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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): Marc Glisse
+
+ Copyright (C) 2020 Inria
+
+ Modification(s):
+ - YYYY/MM Author: Description of the modification
+"""
+
+from gudhi.point_cloud.dtm import DistanceToMeasure
+import numpy
+import pytest
+import torch
+
+
+def test_dtm_compare_euclidean():
+ pts = numpy.random.rand(1000, 4)
+ k = 6
+ dtm = DistanceToMeasure(k, implementation="ckdtree")
+ r0 = dtm.fit_transform(pts)
+ dtm = DistanceToMeasure(k, implementation="sklearn")
+ r1 = dtm.fit_transform(pts)
+ assert r1 == pytest.approx(r0)
+ dtm = DistanceToMeasure(k, implementation="sklearn", algorithm="brute")
+ r2 = dtm.fit_transform(pts)
+ assert r2 == pytest.approx(r0)
+ dtm = DistanceToMeasure(k, implementation="hnsw")
+ r3 = dtm.fit_transform(pts)
+ assert r3 == pytest.approx(r0, rel=0.1)
+ from scipy.spatial.distance import cdist
+
+ d = cdist(pts, pts)
+ dtm = DistanceToMeasure(k, metric="precomputed")
+ r4 = dtm.fit_transform(d)
+ assert r4 == pytest.approx(r0)
+ dtm = DistanceToMeasure(k, metric="precomputed", n_jobs=2)
+ r4b = dtm.fit_transform(d)
+ assert r4b == pytest.approx(r0)
+ dtm = DistanceToMeasure(k, implementation="keops")
+ r5 = dtm.fit_transform(pts)
+ assert r5 == pytest.approx(r0)
+ pts2 = torch.tensor(pts, requires_grad=True)
+ assert pts2.grad is None
+ dtm = DistanceToMeasure(k, implementation="keops", enable_autodiff=True)
+ r6 = dtm.fit_transform(pts2)
+ assert r6.detach().numpy() == pytest.approx(r0)
+ r6.sum().backward()
+ assert not torch.isnan(pts2.grad).any()
+ pts2 = torch.tensor(pts, requires_grad=True)
+ assert pts2.grad is None
+ dtm = DistanceToMeasure(k, implementation="ckdtree", enable_autodiff=True)
+ r7 = dtm.fit_transform(pts2)
+ assert r7.detach().numpy() == pytest.approx(r0)
+ r7.sum().backward()
+ assert not torch.isnan(pts2.grad).any()
+
+
+def test_dtm_precomputed():
+ dist = numpy.array([[1.0, 3, 8], [1, 5, 5], [0, 2, 3]])
+ dtm = DistanceToMeasure(2, q=1, metric="neighbors")
+ r = dtm.fit_transform(dist)
+ assert r == pytest.approx([2.0, 3, 1])
+
+ dist = numpy.array([[2.0, 2], [0, 1], [3, 4]])
+ dtm = DistanceToMeasure(2, q=2, metric="neighbors")
+ r = dtm.fit_transform(dist)
+ assert r == pytest.approx([2.0, 0.707, 3.5355], rel=0.01)