1 /* Copyright (c) 2009 Peter Troshin
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3 * JAva Bioinformatics Analysis Web Services (JABAWS) @version: 1.0
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5 * This library is free software; you can redistribute it and/or modify it under the terms of the
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6 * Apache License version 2 as published by the Apache Software Foundation
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8 * This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without
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9 * even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache
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10 * License for more details.
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12 * A copy of the license is in apache_license.txt. It is also available here:
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13 * @see: http://www.apache.org/licenses/LICENSE-2.0.txt
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15 * Any republication or derived work distributed in source code form
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16 * must include this copyright and license notice.
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19 package compbio.engine.cluster.drmaa;
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21 import static org.testng.Assert.assertEquals;
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22 import static org.testng.Assert.assertFalse;
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23 import static org.testng.Assert.assertTrue;
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24 import static org.testng.Assert.fail;
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26 import org.testng.annotations.Test;
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28 import compbio.engine.AsyncExecutor;
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29 import compbio.engine.Configurator;
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30 import compbio.engine.Job;
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31 import compbio.engine.client.ConfiguredExecutable;
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32 import compbio.engine.client.Executable;
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33 import compbio.metadata.AllTestSuit;
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34 import compbio.metadata.JobSubmissionException;
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35 import compbio.metadata.ResultNotAvailableException;
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36 import compbio.runner.msa.ClustalW;
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37 import compbio.util.Util;
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39 public class ClusterSessionTester {
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41 @Test(sequential = true, groups = { AllTestSuit.test_group_cluster,
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42 AllTestSuit.test_group_engine })
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43 public void testTaskList() {
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44 ClustalW cl = new ClustalW();
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47 ConfiguredExecutable<ClustalW> clw = Configurator
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48 .configureExecutable(cl, Executable.ExecProvider.Cluster);
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49 JobRunner jr = JobRunner.getInstance(clw);
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50 String jobId = jr.submitJob();
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51 ClusterSession cs = ClusterSession.getInstance();
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52 // this only holds for sequential execution
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53 //assertEquals(cs.jobs.size(), 1);
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54 assertTrue(Job.getByTaskId(jobId, cs.jobs) != null);
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55 assertEquals(Job.getByTaskId(jobId, cs.jobs).getConfExecutable(),
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57 jr.cancelJob(jobId);
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58 // this only holds for sequential execution
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59 assertEquals(cs.jobs.size(), 0);
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61 clw = Configurator.configureExecutable(cl,
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62 Executable.ExecProvider.Cluster);
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63 assertFalse(Util.isEmpty(clw.getWorkDirectory()));
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64 AsyncExecutor aengine = Configurator.getAsyncEngine(clw);
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65 jobId = aengine.submitJob(clw);
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66 assertEquals(cs.jobs.size(), 1);
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67 assertTrue(Job.getByTaskId(jobId, cs.jobs) != null);
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68 assertEquals(Job.getByTaskId(jobId, cs.jobs).getConfExecutable(),
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70 assertFalse(Util.isEmpty(compbio.engine.Configurator
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71 .getWorkDirectory(jobId)));
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72 String workDir = clw.getWorkDirectory();
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73 assertEquals(workDir, compbio.engine.Configurator
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74 .getWorkDirectory(jobId));
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76 aengine.getResults(jobId);
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77 assertEquals(cs.jobs.size(), 0);
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78 assertFalse(Util.isEmpty(clw.getWorkDirectory()));
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79 // after job has been removed from the list (e.g when completed)
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80 // reference to a work directory can still be obtained by other
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82 assertFalse(Util.isEmpty(compbio.engine.Configurator
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83 .getWorkDirectory(jobId)));
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84 assertEquals(compbio.engine.Configurator.getWorkDirectory(jobId),
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87 } catch (JobSubmissionException e) {
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88 e.printStackTrace();
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89 fail(e.getMessage());
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90 } catch (ResultNotAvailableException e) {
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91 e.printStackTrace();
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92 fail(e.getMessage());
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