerve_complex.set_verbose(args.verbose)

if nerve_complex.read_point_cloud(args.off_file):
    nerve_complex.set_type("GIC")
    nerve_complex.set_color_from_file(args.function_file)
    nerve_complex.set_function_from_file(args.function_file)
    nerve_complex.set_graph_from_automatic_rips()
    nerve_complex.set_automatic_resolution()
    nerve_complex.set_gain()
    nerve_complex.set_cover_from_function()
    nerve_complex.find_simplices()
    nerve_complex.plot_dot()
    simplex_tree = nerve_complex.create_simplex_tree()
    nerve_complex.compute_PD()
    if args.verbose:
        print("Iterator on functional GIC simplices")
        result_str = (
            "Functional GIC is of dimension "
            + repr(simplex_tree.dimension())
            + " - "
            + repr(simplex_tree.num_simplices())
            + " simplices - "
            + repr(simplex_tree.num_vertices())
            + " vertices."
        )
        print(result_str)
        for filtered_value in simplex_tree.get_filtration():
            print(filtered_value[0])

#!/usr/bin/env python

import gudhi
import argparse

""" 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):       <NAME>

    Copyright (C) 2018 Inria

    Modification(s):
      - YYYY/MM Author: Description of the modification
"""

__author__ = "<NAME>"
__copyright__ = "Copyright (C) 2018 Inria"
__license__ = "MIT"

parser = argparse.ArgumentParser(
    description="Functional GIC " "from points read in a OFF file.",
    epilog="Example: "
    "example/functional_graph_induced_complex.py "
    "-o ../data/points/COIL_database/lucky_cat.off "
    "-f ../data/points/COIL_database/lucky_cat_PCA1"
    "- Constructs the functional GIC with the "
    "points from the given OFF and function files.",
)
parser.add_argument("-o", "--off-file", type=str, required=True)
parser.add_argument("-f", "--function-file", type=str, required=True)
parser.add_argument(
    "-v",
    "--verbose",
    default=False,
    action="store_true",
    help="Flag for program verbosity",
)

args = parser.parse_args()

nerve_complex = gudhi.CoverComplex()
nerve_complex.set_verbose(args.verbose)

if nerve_complex.read_point_cloud(args.off_file):
    nerve_complex.set_type("GIC")
    nerve_complex.set_color_from_file(args.function_file)
    nerve_complex.set_function_from_file(args.function_file)
    nerve_complex.set_graph_from_automatic_rips()
    nerve_complex.set_automatic_resolution()
    nerve_complex.set_gain()
    nerve_complex.set_cover_from_function()
    nerve_complex.find_simplices()
    nerve_complex.plot_dot()
    simplex_tree = nerve_complex.create_simplex_tree()
    nerve_complex.compute_PD()
    if args.verbose:
        print("Iterator on functional GIC simplices")
        result_str = (
            "Functional GIC is of dimension "
            + repr(simplex_tree.dimension())
            + " - "
            + repr(simplex_tree.num_simplices())
            + " simplices - "
            + repr(simplex_tree.num_vertices())
            + " vertices."
        )
        print(result_str)
        for filtered_value in simplex_tree.get_filtration():
            print(filtered_value[0])

#!/usr/bin/env python 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):       <NAME>      Copyright (C) 2018 Inria      Modification(s):       - YYYY/MM Author: Description of the modification