testsrc/compbio/runner/msa/ClustalWTester.java

   1 /* Copyright (c) 2009 Peter Troshin\r
   2  *  \r
   3  *  JAva Bioinformatics Analysis Web Services (JABAWS) @version: 1.0     \r
   4  * \r
   5  *  This library is free software; you can redistribute it and/or modify it under the terms of the\r
   6  *  Apache License version 2 as published by the Apache Software Foundation\r
   7  * \r
   8  *  This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without\r
   9  *  even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache \r
  10  *  License for more details.\r
  11  * \r
  12  *  A copy of the license is in apache_license.txt. It is also available here:\r
  13  * @see: http://www.apache.org/licenses/LICENSE-2.0.txt\r
  14  * \r
  15  * Any republication or derived work distributed in source code form\r
  16  * must include this copyright and license notice.\r
  17  */\r
  18 \r
  19 package compbio.runner.msa;\r
  20 \r
  21 import static org.testng.Assert.assertEquals;\r
  22 import static org.testng.Assert.assertFalse;\r
  23 import static org.testng.Assert.assertNotNull;\r
  24 import static org.testng.Assert.assertTrue;\r
  25 import static org.testng.Assert.fail;\r
  26 \r
  27 import java.io.File;\r
  28 import java.io.FileInputStream;\r
  29 import java.io.FileNotFoundException;\r
  30 import java.io.IOException;\r
  31 import java.text.ParseException;\r
  32 import java.util.ArrayList;\r
  33 import java.util.Collections;\r
  34 import java.util.List;\r
  35 \r
  36 import javax.xml.bind.JAXBException;\r
  37 import javax.xml.bind.ValidationException;\r
  38 \r
  39 import org.ggf.drmaa.DrmaaException;\r
  40 import org.ggf.drmaa.JobInfo;\r
  41 import org.testng.annotations.Test;\r
  42 \r
  43 import compbio.data.sequence.FastaSequence;\r
  44 import compbio.engine.AsyncExecutor;\r
  45 import compbio.engine.Configurator;\r
  46 import compbio.engine.FilePuller;\r
  47 import compbio.engine.SyncExecutor;\r
  48 import compbio.engine.client.ConfExecutable;\r
  49 import compbio.engine.client.ConfiguredExecutable;\r
  50 import compbio.engine.client.Executable;\r
  51 import compbio.engine.client.RunConfiguration;\r
  52 import compbio.engine.client.Executable.ExecProvider;\r
  53 import compbio.engine.cluster.drmaa.ClusterUtil;\r
  54 import compbio.engine.cluster.drmaa.JobRunner;\r
  55 import compbio.engine.cluster.drmaa.StatisticManager;\r
  56 import compbio.engine.conf.RunnerConfigMarshaller;\r
  57 import compbio.engine.local.AsyncLocalRunner;\r
  58 import compbio.engine.local.LocalExecutorService;\r
  59 import compbio.engine.local.LocalRunner;\r
  60 import compbio.metadata.AllTestSuit;\r
  61 import compbio.metadata.ChunkHolder;\r
  62 import compbio.metadata.JobExecutionException;\r
  63 import compbio.metadata.JobStatus;\r
  64 import compbio.metadata.JobSubmissionException;\r
  65 import compbio.metadata.LimitsManager;\r
  66 import compbio.metadata.PresetManager;\r
  67 import compbio.metadata.ResultNotAvailableException;\r
  68 import compbio.metadata.RunnerConfig;\r
  69 import compbio.runner.OptionCombinator;\r
  70 import compbio.runner.Util;\r
  71 import compbio.runner.msa.ClustalW;\r
  72 import compbio.util.FileWatcher;\r
  73 import compbio.util.SysPrefs;\r
  74 \r
  75 public class ClustalWTester {\r
  76 \r
  77         static final String clustalConfigFile = AllTestSuit.TEST_DATA_PATH\r
  78                         + "ClustalParameters.xml";\r
  79         public static String test_outfile = "TO1381.clustal.out";\r
  80         public static String cluster_test_outfile = "TO1381.clustal.cluster.out";\r
  81 \r
  82         @Test(groups = { AllTestSuit.test_group_cluster,\r
  83                         AllTestSuit.test_group_runner })\r
  84         public void testRunOnCluster() {\r
  85                 ClustalW clustal = new ClustalW();\r
  86                 assertFalse(SysPrefs.isWindows,\r
  87                                 "Cluster execution can only be in unix environment");\r
  88                 clustal.setInput(AllTestSuit.test_input)\r
  89                                 .setOutput(cluster_test_outfile);\r
  90 \r
  91                 try {\r
  92 \r
  93                         ConfiguredExecutable<ClustalW> confClustal = Configurator\r
  94                                         .configureExecutable(clustal);\r
  95                         JobRunner runner = JobRunner.getInstance(confClustal);\r
  96                         // ClusterSession csession = JobRunner.getSession();\r
  97                         assertNotNull(runner);\r
  98                         runner.executeJob();\r
  99                         // assertNotNull("JobId is null", jobId1);\r
 100                         JobStatus status = runner.getJobStatus();\r
 101                         assertTrue(status == JobStatus.PENDING\r
 102                                         || status == JobStatus.RUNNING);\r
 103                         JobInfo info = runner.getJobInfo();\r
 104                         assertNotNull(info);\r
 105                         StatisticManager sm = new StatisticManager(info);\r
 106                         assertNotNull(sm);\r
 107                         try {\r
 108                                 String exits = sm.getExitStatus();\r
 109                                 assertNotNull("Exit status is null", exits);\r
 110                                 // cut 4 trailing zeros from the number\r
 111                                 int exitsInt = ClusterUtil.CLUSTER_STAT_IN_SEC.parse(exits)\r
 112                                                 .intValue();\r
 113                                 assertEquals(0, exitsInt);\r
 114                                 System.out.println(sm.getAllStats());\r
 115 \r
 116                         } catch (ParseException e) {\r
 117                                 e.printStackTrace();\r
 118                                 fail("Parse Exception: " + e.getMessage());\r
 119                         }\r
 120                         // At present the task directory could not be completely removed\r
 121                         // @see JobRunner.cleanup()\r
 122                         assertFalse(runner.cleanup(),\r
 123                                         "Could not remove some files whilst cleaning up ");\r
 124                         assertTrue(sm.hasExited());\r
 125                         assertFalse(sm.wasAborted());\r
 126                         assertFalse(sm.hasDump());\r
 127                         assertFalse(sm.hasSignaled());\r
 128 \r
 129                 } catch (JobSubmissionException e) {\r
 130                         e.printStackTrace();\r
 131                         fail("DrmaaException caught:" + e.getMessage());\r
 132                 } catch (JobExecutionException e) {\r
 133                         e.printStackTrace();\r
 134                         fail("DrmaaException caught:" + e.getMessage());\r
 135                 } catch (DrmaaException e) {\r
 136                         e.printStackTrace();\r
 137                         fail("DrmaaException caught:" + e.getMessage());\r
 138                 }\r
 139         }\r
 140 \r
 141         @Test(groups = { AllTestSuit.test_group_runner })\r
 142         public void testRunLocally() {\r
 143                 ClustalW clustal = new ClustalW();\r
 144                 clustal.setInput(AllTestSuit.test_input).setOutput(test_outfile);\r
 145                 try {\r
 146 \r
 147                         // For local execution use relavive\r
 148                         ConfiguredExecutable<ClustalW> confClustal = Configurator\r
 149                                         .configureExecutable(clustal, Executable.ExecProvider.Local);\r
 150                         LocalRunner lr = new LocalRunner(confClustal);\r
 151                         lr.executeJob();\r
 152                         confClustal = (ConfiguredExecutable<ClustalW>) lr.waitForResult();\r
 153                         assertNotNull(confClustal.getResults());\r
 154                 } catch (JobSubmissionException e) {\r
 155                         e.printStackTrace();\r
 156                         fail(e.getLocalizedMessage());\r
 157                 } catch (JobExecutionException e) {\r
 158                         e.printStackTrace();\r
 159                         fail(e.getLocalizedMessage());\r
 160                 } catch (ResultNotAvailableException e) {\r
 161                         e.printStackTrace();\r
 162                         fail(e.getLocalizedMessage());\r
 163                 }\r
 164         }\r
 165 \r
 166         @Test(groups = { AllTestSuit.test_group_runner })\r
 167         public void testRunWithMatrix() {\r
 168                 ClustalW clustal = new ClustalW();\r
 169                 clustal.setInput(AllTestSuit.test_input).setOutput(test_outfile);\r
 170                 clustal.setParameter("-matrix=BLOSUM62");\r
 171                 try {\r
 172 \r
 173                         // For local execution use relavive\r
 174                         ConfiguredExecutable<ClustalW> confClustal = Configurator\r
 175                                         .configureExecutable(clustal, Executable.ExecProvider.Local);\r
 176                         LocalRunner lr = new LocalRunner(confClustal);\r
 177                         lr.executeJob();\r
 178                         confClustal = (ConfiguredExecutable<ClustalW>) lr.waitForResult();\r
 179                         assertNotNull(confClustal.getResults());\r
 180                 } catch (JobSubmissionException e) {\r
 181                         e.printStackTrace();\r
 182                         fail(e.getLocalizedMessage());\r
 183                 } catch (JobExecutionException e) {\r
 184                         e.printStackTrace();\r
 185                         fail(e.getLocalizedMessage());\r
 186                 } catch (ResultNotAvailableException e) {\r
 187                         e.printStackTrace();\r
 188                         fail(e.getLocalizedMessage());\r
 189                 }\r
 190         }\r
 191 \r
 192         @Test(groups = { AllTestSuit.test_group_runner })\r
 193         public void testConfigurationLoading() {\r
 194                 try {\r
 195                         RunnerConfig<ClustalW> clustalConfig = ConfExecutable\r
 196                                         .getRunnerOptions(ClustalW.class);\r
 197                         assertNotNull(clustalConfig);\r
 198                         assertTrue(clustalConfig.getArguments().size() > 0);\r
 199 \r
 200                         PresetManager<ClustalW> clustalPresets = ConfExecutable\r
 201                                         .getRunnerPresets(ClustalW.class);\r
 202                         assertNotNull(clustalPresets);\r
 203                         assertTrue(clustalPresets.getPresets().size() > 0);\r
 204                         clustalPresets.validate(clustalConfig);\r
 205 \r
 206                         LimitsManager<ClustalW> clustalLimits = ConfExecutable\r
 207                                         .getRunnerLimits(ClustalW.class);\r
 208                         assertNotNull(clustalLimits);\r
 209                         assertTrue(clustalLimits.getLimits().size() > 0);\r
 210                         clustalLimits.validate(clustalPresets);\r
 211 \r
 212                 } catch (FileNotFoundException e) {\r
 213                         e.printStackTrace();\r
 214                         fail(e.getLocalizedMessage());\r
 215                 } catch (IOException e) {\r
 216                         e.printStackTrace();\r
 217                         fail(e.getLocalizedMessage());\r
 218                 } catch (ValidationException e) {\r
 219                         e.printStackTrace();\r
 220                         fail(e.getLocalizedMessage());\r
 221                 }\r
 222         }\r
 223 \r
 224         @Test(groups = { AllTestSuit.test_group_runner })\r
 225         public void testOptionsLocally() {\r
 226                 try {\r
 227 \r
 228                         RunnerConfigMarshaller<ClustalW> clustalmarsh = new RunnerConfigMarshaller<ClustalW>(\r
 229                                         RunnerConfig.class);\r
 230 \r
 231                         RunnerConfig<ClustalW> clustalConfig = clustalmarsh.read(\r
 232                                         new FileInputStream(new File(clustalConfigFile)),\r
 233                                         RunnerConfig.class);\r
 234 \r
 235                         OptionCombinator clustalOpc = new OptionCombinator(clustalConfig);\r
 236                         List<String> options = clustalOpc.getOptionsAtRandom();\r
 237                         for (int i = 0; i < options.size(); i++) {\r
 238                                 System.out.println("Using options: " + options);\r
 239                                 ClustalW clustal = new ClustalW();\r
 240                                 clustal.setInput(AllTestSuit.test_input)\r
 241                                                 .setOutput(test_outfile);\r
 242 \r
 243                                 // For local execution use relavive\r
 244                                 ConfiguredExecutable<ClustalW> confClustal = Configurator\r
 245                                                 .configureExecutable(clustal, ExecProvider.Local);\r
 246 \r
 247                                 // Add options to the executable\r
 248                                 confClustal.addParameters(options);\r
 249 \r
 250                                 LocalRunner lr = new LocalRunner(confClustal);\r
 251                                 lr.executeJob();\r
 252                                 confClustal = (ConfiguredExecutable<ClustalW>) lr\r
 253                                                 .waitForResult();\r
 254                                 assertNotNull(confClustal.getResults());\r
 255                                 Collections.shuffle(options);\r
 256                         }\r
 257 \r
 258                 } catch (JobSubmissionException e) {\r
 259                         e.printStackTrace();\r
 260                         fail(e.getLocalizedMessage());\r
 261                 } catch (JobExecutionException e) {\r
 262                         e.printStackTrace();\r
 263                         fail(e.getLocalizedMessage());\r
 264                 } catch (JAXBException e) {\r
 265                         e.printStackTrace();\r
 266                         fail(e.getLocalizedMessage());\r
 267                 } catch (ResultNotAvailableException e) {\r
 268                         e.printStackTrace();\r
 269                         fail(e.getLocalizedMessage());\r
 270                 } catch (FileNotFoundException e) {\r
 271                         e.printStackTrace();\r
 272                         fail(e.getLocalizedMessage());\r
 273                 }\r
 274         }\r
 275 \r
 276         public static final void main(String[] args) throws JobSubmissionException,\r
 277                         JobExecutionException, InterruptedException {\r
 278                 ClustalW clustal = new ClustalW();\r
 279                 clustal.setInput(AllTestSuit.test_input).setOutput(test_outfile);\r
 280                 // For local execution use relavive\r
 281                 ConfiguredExecutable<ClustalW> confClustal = Configurator\r
 282                                 .configureExecutable(clustal);\r
 283                 AsyncExecutor lr = new AsyncLocalRunner();\r
 284                 lr.submitJob(confClustal);\r
 285                 Thread.sleep(3000);\r
 286                 LocalExecutorService.shutDown();\r
 287         }\r
 288 \r
 289         @Test(enabled = false)\r
 290         public void testAddParameters() {\r
 291                 ArrayList<FastaSequence> seqs = new ArrayList<FastaSequence>();\r
 292                 FastaSequence fs = new FastaSequence("tests1",\r
 293                                 "aqtctcatcatctcatctgcccccgggttatgagtagtacgcatctacg");\r
 294                 FastaSequence fs2 = new FastaSequence("tests2",\r
 295                                 "aqtctcatcatctcatctgcccccgggttatgagtagtacgcatctacg");\r
 296                 FastaSequence fs3 = new FastaSequence("tests3",\r
 297                                 "aqtctcatcatctcatctgcccccgggttatgagtagtacgcatctacg");\r
 298                 seqs.add(fs);\r
 299                 seqs.add(fs2);\r
 300                 seqs.add(fs3);\r
 301                 ClustalW cl = new ClustalW();\r
 302                 cl.setInput("input.txt").setOutput("output.txt");\r
 303                 ConfiguredExecutable<ClustalW> confClustal;\r
 304                 try {\r
 305                         confClustal = Configurator.configureExecutable(cl);\r
 306                         Util.writeInput(seqs, confClustal);\r
 307 \r
 308                         LocalRunner lr = new LocalRunner(confClustal);\r
 309                         lr.executeJob();\r
 310                         confClustal = (ConfiguredExecutable<ClustalW>) lr.waitForResult();\r
 311                         assertNotNull(confClustal.getResults());\r
 312 \r
 313                         assertTrue(confClustal.saveRunConfiguration());\r
 314                         ConfiguredExecutable<ClustalW> cexec = (ConfiguredExecutable<ClustalW>) confClustal\r
 315                                         .loadRunConfiguration(new FileInputStream(new File(\r
 316                                                         confClustal.getWorkDirectory(),\r
 317                                                         RunConfiguration.rconfigFile)));\r
 318                         assertNotNull(cexec);\r
 319 \r
 320                         lr = new LocalRunner(cexec);\r
 321                         lr.executeJob();\r
 322                         confClustal = (ConfiguredExecutable<ClustalW>) lr.waitForResult();\r
 323                         assertNotNull(confClustal.getResults());\r
 324 \r
 325                         System.out.println("CE:" + cexec);\r
 326                 } catch (JobSubmissionException e) {\r
 327                         e.printStackTrace();\r
 328                         fail(e.getMessage());\r
 329                 } catch (FileNotFoundException e) {\r
 330                         e.printStackTrace();\r
 331                         fail(e.getMessage());\r
 332                 } catch (JobExecutionException e) {\r
 333                         e.printStackTrace();\r
 334                         fail(e.getMessage());\r
 335                 } catch (ResultNotAvailableException e) {\r
 336                         e.printStackTrace();\r
 337                         fail(e.getMessage());\r
 338                 } catch (IOException e) {\r
 339                         e.printStackTrace();\r
 340                         fail(e.getMessage());\r
 341                 }\r
 342         }\r
 343 \r
 344         @Test(groups = { AllTestSuit.test_group_runner })\r
 345         public void testPersistance() {\r
 346                 try {\r
 347                         ClustalW clustal = new ClustalW();\r
 348                         clustal.setError("errrr.txt").setInput(AllTestSuit.test_input)\r
 349                                         .setOutput("outtt.txt");\r
 350                         assertEquals(clustal.getInput(), AllTestSuit.test_input);\r
 351                         assertEquals(clustal.getError(), "errrr.txt");\r
 352                         assertEquals(clustal.getOutput(), "outtt.txt");\r
 353                         ConfiguredExecutable<ClustalW> cClustal = Configurator\r
 354                                         .configureExecutable(clustal, Executable.ExecProvider.Local);\r
 355 \r
 356                         SyncExecutor sexec = Configurator.getSyncEngine(cClustal);\r
 357                         sexec.executeJob();\r
 358                         cClustal = (ConfiguredExecutable<ClustalW>) sexec.waitForResult();\r
 359                         assertNotNull(cClustal.getResults());\r
 360                         // Save run configuration\r
 361                         assertTrue(cClustal.saveRunConfiguration());\r
 362 \r
 363                         // See if loaded configuration is the same as saved\r
 364                         RunConfiguration loadedRun = RunConfiguration\r
 365                                         .load(new FileInputStream(new File(cClustal\r
 366                                                         .getWorkDirectory(), RunConfiguration.rconfigFile)));\r
 367                         assertTrue(((ConfExecutable<ClustalW>) cClustal)\r
 368                                         .getRunConfiguration().equals(loadedRun));\r
 369                         // Load run configuration as ConfExecutable\r
 370                         ConfiguredExecutable<ClustalW> resurrectedCclustal = (ConfiguredExecutable<ClustalW>) cClustal\r
 371                                         .loadRunConfiguration(new FileInputStream(new File(cClustal\r
 372                                                         .getWorkDirectory(), RunConfiguration.rconfigFile)));\r
 373                         assertNotNull(resurrectedCclustal);\r
 374                         // See in details whether executables are the same\r
 375                         assertEquals(resurrectedCclustal.getExecutable(), clustal);\r
 376 \r
 377                         // Finally rerun the job in the new task directory\r
 378                         ConfiguredExecutable<ClustalW> resclustal = Configurator\r
 379                                         .configureExecutable(resurrectedCclustal.getExecutable(),\r
 380                                                         Executable.ExecProvider.Local);\r
 381 \r
 382                         sexec = Configurator.getSyncEngine(resclustal,\r
 383                                         Executable.ExecProvider.Local);\r
 384                         sexec.executeJob();\r
 385                         cClustal = (ConfiguredExecutable<ClustalW>) sexec.waitForResult();\r
 386                         assertNotNull(cClustal.getResults());\r
 387 \r
 388                 } catch (JobSubmissionException e) {\r
 389                         e.printStackTrace();\r
 390                         fail(e.getMessage());\r
 391                 } catch (JobExecutionException e) {\r
 392                         e.printStackTrace();\r
 393                         fail(e.getMessage());\r
 394                 } catch (FileNotFoundException e) {\r
 395                         e.printStackTrace();\r
 396                         fail(e.getMessage());\r
 397                 } catch (IOException e) {\r
 398                         e.printStackTrace();\r
 399                         fail(e.getMessage());\r
 400                 } catch (ResultNotAvailableException e) {\r
 401                         e.printStackTrace();\r
 402                         fail(e.getMessage());\r
 403                 }\r
 404         }\r
 405 \r
 406         @Test(groups = { AllTestSuit.test_group_runner })\r
 407         public void readStatistics() {\r
 408                 try {\r
 409                         ClustalW clustal = new ClustalW().setInput(AllTestSuit.test_input)\r
 410                                         .setOutput(test_outfile);\r
 411                         ConfiguredExecutable<ClustalW> confClustal = Configurator\r
 412                                         .configureExecutable(clustal, Executable.ExecProvider.Local);\r
 413 \r
 414                         AsyncExecutor sexec = Configurator.getAsyncEngine(confClustal);\r
 415                         String jobId = sexec.submitJob(confClustal);\r
 416                         FilePuller fw = FilePuller.newFilePuller(confClustal\r
 417                                         .getWorkDirectory()\r
 418                                         + File.separator + ClustalW.getStatFile(),\r
 419                                         FileWatcher.MIN_CHUNK_SIZE_BYTES);\r
 420                         int count = 0;\r
 421                         long position = 0;\r
 422                         fw.waitForFile(4);\r
 423                         while (!(sexec.getJobStatus(jobId) == JobStatus.FINISHED || sexec\r
 424                                         .getJobStatus(jobId) == JobStatus.FAILED || sexec\r
 425                                         .getJobStatus(jobId) == JobStatus.UNDEFINED)\r
 426                                         || fw.hasMoreData()) {\r
 427                                 ChunkHolder ch = fw.pull(position);\r
 428                                 String chunk = ch.getChunk();\r
 429                                 position = ch.getNextPosition();\r
 430                                 System.out.print(chunk);\r
 431                                 count++;\r
 432                         }\r
 433                         assertTrue(count > 1);\r
 434                         ConfiguredExecutable<?> al = sexec.getResults(jobId);\r
 435                         assertNotNull(al.getResults());\r
 436                 } catch (JobSubmissionException e) {\r
 437                         e.printStackTrace();\r
 438                         fail(e.getMessage());\r
 439                 } catch (ResultNotAvailableException e) {\r
 440                         e.printStackTrace();\r
 441                         fail(e.getMessage());\r
 442                 } catch (IOException e) {\r
 443                         e.printStackTrace();\r
 444                         fail(e.getMessage());\r
 445                 }\r
 446         }\r
 447 \r
 448         @Test(groups = { AllTestSuit.test_group_cluster,\r
 449                         AllTestSuit.test_group_runner })\r
 450         public void readStatisticsClusterExecution() {\r
 451                 try {\r
 452                         ClustalW clustal = new ClustalW().setInput(AllTestSuit.test_input)\r
 453                                         .setOutput(test_outfile);\r
 454                         ConfiguredExecutable<ClustalW> confClustal = Configurator\r
 455                                         .configureExecutable(clustal,\r
 456                                                         Executable.ExecProvider.Cluster);\r
 457 \r
 458                         AsyncExecutor sexec = Configurator.getAsyncEngine(confClustal);\r
 459                         String jobId = sexec.submitJob(confClustal);\r
 460                         FilePuller fw = FilePuller.newFilePuller(confClustal\r
 461                                         .getWorkDirectory()\r
 462                                         + File.separator + ClustalW.getStatFile(),\r
 463                                         FileWatcher.MIN_CHUNK_SIZE_BYTES);\r
 464                         int count = 0;\r
 465                         long position = 0;\r
 466                         fw.waitForFile(200);\r
 467                         /* Under certain circumstances DRMAA could report the status wrongly thus this loop never ends \r
 468                          * TODO deal with this! \r
 469                          * */\r
 470                         while (!(sexec.getJobStatus(jobId) == JobStatus.FINISHED || sexec\r
 471                                         .getJobStatus(jobId) == JobStatus.FAILED )\r
 472                                         || fw.hasMoreData()) {\r
 473                                 ChunkHolder ch = fw.pull(position);\r
 474                                 String chunk = ch.getChunk();\r
 475                                 position = ch.getNextPosition();\r
 476                                 System.out.print(chunk);\r
 477                                 count++;\r
 478                                 if(sexec.getJobStatus(jobId) == JobStatus.UNDEFINED ) {\r
 479                                         System.out.println("DRMAA reported wrong status for job + " + jobId +" continue anyway!");\r
 480                                         break; \r
 481                                 }\r
 482                         }\r
 483                         assertTrue(count > 1);\r
 484                         ConfiguredExecutable<?> al = sexec.getResults(jobId);\r
 485                         assertNotNull(al.getResults());\r
 486                 } catch (JobSubmissionException e) {\r
 487                         e.printStackTrace();\r
 488                         fail(e.getMessage());\r
 489                 } catch (ResultNotAvailableException e) {\r
 490                         e.printStackTrace();\r
 491                         fail(e.getMessage());\r
 492                 } catch (IOException e) {\r
 493                         e.printStackTrace();\r
 494                         fail(e.getMessage());\r
 495                 }\r
 496         }\r
 497 }\r