1 // ******************************************************************************
2 //
3 // Title: Force Field X.
4 // Description: Force Field X - Software for Molecular Biophysics.
5 // Copyright: Copyright (c) Michael J. Schnieders 2001-2025.
6 //
7 // This file is part of Force Field X.
8 //
9 // Force Field X is free software; you can redistribute it and/or modify it
10 // under the terms of the GNU General Public License version 3 as published by
11 // the Free Software Foundation.
12 //
13 // Force Field X is distributed in the hope that it will be useful, but WITHOUT
14 // ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
15 // FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
16 // details.
17 //
18 // You should have received a copy of the GNU General Public License along with
19 // Force Field X; if not, write to the Free Software Foundation, Inc., 59 Temple
20 // Place, Suite 330, Boston, MA 02111-1307 USA
21 //
22 // Linking this library statically or dynamically with other modules is making a
23 // combined work based on this library. Thus, the terms and conditions of the
24 // GNU General Public License cover the whole combination.
25 //
26 // As a special exception, the copyright holders of this library give you
27 // permission to link this library with independent modules to produce an
28 // executable, regardless of the license terms of these independent modules, and
29 // to copy and distribute the resulting executable under terms of your choice,
30 // provided that you also meet, for each linked independent module, the terms
31 // and conditions of the license of that module. An independent module is a
32 // module which is not derived from or based on this library. If you modify this
33 // library, you may extend this exception to your version of the library, but
34 // you are not obligated to do so. If you do not wish to do so, delete this
35 // exception statement from your version.
36 //
37 // ******************************************************************************
38 package ffx.numerics.clustering;
39
40 import ffx.utilities.FFXTest;
41 import org.junit.Assert;
42 import org.junit.Test;
43
44 public class WeightedClusteringAlgorithmTest extends FFXTest {
45 public static final double[][] DISTANCES = new double[][] { // A--B-C--D
46 { 0, 2, 3, 5 }, { 2, 0, 1, 3 }, { 3, 1, 0, 2 }, { 5, 3, 2, 0 } };
47 public static final String[] NAMES = new String[] { "A", "B", "C", "D" };
48 public static final double[] WEIGHTSA = new double[] { 1, 100, 1, 1 }; // weight on B, D should be alone
49 public static final double[] WEIGHTSD = new double[] { 1, 1, 100, 1 };// weight on C, A should be alone
50
51 @Test
52 public void testClusteringAvgLink() {
53 ClusteringAlgorithm alg = new DefaultClusteringAlgorithm();
54 Cluster ca = alg.performWeightedClustering(DISTANCES, NAMES, WEIGHTSA, new WeightedLinkageStrategy());
55 Assert.assertEquals("D", ca.getChildren().get(0).getName());
56 Cluster cd = alg.performWeightedClustering(DISTANCES, NAMES, WEIGHTSD, new WeightedLinkageStrategy());
57 Assert.assertEquals("A", cd.getChildren().get(0).getName());
58 }
59 }