1 // ******************************************************************************
2 //
3 // Title: Force Field X.
4 // Description: Force Field X - Software for Molecular Biophysics.
5 // Copyright: Copyright (c) Michael J. Schnieders 2001-2024.
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.algorithms.groovy;
39
40 import ffx.algorithms.misc.AlgorithmsTest;
41 import org.junit.Test;
42
43 /**
44 * Tests the Cluster command to assess clustering based on distances.
45 * TODO: add more tests with more parameters
46 *
47 * @author Aaron J. Nessler
48 */
49 public class ClusteringTest extends AlgorithmsTest {
50
51 /** Tests the Cluster script. */
52 @Test
53 public void testBaseCluster() {
54 // Set-up the input arguments for the Cluster script.
55 String filepath = getResourcePath("dist.txt");
56 String[] args = {"-a", "0", "-k", "10", filepath};
57 binding.setVariable("args", args);
58 binding.setVariable("baseDir", registerTemporaryDirectory().toFile());
59
60 // Construct and evaluate the Cluster script.
61 Cluster cluster = new Cluster(binding).run();
62 algorithmsScript = cluster;
63 // TODO validate output.
64 }
65
66 @Test
67 public void testClusterHelp() {
68 // Set-up the input arguments for the Cluster script.
69 String[] args = {"-h"};
70 binding.setVariable("args", args);
71
72 // Construct and evaluate the Cluster script.
73 Cluster cluster = new Cluster(binding).run();
74 algorithmsScript = cluster;
75 }
76 }