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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): Yuichi Ike and Masatoshi Takenouchi
+
+ Copyright (C) 2020 Inria
+
+ Modification(s):
+ - YYYY/MM Author: Description of the modification
+"""
+
+from gudhi.weighted_rips_complex import WeightedRipsComplex
+from gudhi.point_cloud.dtm import DistanceToMeasure
+import numpy as np
+from math import sqrt
+from scipy.spatial.distance import cdist
+import pytest
+
+def test_non_dtm_rips_complex():
+ dist = [[], [1]]
+ weights = [1, 100]
+ w_rips = WeightedRipsComplex(distance_matrix=dist, weights=weights)
+ st = w_rips.create_simplex_tree(max_dimension=2)
+ assert st.filtration([0,1]) == pytest.approx(200.0)
+
+def test_compatibility_with_rips():
+ distance_matrix = [[0], [1, 0], [1, sqrt(2), 0], [sqrt(2), 1, 1, 0]]
+ w_rips = WeightedRipsComplex(distance_matrix=distance_matrix,max_filtration=42)
+ st = w_rips.create_simplex_tree(max_dimension=1)
+ assert list(st.get_filtration()) == [
+ ([0], 0.0),
+ ([1], 0.0),
+ ([2], 0.0),
+ ([3], 0.0),
+ ([0, 1], 1.0),
+ ([0, 2], 1.0),
+ ([1, 3], 1.0),
+ ([2, 3], 1.0),
+ ([1, 2], sqrt(2)),
+ ([0, 3], sqrt(2)),
+ ]
+
+def test_compatibility_with_filtered_rips():
+ distance_matrix = [[0], [1, 0], [1, sqrt(2), 0], [sqrt(2), 1, 1, 0]]
+ w_rips = WeightedRipsComplex(distance_matrix=distance_matrix,max_filtration=1.0)
+ st = w_rips.create_simplex_tree(max_dimension=1)
+
+ assert st.__is_defined() == True
+ assert st.__is_persistence_defined() == False
+
+ assert st.num_simplices() == 8
+ assert st.num_vertices() == 4
+
+def test_dtm_rips_complex():
+ pts = np.array([[2.0, 2.0], [0.0, 1.0], [3.0, 4.0]])
+ dist = cdist(pts,pts)
+ dtm = DistanceToMeasure(2, q=2, metric="precomputed")
+ r = dtm.fit_transform(dist)
+ w_rips = WeightedRipsComplex(distance_matrix=dist, weights=r)
+ st = w_rips.create_simplex_tree(max_dimension=2)
+ st.persistence()
+ persistence_intervals0 = st.persistence_intervals_in_dimension(0)
+ assert persistence_intervals0 == pytest.approx(np.array([[3.16227766, 5.39834564],[3.16227766, 5.39834564], [3.16227766, float("inf")]]))
+