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""" 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
"""
from gudhi import CubicalComplex, PeriodicCubicalComplex
import numpy as np
__author__ = "Vincent Rouvreau"
__copyright__ = "Copyright (C) 2016 Inria"
__license__ = "MIT"
def test_empty_constructor():
# Try to create an empty CubicalComplex
cub = CubicalComplex()
assert cub.__is_defined() == False
assert cub.__is_persistence_defined() == False
def test_non_existing_perseus_file_constructor():
# Try to open a non existing file
cub = CubicalComplex(perseus_file="pouetpouettralala.toubiloubabdou")
assert cub.__is_defined() == False
assert cub.__is_persistence_defined() == False
def test_dimension_or_perseus_file_constructor():
# Create test file
test_file = open("CubicalOneSphere.txt", "w")
test_file.write("2\n3\n3\n0\n0\n0\n0\n100\n0\n0\n0\n0\n")
test_file.close()
# CubicalComplex can be constructed from dimensions and
# top_dimensional_cells OR from a Perseus-style file name.
cub = CubicalComplex(
dimensions=[3, 3],
top_dimensional_cells=[1, 2, 3, 4, 5, 6, 7, 8, 9],
perseus_file="CubicalOneSphere.txt",
)
assert cub.__is_defined() == False
assert cub.__is_persistence_defined() == False
cub = CubicalComplex(
top_dimensional_cells=[1, 2, 3, 4, 5, 6, 7, 8, 9],
perseus_file="CubicalOneSphere.txt",
)
assert cub.__is_defined() == False
assert cub.__is_persistence_defined() == False
cub = CubicalComplex(dimensions=[3, 3], perseus_file="CubicalOneSphere.txt")
assert cub.__is_defined() == False
assert cub.__is_persistence_defined() == False
def simple_constructor(cub):
cub = CubicalComplex(
dimensions=[3, 3], top_dimensional_cells=[1, 2, 3, 4, 5, 6, 7, 8, 9]
)
assert cub.__is_defined() == True
assert cub.__is_persistence_defined() == False
assert cub.persistence() == [(0, (1.0, float("inf")))]
assert cub.__is_persistence_defined() == True
assert cub.betti_numbers() == [1, 0, 0]
assert cub.persistent_betti_numbers(0, 1000) == [0, 0, 0]
def test_simple_constructor_from_top_cells():
cub = CubicalComplex(
dimensions=[3, 3],
top_dimensional_cells=[1, 2, 3, 4, 5, 6, 7, 8, 9],
)
simple_constructor(cub)
def test_simple_constructor_from_numpy_array():
cub = CubicalComplex(
top_dimensional_cells=np.array([[1, 2, 3],
[4, 5, 6],
[7, 8, 9]])
)
simple_constructor(cub)
def user_case_simple_constructor(cub):
assert cub.__is_defined() == True
assert cub.__is_persistence_defined() == False
assert cub.persistence() == [(1, (0.0, 1.0)), (0, (0.0, float("inf")))]
assert cub.__is_persistence_defined() == True
other_cub = CubicalComplex(
dimensions=[3, 3],
top_dimensional_cells=[1000.0, 0.0, 0.0, 0.0, 1.0, 0.0, 0.0, 0.0, 0.0],
)
assert other_cub.persistence() == [(1, (0.0, 1.0)), (0, (0.0, float("inf")))]
def test_user_case_simple_constructor_from_top_cells():
cub = CubicalComplex(
dimensions=[3, 3],
top_dimensional_cells=[float("inf"), 0.0, 0.0, 0.0, 1.0, 0.0, 0.0, 0.0, 0.0],
)
user_case_simple_constructor(cub)
def test_user_case_simple_constructor_from_numpy_array():
cub = CubicalComplex(
top_dimensional_cells=np.array([[float("inf"), 0.0, 0.0],
[0.0, 1.0, 0.0],
[0.0, 0.0, 0.0]])
)
user_case_simple_constructor(cub)
def test_dimension_file_constructor():
# Create test file
test_file = open("CubicalOneSphere.txt", "w")
test_file.write("2\n3\n3\n0\n0\n0\n0\n100\n0\n0\n0\n0\n")
test_file.close()
cub = CubicalComplex(perseus_file="CubicalOneSphere.txt")
assert cub.__is_defined() == True
assert cub.__is_persistence_defined() == False
assert cub.persistence() == [(1, (0.0, 100.0)), (0, (0.0, float("inf")))]
assert cub.__is_persistence_defined() == True
assert cub.betti_numbers() == [1, 0, 0]
assert cub.persistent_betti_numbers(0, 1000) == [1, 0, 0]
def test_connected_sublevel_sets():
array_cells = np.array([[3, 3], [2, 2], [4, 4]])
linear_cells = [3, 3, 2, 2, 4, 4]
dimensions = [2, 3]
periodic_dimensions = [False, False]
# with a numpy array version
cub = CubicalComplex(top_dimensional_cells = array_cells)
assert cub.persistence() == [(0, (2.0, float("inf")))]
assert cub.betti_numbers() == [1, 0, 0]
# with vector of dimensions
cub = CubicalComplex(dimensions = dimensions,
top_dimensional_cells = linear_cells)
assert cub.persistence() == [(0, (2.0, float("inf")))]
assert cub.betti_numbers() == [1, 0, 0]
# periodic with a numpy array version
cub = PeriodicCubicalComplex(top_dimensional_cells = array_cells,
periodic_dimensions = periodic_dimensions)
assert cub.persistence() == [(0, (2.0, float("inf")))]
assert cub.betti_numbers() == [1, 0, 0]
# periodic with vector of dimensions
cub = PeriodicCubicalComplex(dimensions = dimensions,
top_dimensional_cells = linear_cells,
periodic_dimensions = periodic_dimensions)
assert cub.persistence() == [(0, (2.0, float("inf")))]
assert cub.betti_numbers() == [1, 0, 0]
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