website/tests/Ant suite/Ant test.html

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   3 <title>TestNG:  Ant test</title>
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  55 <body>
  56 <h2 align='center'>Ant test</h2><table border='1' align="center">
  57 <tr>
  58 <td>Tests passed/Failed/Skipped:</td><td>216/0/0</td>
  59 </tr><tr>
  60 <td>Started on:</td><td>Thu Jun 23 10:34:54 BST 2011</td>
  61 </tr>
  62 <tr><td>Total time:</td><td>453 seconds (453928 ms)</td>
  63 </tr><tr>
  64 <td>Included groups:</td><td></td>
  65 </tr><tr>
  66 <td>Excluded groups:</td><td>webservices performance </td>
  67 </tr>
  68 </table><p/>
  69 <small><i>(Hover the method name to see the test class name)</i></small><p/>
  70 <table width='100%' border='1' class='invocation-passed'>
  71 <tr><td colspan='4' align='center'><b>PASSED TESTS</b></td></tr>
  72 <tr><td><b>Test method</b></td>
  73 <td><b>Instance</b></td>
  74 <td width="10%"><b>Time (seconds)</b></td>
  75 <td width="30%"><b>Exception</b></td>
  76 </tr>
  77 <tr>
  78 <td title='compbio.data.sequence.SequenceUtilTester.loadJronnFile()'><b>loadJronnFile</b><br>Test class:Ant test</td>
  79 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
  80 <td></td>
  81 </tr>
  82 <tr>
  83 <td title='compbio.metadata.PresetTester.marshallPreset()'><b>marshallPreset</b><br>Test class:Ant test</td>
  84 <td>compbio.metadata.PresetTester@7a4fe91e</td><td>0</td>
  85 <td></td>
  86 </tr>
  87 <tr>
  88 <td title='compbio.runner.conservation.AAConTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
  89 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>1</td>
  90 <td></td>
  91 </tr>
  92 <tr>
  93 <td title='compbio.runner.disorder.DisemblTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
  94 <td>compbio.runner.disorder.DisemblTester@5d469658</td><td>0</td>
  95 <td></td>
  96 </tr>
  97 <tr>
  98 <td title='compbio.runner.disorder.GlobPlotTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
  99 <td>compbio.runner.disorder.GlobPlotTester@45389b3f</td><td>0</td>
 100 <td></td>
 101 </tr>
 102 <tr>
 103 <td title='compbio.runner.disorder.JronnTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
 104 <td>compbio.runner.disorder.JronnTester@3d3b5a3a</td><td>18</td>
 105 <td></td>
 106 </tr>
 107 <tr>
 108 <td title='compbio.runner.msa.ClustalWTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
 109 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>0</td>
 110 <td></td>
 111 </tr>
 112 <tr>
 113 <td title='compbio.runner.msa.MafftTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
 114 <td>compbio.runner.msa.MafftTester@5f0f0625</td><td>0</td>
 115 <td></td>
 116 </tr>
 117 <tr>
 118 <td title='compbio.runner.msa.MuscleTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
 119 <td>compbio.runner.msa.MuscleTester@63f8247d</td><td>0</td>
 120 <td></td>
 121 </tr>
 122 <tr>
 123 <td title='compbio.runner.msa.ProbconsTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
 124 <td>compbio.runner.msa.ProbconsTester@32830122</td><td>0</td>
 125 <td></td>
 126 </tr>
 127 <tr>
 128 <td title='compbio.runner.msa.TcoffeeTester.readStatistics()'><b>readStatistics</b><br>Test class:Ant test</td>
 129 <td>compbio.runner.msa.TcoffeeTester@54a6af6e</td><td>0</td>
 130 <td></td>
 131 </tr>
 132 <tr>
 133 <td title='compbio.runner.msa.ClustalWTester.readStatisticsClusterExecution()'><b>readStatisticsClusterExecution</b><br>Test class:Ant test</td>
 134 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>1</td>
 135 <td></td>
 136 </tr>
 137 <tr>
 138 <td title='compbio.data.sequence.FastaReaderTester.test()'><b>test</b><br>Test class:Ant test</td>
 139 <td>compbio.data.sequence.FastaReaderTester@2dc0435</td><td>0</td>
 140 <td></td>
 141 </tr>
 142 <tr>
 143 <td title='compbio.engine.PulledFileCacheTester.test()'><b>test</b><br>Test class:Ant test</td>
 144 <td>compbio.engine.PulledFileCacheTester@472462b3</td><td>5</td>
 145 <td></td>
 146 </tr>
 147 <tr>
 148 <td title='compbio.runner.msa.ClustalWParametersTester.testArguments()'><b>testArguments</b><br>Test class:Ant test</td>
 149 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>1</td>
 150 <td></td>
 151 </tr>
 152 <tr>
 153 <td title='compbio.runner.msa.MafftParametersTester.testArguments()'><b>testArguments</b><br>Test class:Ant test</td>
 154 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>3</td>
 155 <td></td>
 156 </tr>
 157 <tr>
 158 <td title='compbio.runner.msa.MuscleParametersTester.testArguments()'><b>testArguments</b><br>Test class:Ant test</td>
 159 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>4</td>
 160 <td></td>
 161 </tr>
 162 <tr>
 163 <td title='compbio.runner.msa.ProbconsParametersTester.testArguments()'><b>testArguments</b><br>Test class:Ant test</td>
 164 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>1</td>
 165 <td></td>
 166 </tr>
 167 <tr>
 168 <td title='compbio.runner.msa.TcoffeeParametersTester.testArguments()'><b>testArguments</b><br>Test class:Ant test</td>
 169 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>4</td>
 170 <td></td>
 171 </tr>
 172 <tr>
 173 <td title='compbio.engine.local.AsyncLocalRunnerTester.testAsyncCancelOperation()'><b>testAsyncCancelOperation</b><br>Test class:Ant test</td>
 174 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
 175 <td></td>
 176 </tr>
 177 <tr>
 178 <td title='compbio.engine.local.AsyncLocalRunnerTester.testAsyncRetrievOperation()'><b>testAsyncRetrievOperation</b><br>Test class:Ant test</td>
 179 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
 180 <td></td>
 181 </tr>
 182 <tr>
 183 <td title='compbio.engine.FilePullerTester.testCache()'><b>testCache</b><br>Test class:Ant test</td>
 184 <td>compbio.engine.FilePullerTester@1e670479</td><td>6</td>
 185 <td></td>
 186 </tr>
 187 <tr>
 188 <td title='compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testCancel()'><b>testCancel</b><br>Test class:Ant test</td>
 189 <td>compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester@57c8b24d</td><td>1</td>
 190 <td><div><pre>compbio.metadata.ResultNotAvailableException: java.io.FileNotFoundException: Result for the jobId /homes/pvtroshin/workspace/jaba2/local_jobsout/ClustalW#6405924652151282 with file name TO1381.clustal.cluster.out is not found!
 191         at compbio.runner.msa.ClustalW.getResults(ClustalW.java:73)
 192         at compbio.runner.msa.ClustalW.getResults(ClustalW.java:34)
 193         at compbio.engine.client.ConfExecutable.getResults(ConfExecutable.java:207)
 194         at compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testCancel(DrmaaAsyncClusterEngineTester.java:109)
 195 Caused by: java.io.FileNotFoundException: Result for the jobId /homes/pvtroshin/workspace/jaba2/local_jobsout/ClustalW#6405924652151282 with file name TO1381.clustal.cluster.out is not found!
 196         at compbio.runner.Util.readClustalFile(Util.java:93)
 197         at compbio.runner.msa.ClustalW.getResults(ClustalW.java:70)
 198         ... 25 more
 199 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace566947760", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 200 <div class='stack-trace' id='stack-trace566947760'><pre>compbio.metadata.ResultNotAvailableException: java.io.FileNotFoundException: Result for the jobId /homes/pvtroshin/workspace/jaba2/local_jobsout/ClustalW#6405924652151282 with file name TO1381.clustal.cluster.out is not found!
 201         at compbio.runner.msa.ClustalW.getResults(ClustalW.java:73)
 202         at compbio.runner.msa.ClustalW.getResults(ClustalW.java:34)
 203         at compbio.engine.client.ConfExecutable.getResults(ConfExecutable.java:207)
 204         at compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testCancel(DrmaaAsyncClusterEngineTester.java:109)
 205         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 206         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 207         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 208         at java.lang.reflect.Method.invoke(Method.java:597)
 209         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 210         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 211         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 212         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 213         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 214         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 215         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 216         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 217         at org.testng.TestRunner.run(TestRunner.java:486)
 218         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 219         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 220         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 221         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 222         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 223         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 224         at org.testng.TestNG.run(TestNG.java:784)
 225         at org.testng.TestNG.privateMain(TestNG.java:949)
 226         at org.testng.TestNG.main(TestNG.java:922)
 227 Caused by: java.io.FileNotFoundException: Result for the jobId /homes/pvtroshin/workspace/jaba2/local_jobsout/ClustalW#6405924652151282 with file name TO1381.clustal.cluster.out is not found!
 228         at compbio.runner.Util.readClustalFile(Util.java:93)
 229         at compbio.runner.msa.ClustalW.getResults(ClustalW.java:70)
 230         ... 25 more
 231 </pre></div></td>
 232 </tr>
 233 <tr>
 234 <td title='compbio.engine.cluster.drmaa.DrmaaClusterEngineTester.testCancel()'><b>testCancel</b><br>Test class:Ant test</td>
 235 <td>compbio.engine.cluster.drmaa.DrmaaClusterEngineTester@39320a41</td><td>1</td>
 236 <td></td>
 237 </tr>
 238 <tr>
 239 <td title='compbio.engine.local.AsyncLocalRunnerTester.testCancelCompletedTaskLocally()'><b>testCancelCompletedTaskLocally</b><br>Test class:Ant test</td>
 240 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>3</td>
 241 <td></td>
 242 </tr>
 243 <tr>
 244 <td title='compbio.engine.local.LocalRunnerTester.testCancelCompletedTaskLocally()'><b>testCancelCompletedTaskLocally</b><br>Test class:Ant test</td>
 245 <td>compbio.engine.local.LocalRunnerTester@3fde891b</td><td>0</td>
 246 <td><div><pre>java.util.concurrent.CancellationException
 247         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 248         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 249         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 250         at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
 251         at compbio.engine.local.LocalRunnerTester.testCancelCompletedTaskLocally(LocalRunnerTester.java:139)
 252 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace101429742", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 253 <div class='stack-trace' id='stack-trace101429742'><pre>java.util.concurrent.CancellationException
 254         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 255         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 256         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 257         at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
 258         at compbio.engine.local.LocalRunnerTester.testCancelCompletedTaskLocally(LocalRunnerTester.java:139)
 259         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 260         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 261         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 262         at java.lang.reflect.Method.invoke(Method.java:597)
 263         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 264         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 265         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 266         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 267         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 268         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 269         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 270         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 271         at org.testng.TestRunner.run(TestRunner.java:486)
 272         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 273         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 274         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 275         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 276         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 277         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 278         at org.testng.TestNG.run(TestNG.java:784)
 279         at org.testng.TestNG.privateMain(TestNG.java:949)
 280         at org.testng.TestNG.main(TestNG.java:922)
 281 </pre></div></td>
 282 </tr>
 283 <tr>
 284 <td title='compbio.engine.local.AsyncLocalRunnerTester.testCancelLocally()'><b>testCancelLocally</b><br>Test class:Ant test</td>
 285 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
 286 <td><div><pre>java.util.concurrent.CancellationException
 287         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 288         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 289         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 290         at compbio.engine.local.AsyncLocalRunner.getResults(AsyncLocalRunner.java:130)
 291         at compbio.engine.local.AsyncLocalRunnerTester.testCancelLocally(AsyncLocalRunnerTester.java:105)
 292 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace1986875184", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 293 <div class='stack-trace' id='stack-trace1986875184'><pre>java.util.concurrent.CancellationException
 294         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 295         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 296         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 297         at compbio.engine.local.AsyncLocalRunner.getResults(AsyncLocalRunner.java:130)
 298         at compbio.engine.local.AsyncLocalRunnerTester.testCancelLocally(AsyncLocalRunnerTester.java:105)
 299         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 300         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 301         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 302         at java.lang.reflect.Method.invoke(Method.java:597)
 303         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 304         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 305         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 306         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 307         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 308         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 309         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 310         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 311         at org.testng.TestRunner.run(TestRunner.java:486)
 312         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 313         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 314         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 315         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 316         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 317         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 318         at org.testng.TestNG.run(TestNG.java:784)
 319         at org.testng.TestNG.privateMain(TestNG.java:949)
 320         at org.testng.TestNG.main(TestNG.java:922)
 321 </pre></div></td>
 322 </tr>
 323 <tr>
 324 <td title='compbio.engine.local.LocalRunnerTester.testCancelLocally()'><b>testCancelLocally</b><br>Test class:Ant test</td>
 325 <td>compbio.engine.local.LocalRunnerTester@3fde891b</td><td>0</td>
 326 <td><div><pre>java.util.concurrent.CancellationException
 327         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 328         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 329         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 330         at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
 331         at compbio.engine.local.LocalRunnerTester.testCancelLocally(LocalRunnerTester.java:66)
 332 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace58766585", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 333 <div class='stack-trace' id='stack-trace58766585'><pre>java.util.concurrent.CancellationException
 334         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 335         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 336         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 337         at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
 338         at compbio.engine.local.LocalRunnerTester.testCancelLocally(LocalRunnerTester.java:66)
 339         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 340         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 341         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 342         at java.lang.reflect.Method.invoke(Method.java:597)
 343         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 344         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 345         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 346         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 347         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 348         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 349         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 350         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 351         at org.testng.TestRunner.run(TestRunner.java:486)
 352         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 353         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 354         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 355         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 356         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 357         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 358         at org.testng.TestNG.run(TestNG.java:784)
 359         at org.testng.TestNG.privateMain(TestNG.java:949)
 360         at org.testng.TestNG.main(TestNG.java:922)
 361 </pre></div></td>
 362 </tr>
 363 <tr>
 364 <td title='compbio.data.sequence.SequenceUtilTester.testCleanProteinSequence()'><b>testCleanProteinSequence</b><br>Test class:Ant test</td>
 365 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
 366 <td></td>
 367 </tr>
 368 <tr>
 369 <td title='compbio.data.sequence.SequenceUtilTester.testCleanSequence()'><b>testCleanSequence</b><br>Test class:Ant test</td>
 370 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
 371 <td></td>
 372 </tr>
 373 <tr>
 374 <td title='compbio.engine.conf.PropertyHelperManagerTester.testClusterEngineConf()'><b>testClusterEngineConf</b><br>Test class:Ant test</td>
 375 <td>compbio.engine.conf.PropertyHelperManagerTester@4ee14d81</td><td>0</td>
 376 <td></td>
 377 </tr>
 378 <tr>
 379 <td title='compbio.runner.msa.MafftTester.testClusterExecute()'><b>testClusterExecute</b><br>Test class:Ant test</td>
 380 <td>compbio.runner.msa.MafftTester@5f0f0625</td><td>1</td>
 381 <td></td>
 382 </tr>
 383 <tr>
 384 <td title='compbio.runner.msa.ProbconsTester.testClusterExecute()'><b>testClusterExecute</b><br>Test class:Ant test</td>
 385 <td>compbio.runner.msa.ProbconsTester@32830122</td><td>2</td>
 386 <td></td>
 387 </tr>
 388 <tr>
 389 <td title='compbio.runner.msa.TcoffeeTester.testClusterExecute()'><b>testClusterExecute</b><br>Test class:Ant test</td>
 390 <td>compbio.runner.msa.TcoffeeTester@54a6af6e</td><td>5</td>
 391 <td></td>
 392 </tr>
 393 <tr>
 394 <td title='compbio.stat.collector.ExecutionStatCollectorTester.testCollectStat()'><b>testCollectStat</b><br>Test class:Ant test</td>
 395 <td>compbio.stat.collector.ExecutionStatCollectorTester@b478a2d</td><td>0</td>
 396 <td></td>
 397 </tr>
 398 <tr>
 399 <td title='compbio.engine.client.CommandBuilderTester.testCommandBuilding()'><b>testCommandBuilding</b><br>Test class:Ant test</td>
 400 <td>compbio.engine.client.CommandBuilderTester@25cbfa42</td><td>0</td>
 401 <td></td>
 402 </tr>
 403 <tr>
 404 <td title='compbio.runner.msa.ClustalWParametersTester.testConfiguration()'><b>testConfiguration</b><br>Test class:Ant test</td>
 405 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>0</td>
 406 <td></td>
 407 </tr>
 408 <tr>
 409 <td title='compbio.runner.msa.MafftParametersTester.testConfiguration()'><b>testConfiguration</b><br>Test class:Ant test</td>
 410 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>0</td>
 411 <td></td>
 412 </tr>
 413 <tr>
 414 <td title='compbio.runner.msa.MuscleParametersTester.testConfiguration()'><b>testConfiguration</b><br>Test class:Ant test</td>
 415 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>0</td>
 416 <td></td>
 417 </tr>
 418 <tr>
 419 <td title='compbio.runner.msa.ProbconsParametersTester.testConfiguration()'><b>testConfiguration</b><br>Test class:Ant test</td>
 420 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>0</td>
 421 <td></td>
 422 </tr>
 423 <tr>
 424 <td title='compbio.runner.msa.TcoffeeParametersTester.testConfiguration()'><b>testConfiguration</b><br>Test class:Ant test</td>
 425 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>0</td>
 426 <td></td>
 427 </tr>
 428 <tr>
 429 <td title='compbio.runner.conservation.AAConTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 430 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>0</td>
 431 <td></td>
 432 </tr>
 433 <tr>
 434 <td title='compbio.runner.disorder.DisemblTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 435 <td>compbio.runner.disorder.DisemblTester@5d469658</td><td>0</td>
 436 <td></td>
 437 </tr>
 438 <tr>
 439 <td title='compbio.runner.disorder.GlobPlotTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 440 <td>compbio.runner.disorder.GlobPlotTester@45389b3f</td><td>0</td>
 441 <td></td>
 442 </tr>
 443 <tr>
 444 <td title='compbio.runner.disorder.IUPredTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 445 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>0</td>
 446 <td></td>
 447 </tr>
 448 <tr>
 449 <td title='compbio.runner.disorder.JronnTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 450 <td>compbio.runner.disorder.JronnTester@3d3b5a3a</td><td>0</td>
 451 <td></td>
 452 </tr>
 453 <tr>
 454 <td title='compbio.runner.msa.ClustalWTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 455 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>0</td>
 456 <td></td>
 457 </tr>
 458 <tr>
 459 <td title='compbio.runner.msa.MafftTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 460 <td>compbio.runner.msa.MafftTester@5f0f0625</td><td>0</td>
 461 <td></td>
 462 </tr>
 463 <tr>
 464 <td title='compbio.runner.msa.MuscleTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 465 <td>compbio.runner.msa.MuscleTester@63f8247d</td><td>0</td>
 466 <td></td>
 467 </tr>
 468 <tr>
 469 <td title='compbio.runner.msa.ProbconsTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 470 <td>compbio.runner.msa.ProbconsTester@32830122</td><td>0</td>
 471 <td></td>
 472 </tr>
 473 <tr>
 474 <td title='compbio.runner.msa.TcoffeeTester.testConfigurationLoading()'><b>testConfigurationLoading</b><br>Test class:Ant test</td>
 475 <td>compbio.runner.msa.TcoffeeTester@54a6af6e</td><td>0</td>
 476 <td></td>
 477 </tr>
 478 <tr>
 479 <td title='compbio.runner.msa.ClustalWParametersTester.testConstrainedParametersMaxValues()'><b>testConstrainedParametersMaxValues</b><br>Test class:Ant test</td>
 480 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>0</td>
 481 <td></td>
 482 </tr>
 483 <tr>
 484 <td title='compbio.runner.msa.MafftParametersTester.testConstrainedParametersMaxValues()'><b>testConstrainedParametersMaxValues</b><br>Test class:Ant test</td>
 485 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>1</td>
 486 <td></td>
 487 </tr>
 488 <tr>
 489 <td title='compbio.runner.msa.MuscleParametersTester.testConstrainedParametersMaxValues()'><b>testConstrainedParametersMaxValues</b><br>Test class:Ant test</td>
 490 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>1</td>
 491 <td></td>
 492 </tr>
 493 <tr>
 494 <td title='compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersMaxValues()'><b>testConstrainedParametersMaxValues</b><br>Test class:Ant test</td>
 495 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>37</td>
 496 <td></td>
 497 </tr>
 498 <tr>
 499 <td title='compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersMaxValues()'><b>testConstrainedParametersMaxValues</b><br>Test class:Ant test</td>
 500 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>4</td>
 501 <td></td>
 502 </tr>
 503 <tr>
 504 <td title='compbio.runner.msa.ClustalWParametersTester.testConstrainedParametersMinValues()'><b>testConstrainedParametersMinValues</b><br>Test class:Ant test</td>
 505 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>0</td>
 506 <td></td>
 507 </tr>
 508 <tr>
 509 <td title='compbio.runner.msa.MafftParametersTester.testConstrainedParametersMinValues()'><b>testConstrainedParametersMinValues</b><br>Test class:Ant test</td>
 510 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>0</td>
 511 <td></td>
 512 </tr>
 513 <tr>
 514 <td title='compbio.runner.msa.MuscleParametersTester.testConstrainedParametersMinValues()'><b>testConstrainedParametersMinValues</b><br>Test class:Ant test</td>
 515 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>1</td>
 516 <td></td>
 517 </tr>
 518 <tr>
 519 <td title='compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersMinValues()'><b>testConstrainedParametersMinValues</b><br>Test class:Ant test</td>
 520 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>0</td>
 521 <td></td>
 522 </tr>
 523 <tr>
 524 <td title='compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersMinValues()'><b>testConstrainedParametersMinValues</b><br>Test class:Ant test</td>
 525 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>2</td>
 526 <td></td>
 527 </tr>
 528 <tr>
 529 <td title='compbio.runner.msa.ClustalWParametersTester.testConstrainedParametersRandomValues()'><b>testConstrainedParametersRandomValues</b><br>Test class:Ant test</td>
 530 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>0</td>
 531 <td></td>
 532 </tr>
 533 <tr>
 534 <td title='compbio.runner.msa.MafftParametersTester.testConstrainedParametersRandomValues()'><b>testConstrainedParametersRandomValues</b><br>Test class:Ant test</td>
 535 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>3</td>
 536 <td></td>
 537 </tr>
 538 <tr>
 539 <td title='compbio.runner.msa.MuscleParametersTester.testConstrainedParametersRandomValues()'><b>testConstrainedParametersRandomValues</b><br>Test class:Ant test</td>
 540 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>2</td>
 541 <td></td>
 542 </tr>
 543 <tr>
 544 <td title='compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersRandomValues()'><b>testConstrainedParametersRandomValues</b><br>Test class:Ant test</td>
 545 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>70</td>
 546 <td></td>
 547 </tr>
 548 <tr>
 549 <td title='compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersRandomValues()'><b>testConstrainedParametersRandomValues</b><br>Test class:Ant test</td>
 550 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>8</td>
 551 <td></td>
 552 </tr>
 553 <tr>
 554 <td title='compbio.metadata.RunnerConfigTester.testCreateNumParameterWithoutValidValue()'><b>testCreateNumParameterWithoutValidValue</b><br>Test class:Ant test</td>
 555 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
 556 <td><div><pre>java.lang.IllegalStateException: Attempting to set default value for parameter: Option name: Matrix
 557 Description: DNA weight matrix
 558 URL: null
 559 Is required: false
 560
 561  Without possible values! Please define possible value first!
 562         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:234)
 563         at compbio.metadata.RunnerConfigTester.testCreateNumParameterWithoutValidValue(RunnerConfigTester.java:222)
 564 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace42185103", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 565 <div class='stack-trace' id='stack-trace42185103'><pre>java.lang.IllegalStateException: Attempting to set default value for parameter: Option name: Matrix
 566 Description: DNA weight matrix
 567 URL: null
 568 Is required: false
 569
 570  Without possible values! Please define possible value first!
 571         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:234)
 572         at compbio.metadata.RunnerConfigTester.testCreateNumParameterWithoutValidValue(RunnerConfigTester.java:222)
 573         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 574         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 575         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 576         at java.lang.reflect.Method.invoke(Method.java:597)
 577         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 578         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 579         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 580         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 581         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 582         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 583         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 584         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 585         at org.testng.TestRunner.run(TestRunner.java:486)
 586         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 587         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 588         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 589         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 590         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 591         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 592         at org.testng.TestNG.run(TestNG.java:784)
 593         at org.testng.TestNG.privateMain(TestNG.java:949)
 594         at org.testng.TestNG.main(TestNG.java:922)
 595 </pre></div></td>
 596 </tr>
 597 <tr>
 598 <td title='compbio.metadata.RunnerConfigTester.testCreateParameter()'><b>testCreateParameter</b><br>Test class:Ant test</td>
 599 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
 600 <td><div><pre>compbio.metadata.WrongParameterException: Attempting to set illegal value 'pam22' for the parameter: Option name: Matrix1
 601 Description: Protein weight matrix
 602 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
 603 Is required: true
 604 Option Names:
 605 --AAMATRIX
 606 POSSIBLE VALUES:
 607 BLOSUM
 608 GONNET
 609 ID
 610 PAM
 611
 612
 613         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:240)
 614         at compbio.metadata.RunnerConfigTester.testCreateParameter(RunnerConfigTester.java:93)
 615 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace1373581442", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 616 <div class='stack-trace' id='stack-trace1373581442'><pre>compbio.metadata.WrongParameterException: Attempting to set illegal value 'pam22' for the parameter: Option name: Matrix1
 617 Description: Protein weight matrix
 618 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
 619 Is required: true
 620 Option Names:
 621 --AAMATRIX
 622 POSSIBLE VALUES:
 623 BLOSUM
 624 GONNET
 625 ID
 626 PAM
 627
 628
 629         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:240)
 630         at compbio.metadata.RunnerConfigTester.testCreateParameter(RunnerConfigTester.java:93)
 631         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 632         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 633         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 634         at java.lang.reflect.Method.invoke(Method.java:597)
 635         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 636         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 637         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 638         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 639         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 640         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 641         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 642         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 643         at org.testng.TestRunner.run(TestRunner.java:486)
 644         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 645         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 646         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 647         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 648         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 649         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 650         at org.testng.TestNG.run(TestNG.java:784)
 651         at org.testng.TestNG.privateMain(TestNG.java:949)
 652         at org.testng.TestNG.main(TestNG.java:922)
 653 </pre></div></td>
 654 </tr>
 655 <tr>
 656 <td title='compbio.metadata.RunnerConfigTester.testCreateParameterWithValidValueConstrain()'><b>testCreateParameterWithValidValueConstrain</b><br>Test class:Ant test</td>
 657 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
 658 <td></td>
 659 </tr>
 660 <tr>
 661 <td title='compbio.data.sequence.SequenceUtilTester.testDeepCleanSequence()'><b>testDeepCleanSequence</b><br>Test class:Ant test</td>
 662 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
 663 <td></td>
 664 </tr>
 665 <tr>
 666 <td title='compbio.runner.msa.ClustalWParametersTester.testDefaultParameters()'><b>testDefaultParameters</b><br>Test class:Ant test</td>
 667 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>0</td>
 668 <td></td>
 669 </tr>
 670 <tr>
 671 <td title='compbio.runner.msa.MafftParametersTester.testDefaultParameters()'><b>testDefaultParameters</b><br>Test class:Ant test</td>
 672 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>4</td>
 673 <td></td>
 674 </tr>
 675 <tr>
 676 <td title='compbio.runner.msa.MuscleParametersTester.testDefaultParameters()'><b>testDefaultParameters</b><br>Test class:Ant test</td>
 677 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>0</td>
 678 <td></td>
 679 </tr>
 680 <tr>
 681 <td title='compbio.runner.msa.ProbconsParametersTester.testDefaultParameters()'><b>testDefaultParameters</b><br>Test class:Ant test</td>
 682 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>4</td>
 683 <td></td>
 684 </tr>
 685 <tr>
 686 <td title='compbio.runner.msa.TcoffeeParametersTester.testDefaultParameters()'><b>testDefaultParameters</b><br>Test class:Ant test</td>
 687 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>3</td>
 688 <td></td>
 689 </tr>
 690 <tr>
 691 <td title='compbio.runner.msa.MafftTester.testExecute()'><b>testExecute</b><br>Test class:Ant test</td>
 692 <td>compbio.runner.msa.MafftTester@5f0f0625</td><td>0</td>
 693 <td></td>
 694 </tr>
 695 <tr>
 696 <td title='compbio.runner.msa.ProbconsTester.testExecute()'><b>testExecute</b><br>Test class:Ant test</td>
 697 <td>compbio.runner.msa.ProbconsTester@32830122</td><td>0</td>
 698 <td></td>
 699 </tr>
 700 <tr>
 701 <td title='compbio.runner.msa.TcoffeeTester.testExecute()'><b>testExecute</b><br>Test class:Ant test</td>
 702 <td>compbio.runner.msa.TcoffeeTester@54a6af6e</td><td>0</td>
 703 <td></td>
 704 </tr>
 705 <tr>
 706 <td title='compbio.engine.FilePullerTester.testGet()'><b>testGet</b><br>Test class:Ant test</td>
 707 <td>compbio.engine.FilePullerTester@1e670479</td><td>0</td>
 708 <td></td>
 709 </tr>
 710 <tr>
 711 <td title='compbio.engine.EngineConfiguratorTester.testGetAsyncEngine()'><b>testGetAsyncEngine</b><br>Test class:Ant test</td>
 712 <td>compbio.engine.EngineConfiguratorTester@4513e9fd</td><td>0</td>
 713 <td></td>
 714 </tr>
 715 <tr>
 716 <td title='compbio.engine.client.PathValidatorTester.testGetClassPath()'><b>testGetClassPath</b><br>Test class:Ant test</td>
 717 <td>compbio.engine.client.PathValidatorTester@729b1670</td><td>0</td>
 718 <td></td>
 719 </tr>
 720 <tr>
 721 <td title='compbio.engine.FilePullerTester.testGetDelay()'><b>testGetDelay</b><br>Test class:Ant test</td>
 722 <td>compbio.engine.FilePullerTester@1e670479</td><td>0</td>
 723 <td></td>
 724 </tr>
 725 <tr>
 726 <td title='compbio.engine.conf.DirectoryManagerTester.testGetDirectory()'><b>testGetDirectory</b></td>
 727 <td>compbio.engine.conf.DirectoryManagerTester@79fcf790</td><td>0</td>
 728 <td></td>
 729 </tr>
 730 <tr>
 731 <td title='compbio.engine.conf.DirectoryManagerTester.testGetDirectory()'><b>testGetDirectory</b></td>
 732 <td>compbio.engine.conf.DirectoryManagerTester@79fcf790</td><td>0</td>
 733 <td></td>
 734 </tr>
 735 <tr>
 736 <td title='compbio.engine.conf.DirectoryManagerTester.testGetDirectory()'><b>testGetDirectory</b></td>
 737 <td>compbio.engine.conf.DirectoryManagerTester@79fcf790</td><td>0</td>
 738 <td></td>
 739 </tr>
 740 <tr>
 741 <td title='compbio.engine.conf.DirectoryManagerTester.testGetDirectory()'><b>testGetDirectory</b></td>
 742 <td>compbio.engine.conf.DirectoryManagerTester@79fcf790</td><td>0</td>
 743 <td></td>
 744 </tr>
 745 <tr>
 746 <td title='compbio.data.sequence.FastaSequenceTester.testGetFormattedFasta()'><b>testGetFormattedFasta</b><br>Test class:Ant test</td>
 747 <td>compbio.data.sequence.FastaSequenceTester@5ec24193</td><td>0</td>
 748 <td></td>
 749 </tr>
 750 <tr>
 751 <td title='compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testGetJobStatus()'><b>testGetJobStatus</b><br>Test class:Ant test</td>
 752 <td>compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester@57c8b24d</td><td>4</td>
 753 <td></td>
 754 </tr>
 755 <tr>
 756 <td title='compbio.stat.servlet.util.StatCollectionTester.testGetStats()'><b>testGetStats</b><br>Test class:Ant test</td>
 757 <td>compbio.stat.servlet.util.StatCollectionTester@26c1186f</td><td>0</td>
 758 <td></td>
 759 </tr>
 760 <tr>
 761 <td title='compbio.engine.local.AsyncLocalRunnerTester.testGetStatus()'><b>testGetStatus</b></td>
 762 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>19</td>
 763 <td></td>
 764 </tr>
 765 <tr>
 766 <td title='compbio.engine.local.AsyncLocalRunnerTester.testGetStatus()'><b>testGetStatus</b></td>
 767 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>19</td>
 768 <td></td>
 769 </tr>
 770 <tr>
 771 <td title='compbio.engine.local.AsyncLocalRunnerTester.testGetStatus()'><b>testGetStatus</b></td>
 772 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>19</td>
 773 <td></td>
 774 </tr>
 775 <tr>
 776 <td title='compbio.engine.local.AsyncLocalRunnerTester.testGetStatus()'><b>testGetStatus</b></td>
 777 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>19</td>
 778 <td></td>
 779 </tr>
 780 <tr>
 781 <td title='compbio.engine.local.AsyncLocalRunnerTester.testGetStatus()'><b>testGetStatus</b></td>
 782 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>19</td>
 783 <td></td>
 784 </tr>
 785 <tr>
 786 <td title='compbio.engine.EngineConfiguratorTester.testGetSyncEngine()'><b>testGetSyncEngine</b><br>Test class:Ant test</td>
 787 <td>compbio.engine.EngineConfiguratorTester@4513e9fd</td><td>0</td>
 788 <td></td>
 789 </tr>
 790 <tr>
 791 <td title='compbio.runner._impl.OBTester.testGetTestArgsCommand()'><b>testGetTestArgsCommand</b><br>Test class:Ant test</td>
 792 <td>compbio.runner._impl.OBTester@2658dd2d</td><td>0</td>
 793 <td></td>
 794 </tr>
 795 <tr>
 796 <td title='compbio.runner._impl.RPSBlastTester.testGetTestArgsCommand()'><b>testGetTestArgsCommand</b><br>Test class:Ant test</td>
 797 <td>compbio.runner._impl.RPSBlastTester@1420c906</td><td>0</td>
 798 <td></td>
 799 </tr>
 800 <tr>
 801 <td title='compbio.runner._impl.MclTester.testGetTestCommand()'><b>testGetTestCommand</b><br>Test class:Ant test</td>
 802 <td>compbio.runner._impl.MclTester@f35f44e</td><td>0</td>
 803 <td></td>
 804 </tr>
 805 <tr>
 806 <td title='compbio.runner._impl.NetNglycTester.testGetTestCommand()'><b>testGetTestCommand</b><br>Test class:Ant test</td>
 807 <td>compbio.runner._impl.NetNglycTester@1f3a34af</td><td>0</td>
 808 <td></td>
 809 </tr>
 810 <tr>
 811 <td title='compbio.runner._impl.OBTester.testGetTestCommand()'><b>testGetTestCommand</b><br>Test class:Ant test</td>
 812 <td>compbio.runner._impl.OBTester@2658dd2d</td><td>0</td>
 813 <td></td>
 814 </tr>
 815 <tr>
 816 <td title='compbio.runner._impl.RPSBlastTester.testGetTestCommand()'><b>testGetTestCommand</b><br>Test class:Ant test</td>
 817 <td>compbio.runner._impl.RPSBlastTester@1420c906</td><td>0</td>
 818 <td></td>
 819 </tr>
 820 <tr>
 821 <td title='compbio.runner._impl.RonnTester.testGetTestCommand()'><b>testGetTestCommand</b><br>Test class:Ant test</td>
 822 <td>compbio.runner._impl.RonnTester@746db33c</td><td>0</td>
 823 <td></td>
 824 </tr>
 825 <tr>
 826 <td title='compbio.runner._impl.Tmhmm2Tester.testGetTestCommand()'><b>testGetTestCommand</b><br>Test class:Ant test</td>
 827 <td>compbio.runner._impl.Tmhmm2Tester@4e1263db</td><td>0</td>
 828 <td></td>
 829 </tr>
 830 <tr>
 831 <td title='compbio.stat.collector.ExecutionStatCollectorTester.testHasCompleted()'><b>testHasCompleted</b><br>Test class:Ant test</td>
 832 <td>compbio.stat.collector.ExecutionStatCollectorTester@b478a2d</td><td>0</td>
 833 <td></td>
 834 </tr>
 835 <tr>
 836 <td title='compbio.engine.client.PathValidatorTester.testIsAbsolutePath()'><b>testIsAbsolutePath</b><br>Test class:Ant test</td>
 837 <td>compbio.engine.client.PathValidatorTester@729b1670</td><td>0</td>
 838 <td></td>
 839 </tr>
 840 <tr>
 841 <td title='compbio.runner.msa.LimitTester.testLimitExceeded()'><b>testLimitExceeded</b><br>Test class:Ant test</td>
 842 <td>compbio.runner.msa.LimitTester@2bdafb4e</td><td>0</td>
 843 <td></td>
 844 </tr>
 845 <tr>
 846 <td title='compbio.engine.LoadBalancerTester.testLoadBalance()'><b>testLoadBalance</b><br>Test class:Ant test</td>
 847 <td>compbio.engine.LoadBalancerTester@7d56b386</td><td>0</td>
 848 <td></td>
 849 </tr>
 850 <tr>
 851 <td title='compbio.runner.msa.LimitTester.testLoadLimits()'><b>testLoadLimits</b><br>Test class:Ant test</td>
 852 <td>compbio.runner.msa.LimitTester@2bdafb4e</td><td>0</td>
 853 <td></td>
 854 </tr>
 855 <tr>
 856 <td title='compbio.engine.conf.RunnerConfigMarshallerTester.testMarshalling()'><b>testMarshalling</b><br>Test class:Ant test</td>
 857 <td>compbio.engine.conf.RunnerConfigMarshallerTester@29a7789c</td><td>0</td>
 858 <td></td>
 859 </tr>
 860 <tr>
 861 <td title='compbio.metadata.OptionMarshallerTester.testMarshalling()'><b>testMarshalling</b><br>Test class:Ant test</td>
 862 <td>compbio.metadata.OptionMarshallerTester@6087e704</td><td>0</td>
 863 <td><div><pre>javax.xml.bind.MarshalException
 864  - with linked exception:
 865 [org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.]
 866         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:323)
 867         at com.sun.xml.bind.v2.runtime.MarshallerImpl.marshal(MarshallerImpl.java:249)
 868         at javax.xml.bind.helpers.AbstractMarshallerImpl.marshal(AbstractMarshallerImpl.java:75)
 869         at compbio.engine.conf.RunnerConfigMarshaller.writeAndValidate(RunnerConfigMarshaller.java:88)
 870         at compbio.metadata.OptionMarshallerTester.testMarshalling(OptionMarshallerTester.java:140)
 871 Caused by: org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.
 872         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.createSAXParseException(ErrorHandlerWrapper.java:195)
 873         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.error(ErrorHandlerWrapper.java:131)
 874         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:384)
 875         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:318)
 876         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator$XSIErrorReporter.reportError(XMLSchemaValidator.java:410)
 877         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.reportSchemaError(XMLSchemaValidator.java:3165)
 878         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.handleStartElement(XMLSchemaValidator.java:1777)
 879         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.startElement(XMLSchemaValidator.java:685)
 880         at com.sun.org.apache.xerces.internal.jaxp.validation.ValidatorHandlerImpl.startElement(ValidatorHandlerImpl.java:549)
 881         at org.xml.sax.helpers.XMLFilterImpl.startElement(XMLFilterImpl.java:527)
 882         at com.sun.xml.bind.v2.runtime.output.SAXOutput.endStartTag(SAXOutput.java:128)
 883         at com.sun.xml.bind.v2.runtime.output.ForkXmlOutput.endStartTag(ForkXmlOutput.java:106)
 884         at com.sun.xml.bind.v2.runtime.XMLSerializer.endAttributes(XMLSerializer.java:310)
 885         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsXsiType(XMLSerializer.java:699)
 886         at com.sun.xml.bind.v2.runtime.property.ArrayElementNodeProperty.serializeItem(ArrayElementNodeProperty.java:69)
 887         at com.sun.xml.bind.v2.runtime.property.ArrayElementProperty.serializeListBody(ArrayElementProperty.java:172)
 888         at com.sun.xml.bind.v2.runtime.property.ArrayERProperty.serializeBody(ArrayERProperty.java:159)
 889         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeBody(ClassBeanInfoImpl.java:344)
 890         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsSoleContent(XMLSerializer.java:597)
 891         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeRoot(ClassBeanInfoImpl.java:328)
 892         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsRoot(XMLSerializer.java:498)
 893         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:320)
 894         ... 26 more
 895 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace180466017", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 896 <div class='stack-trace' id='stack-trace180466017'><pre>javax.xml.bind.MarshalException
 897  - with linked exception:
 898 [org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.]
 899         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:323)
 900         at com.sun.xml.bind.v2.runtime.MarshallerImpl.marshal(MarshallerImpl.java:249)
 901         at javax.xml.bind.helpers.AbstractMarshallerImpl.marshal(AbstractMarshallerImpl.java:75)
 902         at compbio.engine.conf.RunnerConfigMarshaller.writeAndValidate(RunnerConfigMarshaller.java:88)
 903         at compbio.metadata.OptionMarshallerTester.testMarshalling(OptionMarshallerTester.java:140)
 904         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 905         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 906         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 907         at java.lang.reflect.Method.invoke(Method.java:597)
 908         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 909         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 910         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 911         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 912         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 913         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 914         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 915         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 916         at org.testng.TestRunner.run(TestRunner.java:486)
 917         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 918         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 919         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 920         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 921         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 922         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 923         at org.testng.TestNG.run(TestNG.java:784)
 924         at org.testng.TestNG.privateMain(TestNG.java:949)
 925         at org.testng.TestNG.main(TestNG.java:922)
 926 Caused by: org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.
 927         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.createSAXParseException(ErrorHandlerWrapper.java:195)
 928         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.error(ErrorHandlerWrapper.java:131)
 929         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:384)
 930         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:318)
 931         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator$XSIErrorReporter.reportError(XMLSchemaValidator.java:410)
 932         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.reportSchemaError(XMLSchemaValidator.java:3165)
 933         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.handleStartElement(XMLSchemaValidator.java:1777)
 934         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.startElement(XMLSchemaValidator.java:685)
 935         at com.sun.org.apache.xerces.internal.jaxp.validation.ValidatorHandlerImpl.startElement(ValidatorHandlerImpl.java:549)
 936         at org.xml.sax.helpers.XMLFilterImpl.startElement(XMLFilterImpl.java:527)
 937         at com.sun.xml.bind.v2.runtime.output.SAXOutput.endStartTag(SAXOutput.java:128)
 938         at com.sun.xml.bind.v2.runtime.output.ForkXmlOutput.endStartTag(ForkXmlOutput.java:106)
 939         at com.sun.xml.bind.v2.runtime.XMLSerializer.endAttributes(XMLSerializer.java:310)
 940         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsXsiType(XMLSerializer.java:699)
 941         at com.sun.xml.bind.v2.runtime.property.ArrayElementNodeProperty.serializeItem(ArrayElementNodeProperty.java:69)
 942         at com.sun.xml.bind.v2.runtime.property.ArrayElementProperty.serializeListBody(ArrayElementProperty.java:172)
 943         at com.sun.xml.bind.v2.runtime.property.ArrayERProperty.serializeBody(ArrayERProperty.java:159)
 944         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeBody(ClassBeanInfoImpl.java:344)
 945         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsSoleContent(XMLSerializer.java:597)
 946         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeRoot(ClassBeanInfoImpl.java:328)
 947         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsRoot(XMLSerializer.java:498)
 948         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:320)
 949         ... 26 more
 950 </pre></div></td>
 951 </tr>
 952 <tr>
 953 <td title='compbio.engine.local.AsyncLocalRunnerTester.testMultipleCancelLocally()'><b>testMultipleCancelLocally</b><br>Test class:Ant test</td>
 954 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
 955 <td><div><pre>java.util.concurrent.CancellationException
 956         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 957         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 958         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 959         at compbio.engine.local.AsyncLocalRunner.getResults(AsyncLocalRunner.java:130)
 960         at compbio.engine.local.AsyncLocalRunnerTester.testMultipleCancelLocally(AsyncLocalRunnerTester.java:239)
 961 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace1121006800", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
 962 <div class='stack-trace' id='stack-trace1121006800'><pre>java.util.concurrent.CancellationException
 963         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 964         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 965         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 966         at compbio.engine.local.AsyncLocalRunner.getResults(AsyncLocalRunner.java:130)
 967         at compbio.engine.local.AsyncLocalRunnerTester.testMultipleCancelLocally(AsyncLocalRunnerTester.java:239)
 968         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 969         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 970         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 971         at java.lang.reflect.Method.invoke(Method.java:597)
 972         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
 973         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
 974         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
 975         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
 976         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
 977         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
 978         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
 979         at org.testng.TestRunner.privateRun(TestRunner.java:592)
 980         at org.testng.TestRunner.run(TestRunner.java:486)
 981         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
 982         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
 983         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
 984         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
 985         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
 986         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
 987         at org.testng.TestNG.run(TestNG.java:784)
 988         at org.testng.TestNG.privateMain(TestNG.java:949)
 989         at org.testng.TestNG.main(TestNG.java:922)
 990 </pre></div></td>
 991 </tr>
 992 <tr>
 993 <td title='compbio.engine.local.LocalRunnerTester.testMultipleCancelLocally()'><b>testMultipleCancelLocally</b><br>Test class:Ant test</td>
 994 <td>compbio.engine.local.LocalRunnerTester@3fde891b</td><td>0</td>
 995 <td><div><pre>java.util.concurrent.CancellationException
 996         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
 997         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
 998         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
 999         at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
1000         at compbio.engine.local.LocalRunnerTester.testMultipleCancelLocally(LocalRunnerTester.java:114)
1001 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace752158675", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
1002 <div class='stack-trace' id='stack-trace752158675'><pre>java.util.concurrent.CancellationException
1003         at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
1004         at java.util.concurrent.FutureTask.get(FutureTask.java:83)
1005         at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
1006         at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
1007         at compbio.engine.local.LocalRunnerTester.testMultipleCancelLocally(LocalRunnerTester.java:114)
1008         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
1009         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
1010         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
1011         at java.lang.reflect.Method.invoke(Method.java:597)
1012         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
1013         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
1014         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
1015         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
1016         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
1017         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
1018         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
1019         at org.testng.TestRunner.privateRun(TestRunner.java:592)
1020         at org.testng.TestRunner.run(TestRunner.java:486)
1021         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
1022         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
1023         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
1024         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
1025         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
1026         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
1027         at org.testng.TestNG.run(TestNG.java:784)
1028         at org.testng.TestNG.privateMain(TestNG.java:949)
1029         at org.testng.TestNG.main(TestNG.java:922)
1030 </pre></div></td>
1031 </tr>
1032 <tr>
1033 <td title='compbio.runner.msa.TcoffeeTester.testNcore()'><b>testNcore</b><br>Test class:Ant test</td>
1034 <td>compbio.runner.msa.TcoffeeTester@54a6af6e</td><td>0</td>
1035 <td></td>
1036 </tr>
1037 <tr>
1038 <td title='compbio.metadata.RunnerConfigTester.testOptionNoDefaultValidate()'><b>testOptionNoDefaultValidate</b><br>Test class:Ant test</td>
1039 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1040 <td><div><pre>javax.xml.bind.ValidationException: Default value is required as multiple optionNames are defined for option: Option name: Matrix1
1041 Description: Protein weight matrix
1042 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1043 Is required: true
1044 Option Names:
1045 --AAMATRIX
1046 --ABMAT
1047 --BBBB
1048
1049         at compbio.metadata.Option.validate(Option.java:317)
1050         at compbio.metadata.RunnerConfigTester.testOptionNoDefaultValidate(RunnerConfigTester.java:149)
1051 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace858139636", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
1052 <div class='stack-trace' id='stack-trace858139636'><pre>javax.xml.bind.ValidationException: Default value is required as multiple optionNames are defined for option: Option name: Matrix1
1053 Description: Protein weight matrix
1054 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1055 Is required: true
1056 Option Names:
1057 --AAMATRIX
1058 --ABMAT
1059 --BBBB
1060
1061         at compbio.metadata.Option.validate(Option.java:317)
1062         at compbio.metadata.RunnerConfigTester.testOptionNoDefaultValidate(RunnerConfigTester.java:149)
1063         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
1064         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
1065         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
1066         at java.lang.reflect.Method.invoke(Method.java:597)
1067         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
1068         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
1069         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
1070         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
1071         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
1072         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
1073         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
1074         at org.testng.TestRunner.privateRun(TestRunner.java:592)
1075         at org.testng.TestRunner.run(TestRunner.java:486)
1076         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
1077         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
1078         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
1079         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
1080         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
1081         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
1082         at org.testng.TestNG.run(TestNG.java:784)
1083         at org.testng.TestNG.privateMain(TestNG.java:949)
1084         at org.testng.TestNG.main(TestNG.java:922)
1085 </pre></div></td>
1086 </tr>
1087 <tr>
1088 <td title='compbio.metadata.RunnerConfigTester.testOptionSetInvalidValue()'><b>testOptionSetInvalidValue</b><br>Test class:Ant test</td>
1089 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1090 <td><div><pre>compbio.metadata.WrongParameterException: Attempting to set illegal defaultValue 'AAA' which is not defined optionNames for option: Option name: Matrix1
1091 Description: Protein weight matrix
1092 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1093 Is required: true
1094 Option Names:
1095 --AAMATRIX
1096 --ABMAT
1097 --BBBB
1098
1099         at compbio.metadata.Option.setDefaultValue(Option.java:130)
1100         at compbio.metadata.RunnerConfigTester.testOptionSetInvalidValue(RunnerConfigTester.java:172)
1101 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace391683389", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
1102 <div class='stack-trace' id='stack-trace391683389'><pre>compbio.metadata.WrongParameterException: Attempting to set illegal defaultValue 'AAA' which is not defined optionNames for option: Option name: Matrix1
1103 Description: Protein weight matrix
1104 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1105 Is required: true
1106 Option Names:
1107 --AAMATRIX
1108 --ABMAT
1109 --BBBB
1110
1111         at compbio.metadata.Option.setDefaultValue(Option.java:130)
1112         at compbio.metadata.RunnerConfigTester.testOptionSetInvalidValue(RunnerConfigTester.java:172)
1113         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
1114         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
1115         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
1116         at java.lang.reflect.Method.invoke(Method.java:597)
1117         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
1118         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
1119         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
1120         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
1121         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
1122         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
1123         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
1124         at org.testng.TestRunner.privateRun(TestRunner.java:592)
1125         at org.testng.TestRunner.run(TestRunner.java:486)
1126         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
1127         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
1128         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
1129         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
1130         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
1131         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
1132         at org.testng.TestNG.run(TestNG.java:784)
1133         at org.testng.TestNG.privateMain(TestNG.java:949)
1134         at org.testng.TestNG.main(TestNG.java:922)
1135 </pre></div></td>
1136 </tr>
1137 <tr>
1138 <td title='compbio.metadata.RunnerConfigTester.testOptionToCommand()'><b>testOptionToCommand</b><br>Test class:Ant test</td>
1139 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1140 <td></td>
1141 </tr>
1142 <tr>
1143 <td title='compbio.runner.msa.ClustalWParametersTester.testOptions()'><b>testOptions</b><br>Test class:Ant test</td>
1144 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>0</td>
1145 <td></td>
1146 </tr>
1147 <tr>
1148 <td title='compbio.runner.msa.MafftParametersTester.testOptions()'><b>testOptions</b><br>Test class:Ant test</td>
1149 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>0</td>
1150 <td></td>
1151 </tr>
1152 <tr>
1153 <td title='compbio.runner.msa.MuscleParametersTester.testOptions()'><b>testOptions</b><br>Test class:Ant test</td>
1154 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>1</td>
1155 <td></td>
1156 </tr>
1157 <tr>
1158 <td title='compbio.runner.msa.ProbconsParametersTester.testOptions()'><b>testOptions</b><br>Test class:Ant test</td>
1159 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>0</td>
1160 <td></td>
1161 </tr>
1162 <tr>
1163 <td title='compbio.runner.msa.TcoffeeParametersTester.testOptions()'><b>testOptions</b><br>Test class:Ant test</td>
1164 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>0</td>
1165 <td></td>
1166 </tr>
1167 <tr>
1168 <td title='compbio.runner.msa.ClustalWTester.testOptionsLocally()'><b>testOptionsLocally</b><br>Test class:Ant test</td>
1169 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>0</td>
1170 <td></td>
1171 </tr>
1172 <tr>
1173 <td title='compbio.engine.client.CommandBuilderTester.testOptionsToCommand()'><b>testOptionsToCommand</b><br>Test class:Ant test</td>
1174 <td>compbio.engine.client.CommandBuilderTester@25cbfa42</td><td>0</td>
1175 <td></td>
1176 </tr>
1177 <tr>
1178 <td title='compbio.metadata.RunnerConfigTester.testParameterToCommand()'><b>testParameterToCommand</b><br>Test class:Ant test</td>
1179 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1180 <td></td>
1181 </tr>
1182 <tr>
1183 <td title='compbio.runner.msa.ClustalWParametersTester.testParameters()'><b>testParameters</b><br>Test class:Ant test</td>
1184 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>1</td>
1185 <td></td>
1186 </tr>
1187 <tr>
1188 <td title='compbio.runner.msa.MafftParametersTester.testParameters()'><b>testParameters</b><br>Test class:Ant test</td>
1189 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>1</td>
1190 <td></td>
1191 </tr>
1192 <tr>
1193 <td title='compbio.runner.msa.MuscleParametersTester.testParameters()'><b>testParameters</b><br>Test class:Ant test</td>
1194 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>1</td>
1195 <td></td>
1196 </tr>
1197 <tr>
1198 <td title='compbio.runner.msa.ProbconsParametersTester.testParameters()'><b>testParameters</b><br>Test class:Ant test</td>
1199 <td>compbio.runner.msa.ProbconsParametersTester@3823bdd1</td><td>1</td>
1200 <td></td>
1201 </tr>
1202 <tr>
1203 <td title='compbio.runner.msa.TcoffeeParametersTester.testParameters()'><b>testParameters</b><br>Test class:Ant test</td>
1204 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>3</td>
1205 <td></td>
1206 </tr>
1207 <tr>
1208 <td title='compbio.engine.cluster.drmaa.UtilTester.testParser()'><b>testParser</b><br>Test class:Ant test</td>
1209 <td>compbio.engine.cluster.drmaa.UtilTester@43f4ebd</td><td>0</td>
1210 <td></td>
1211 </tr>
1212 <tr>
1213 <td title='compbio.runner.conservation.AAConTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1214 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>0</td>
1215 <td></td>
1216 </tr>
1217 <tr>
1218 <td title='compbio.runner.disorder.DisemblTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1219 <td>compbio.runner.disorder.DisemblTester@5d469658</td><td>1</td>
1220 <td></td>
1221 </tr>
1222 <tr>
1223 <td title='compbio.runner.disorder.GlobPlotTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1224 <td>compbio.runner.disorder.GlobPlotTester@45389b3f</td><td>0</td>
1225 <td></td>
1226 </tr>
1227 <tr>
1228 <td title='compbio.runner.disorder.IUPredTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1229 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>0</td>
1230 <td></td>
1231 </tr>
1232 <tr>
1233 <td title='compbio.runner.disorder.JronnTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1234 <td>compbio.runner.disorder.JronnTester@3d3b5a3a</td><td>18</td>
1235 <td></td>
1236 </tr>
1237 <tr>
1238 <td title='compbio.runner.msa.ClustalWTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1239 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>0</td>
1240 <td></td>
1241 </tr>
1242 <tr>
1243 <td title='compbio.runner.msa.MafftTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1244 <td>compbio.runner.msa.MafftTester@5f0f0625</td><td>0</td>
1245 <td></td>
1246 </tr>
1247 <tr>
1248 <td title='compbio.runner.msa.MuscleTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1249 <td>compbio.runner.msa.MuscleTester@63f8247d</td><td>0</td>
1250 <td></td>
1251 </tr>
1252 <tr>
1253 <td title='compbio.runner.msa.ProbconsTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1254 <td>compbio.runner.msa.ProbconsTester@32830122</td><td>0</td>
1255 <td></td>
1256 </tr>
1257 <tr>
1258 <td title='compbio.runner.msa.TcoffeeTester.testPersistance()'><b>testPersistance</b><br>Test class:Ant test</td>
1259 <td>compbio.runner.msa.TcoffeeTester@54a6af6e</td><td>0</td>
1260 <td></td>
1261 </tr>
1262 <tr>
1263 <td title='compbio.metadata.PresetTester.testPresetWithMuptiOptions()'><b>testPresetWithMuptiOptions</b><br>Test class:Ant test</td>
1264 <td>compbio.metadata.PresetTester@7a4fe91e</td><td>0</td>
1265 <td></td>
1266 </tr>
1267 <tr>
1268 <td title='compbio.runner.msa.ClustalWParametersTester.testPresets()'><b>testPresets</b><br>Test class:Ant test</td>
1269 <td>compbio.runner.msa.ClustalWParametersTester@74e2ad16</td><td>0</td>
1270 <td></td>
1271 </tr>
1272 <tr>
1273 <td title='compbio.runner.msa.MafftParametersTester.testPresets()'><b>testPresets</b><br>Test class:Ant test</td>
1274 <td>compbio.runner.msa.MafftParametersTester@35a8d460</td><td>0</td>
1275 <td></td>
1276 </tr>
1277 <tr>
1278 <td title='compbio.runner.msa.MuscleParametersTester.testPresets()'><b>testPresets</b><br>Test class:Ant test</td>
1279 <td>compbio.runner.msa.MuscleParametersTester@535c97e4</td><td>0</td>
1280 <td></td>
1281 </tr>
1282 <tr>
1283 <td title='compbio.runner.msa.TcoffeeParametersTester.testPresets()'><b>testPresets</b><br>Test class:Ant test</td>
1284 <td>compbio.runner.msa.TcoffeeParametersTester@36bf7916</td><td>0</td>
1285 <td></td>
1286 </tr>
1287 <tr>
1288 <td title='compbio.data.sequence.FastaSequenceGeneratorTester.testProteinSequenceGeneration()'><b>testProteinSequenceGeneration</b><br>Test class:Ant test</td>
1289 <td>compbio.data.sequence.FastaSequenceGeneratorTester@3a98350a</td><td>0</td>
1290 <td></td>
1291 </tr>
1292 <tr>
1293 <td title='compbio.engine.FilePullerTester.testPull()'><b>testPull</b><br>Test class:Ant test</td>
1294 <td>compbio.engine.FilePullerTester@1e670479</td><td>0</td>
1295 <td></td>
1296 </tr>
1297 <tr>
1298 <td title='compbio.engine.cluster.dundee._QueueTester.testQueue()'><b>testQueue</b><br>Test class:Ant test</td>
1299 <td>compbio.engine.cluster.dundee._QueueTester@584a5c78</td><td>0</td>
1300 <td></td>
1301 </tr>
1302 <tr>
1303 <td title='compbio.data.sequence.SequenceUtilTester.testReadAAConResults()'><b>testReadAAConResults</b><br>Test class:Ant test</td>
1304 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1305 <td></td>
1306 </tr>
1307 <tr>
1308 <td title='compbio.data.sequence.ClustalAlignmentUtilTester.testReadClustalFile()'><b>testReadClustalFile</b><br>Test class:Ant test</td>
1309 <td>compbio.data.sequence.ClustalAlignmentUtilTester@44739f3f</td><td>0</td>
1310 <td></td>
1311 </tr>
1312 <tr>
1313 <td title='compbio.data.sequence.ClustalAlignmentUtilTester.testReadClustalFileLongNames()'><b>testReadClustalFileLongNames</b><br>Test class:Ant test</td>
1314 <td>compbio.data.sequence.ClustalAlignmentUtilTester@44739f3f</td><td>0</td>
1315 <td></td>
1316 </tr>
1317 <tr>
1318 <td title='compbio.data.sequence.ClustalAlignmentUtilTester.testReadClustalFileShortNames()'><b>testReadClustalFileShortNames</b><br>Test class:Ant test</td>
1319 <td>compbio.data.sequence.ClustalAlignmentUtilTester@44739f3f</td><td>0</td>
1320 <td></td>
1321 </tr>
1322 <tr>
1323 <td title='compbio.data.sequence.SequenceUtilTester.testReadDisemblResults()'><b>testReadDisemblResults</b><br>Test class:Ant test</td>
1324 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1325 <td></td>
1326 </tr>
1327 <tr>
1328 <td title='compbio.data.sequence.SequenceUtilTester.testReadGlobPlotResults()'><b>testReadGlobPlotResults</b><br>Test class:Ant test</td>
1329 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1330 <td></td>
1331 </tr>
1332 <tr>
1333 <td title='compbio.data.sequence.SequenceUtilTester.testReadIUPredForGlobDomain()'><b>testReadIUPredForGlobDomain</b><br>Test class:Ant test</td>
1334 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1335 <td></td>
1336 </tr>
1337 <tr>
1338 <td title='compbio.data.sequence.SequenceUtilTester.testReadIUPredForShortAndLongDisorder()'><b>testReadIUPredForShortAndLongDisorder</b><br>Test class:Ant test</td>
1339 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1340 <td></td>
1341 </tr>
1342 <tr>
1343 <td title='compbio.runner.disorder.IUPredTester.testReadResults()'><b>testReadResults</b><br>Test class:Ant test</td>
1344 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>0</td>
1345 <td></td>
1346 </tr>
1347 <tr>
1348 <td title='compbio.data.sequence.SequenceUtilTester.testReadWriteFasta()'><b>testReadWriteFasta</b><br>Test class:Ant test</td>
1349 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1350 <td></td>
1351 </tr>
1352 <tr>
1353 <td title='compbio.runner.conservation.AAConTester.testRunLocally()'><b>testRunLocally</b><br>Test class:Ant test</td>
1354 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>0</td>
1355 <td></td>
1356 </tr>
1357 <tr>
1358 <td title='compbio.runner.disorder.DisemblTester.testRunLocally()'><b>testRunLocally</b><br>Test class:Ant test</td>
1359 <td>compbio.runner.disorder.DisemblTester@5d469658</td><td>0</td>
1360 <td></td>
1361 </tr>
1362 <tr>
1363 <td title='compbio.runner.disorder.GlobPlotTester.testRunLocally()'><b>testRunLocally</b><br>Test class:Ant test</td>
1364 <td>compbio.runner.disorder.GlobPlotTester@45389b3f</td><td>0</td>
1365 <td></td>
1366 </tr>
1367 <tr>
1368 <td title='compbio.runner.disorder.IUPredTester.testRunLocally()'><b>testRunLocally</b><br>Test class:Ant test</td>
1369 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>0</td>
1370 <td></td>
1371 </tr>
1372 <tr>
1373 <td title='compbio.runner.disorder.JronnTester.testRunLocally()'><b>testRunLocally</b><br>Test class:Ant test</td>
1374 <td>compbio.runner.disorder.JronnTester@3d3b5a3a</td><td>18</td>
1375 <td></td>
1376 </tr>
1377 <tr>
1378 <td title='compbio.runner.msa.ClustalWTester.testRunLocally()'><b>testRunLocally</b><br>Test class:Ant test</td>
1379 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>0</td>
1380 <td></td>
1381 </tr>
1382 <tr>
1383 <td title='compbio.runner.msa.MuscleTester.testRunLocally()'><b>testRunLocally</b><br>Test class:Ant test</td>
1384 <td>compbio.runner.msa.MuscleTester@63f8247d</td><td>0</td>
1385 <td></td>
1386 </tr>
1387 <tr>
1388 <td title='compbio.runner.conservation.AAConTester.testRunLocallyOnTwoCpu()'><b>testRunLocallyOnTwoCpu</b><br>Test class:Ant test</td>
1389 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>0</td>
1390 <td></td>
1391 </tr>
1392 <tr>
1393 <td title='compbio.runner.disorder.JronnTester.testRunLocallyOnTwoCpu()'><b>testRunLocallyOnTwoCpu</b><br>Test class:Ant test</td>
1394 <td>compbio.runner.disorder.JronnTester@3d3b5a3a</td><td>7</td>
1395 <td></td>
1396 </tr>
1397 <tr>
1398 <td title='compbio.runner.disorder.IUPredTester.testRunLocallyWithParams()'><b>testRunLocallyWithParams</b><br>Test class:Ant test</td>
1399 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>0</td>
1400 <td></td>
1401 </tr>
1402 <tr>
1403 <td title='compbio.runner.conservation.AAConTester.testRunLocallyWithPreset()'><b>testRunLocallyWithPreset</b><br>Test class:Ant test</td>
1404 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>0</td>
1405 <td></td>
1406 </tr>
1407 <tr>
1408 <td title='compbio.runner.conservation.AAConTester.testRunOnCluster()'><b>testRunOnCluster</b><br>Test class:Ant test</td>
1409 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>3</td>
1410 <td></td>
1411 </tr>
1412 <tr>
1413 <td title='compbio.runner.disorder.DisemblTester.testRunOnCluster()'><b>testRunOnCluster</b><br>Test class:Ant test</td>
1414 <td>compbio.runner.disorder.DisemblTester@5d469658</td><td>2</td>
1415 <td></td>
1416 </tr>
1417 <tr>
1418 <td title='compbio.runner.disorder.GlobPlotTester.testRunOnCluster()'><b>testRunOnCluster</b><br>Test class:Ant test</td>
1419 <td>compbio.runner.disorder.GlobPlotTester@45389b3f</td><td>2</td>
1420 <td></td>
1421 </tr>
1422 <tr>
1423 <td title='compbio.runner.disorder.IUPredTester.testRunOnCluster()'><b>testRunOnCluster</b><br>Test class:Ant test</td>
1424 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>3</td>
1425 <td></td>
1426 </tr>
1427 <tr>
1428 <td title='compbio.runner.disorder.JronnTester.testRunOnCluster()'><b>testRunOnCluster</b><br>Test class:Ant test</td>
1429 <td>compbio.runner.disorder.JronnTester@3d3b5a3a</td><td>13</td>
1430 <td></td>
1431 </tr>
1432 <tr>
1433 <td title='compbio.runner.msa.ClustalWTester.testRunOnCluster()'><b>testRunOnCluster</b><br>Test class:Ant test</td>
1434 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>5</td>
1435 <td></td>
1436 </tr>
1437 <tr>
1438 <td title='compbio.runner.msa.MuscleTester.testRunOnCluster()'><b>testRunOnCluster</b><br>Test class:Ant test</td>
1439 <td>compbio.runner.msa.MuscleTester@63f8247d</td><td>3</td>
1440 <td></td>
1441 </tr>
1442 <tr>
1443 <td title='compbio.runner.conservation.AAConTester.testRunOnClusterAsync()'><b>testRunOnClusterAsync</b><br>Test class:Ant test</td>
1444 <td>compbio.runner.conservation.AAConTester@1959e6e8</td><td>5</td>
1445 <td></td>
1446 </tr>
1447 <tr>
1448 <td title='compbio.runner.disorder.DisemblTester.testRunOnClusterAsync()'><b>testRunOnClusterAsync</b><br>Test class:Ant test</td>
1449 <td>compbio.runner.disorder.DisemblTester@5d469658</td><td>6</td>
1450 <td></td>
1451 </tr>
1452 <tr>
1453 <td title='compbio.runner.disorder.GlobPlotTester.testRunOnClusterAsync()'><b>testRunOnClusterAsync</b><br>Test class:Ant test</td>
1454 <td>compbio.runner.disorder.GlobPlotTester@45389b3f</td><td>6</td>
1455 <td></td>
1456 </tr>
1457 <tr>
1458 <td title='compbio.runner.disorder.IUPredTester.testRunOnClusterAsync()'><b>testRunOnClusterAsync</b><br>Test class:Ant test</td>
1459 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>6</td>
1460 <td></td>
1461 </tr>
1462 <tr>
1463 <td title='compbio.runner.disorder.JronnTester.testRunOnClusterAsync()'><b>testRunOnClusterAsync</b><br>Test class:Ant test</td>
1464 <td>compbio.runner.disorder.JronnTester@3d3b5a3a</td><td>11</td>
1465 <td></td>
1466 </tr>
1467 <tr>
1468 <td title='compbio.runner.msa.MafftTester.testRunOnClusterAsyncCheckStatusLongPoolingTime()'><b>testRunOnClusterAsyncCheckStatusLongPoolingTime</b><br>Test class:Ant test</td>
1469 <td>compbio.runner.msa.MafftTester@5f0f0625</td><td>5</td>
1470 <td></td>
1471 </tr>
1472 <tr>
1473 <td title='compbio.runner.msa.ClustalWTester.testRunWithMatrix()'><b>testRunWithMatrix</b><br>Test class:Ant test</td>
1474 <td>compbio.runner.msa.ClustalWTester@3a0b53e</td><td>0</td>
1475 <td></td>
1476 </tr>
1477 <tr>
1478 <td title='compbio.engine.conf.RunnerConfigMarshallerTester.testSchemaFromCodeGeneration()'><b>testSchemaFromCodeGeneration</b><br>Test class:Ant test</td>
1479 <td>compbio.engine.conf.RunnerConfigMarshallerTester@29a7789c</td><td>0</td>
1480 <td></td>
1481 </tr>
1482 <tr>
1483 <td title='compbio.runner.msa.MafftTester.testSetInputTester()'><b>testSetInputTester</b><br>Test class:Ant test</td>
1484 <td>compbio.runner.msa.MafftTester@5f0f0625</td><td>0</td>
1485 <td></td>
1486 </tr>
1487 <tr>
1488 <td title='compbio.runner.msa.ProbconsTester.testSetInputTester()'><b>testSetInputTester</b><br>Test class:Ant test</td>
1489 <td>compbio.runner.msa.ProbconsTester@32830122</td><td>0</td>
1490 <td></td>
1491 </tr>
1492 <tr>
1493 <td title='compbio.runner.disorder.IUPredTester.testSetParameter()'><b>testSetParameter</b><br>Test class:Ant test</td>
1494 <td>compbio.runner.disorder.IUPredTester@758689a</td><td>0</td>
1495 <td></td>
1496 </tr>
1497 <tr>
1498 <td title='compbio.engine.client.CommandBuilderTester.testSpaceDelimiterExecutable()'><b>testSpaceDelimiterExecutable</b><br>Test class:Ant test</td>
1499 <td>compbio.engine.client.CommandBuilderTester@25cbfa42</td><td>0</td>
1500 <td></td>
1501 </tr>
1502 <tr>
1503 <td title='compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testSubmit()'><b>testSubmit</b><br>Test class:Ant test</td>
1504 <td>compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester@57c8b24d</td><td>3</td>
1505 <td></td>
1506 </tr>
1507 <tr>
1508 <td title='compbio.engine.cluster.drmaa.DrmaaClusterEngineTester.testSubmit()'><b>testSubmit</b><br>Test class:Ant test</td>
1509 <td>compbio.engine.cluster.drmaa.DrmaaClusterEngineTester@39320a41</td><td>3</td>
1510 <td></td>
1511 </tr>
1512 <tr>
1513 <td title='compbio.engine.local.AsyncLocalRunnerTester.testSubmitLocally()'><b>testSubmitLocally</b></td>
1514 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
1515 <td></td>
1516 </tr>
1517 <tr>
1518 <td title='compbio.engine.local.AsyncLocalRunnerTester.testSubmitLocally()'><b>testSubmitLocally</b></td>
1519 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
1520 <td></td>
1521 </tr>
1522 <tr>
1523 <td title='compbio.engine.local.AsyncLocalRunnerTester.testSubmitLocally()'><b>testSubmitLocally</b></td>
1524 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
1525 <td></td>
1526 </tr>
1527 <tr>
1528 <td title='compbio.engine.local.AsyncLocalRunnerTester.testSubmitLocally()'><b>testSubmitLocally</b></td>
1529 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
1530 <td></td>
1531 </tr>
1532 <tr>
1533 <td title='compbio.engine.local.AsyncLocalRunnerTester.testSubmitLocally()'><b>testSubmitLocally</b></td>
1534 <td>compbio.engine.local.AsyncLocalRunnerTester@31df5f21</td><td>0</td>
1535 <td></td>
1536 </tr>
1537 <tr>
1538 <td title='compbio.engine.cluster.drmaa.ClusterSessionTester.testTaskList()'><b>testTaskList</b><br>Test class:Ant test</td>
1539 <td>compbio.engine.cluster.drmaa.ClusterSessionTester@23de4dd8</td><td>3</td>
1540 <td></td>
1541 </tr>
1542 <tr>
1543 <td title='compbio.engine.conf.RunnerConfigMarshallerTester.testUnMarshalling()'><b>testUnMarshalling</b><br>Test class:Ant test</td>
1544 <td>compbio.engine.conf.RunnerConfigMarshallerTester@29a7789c</td><td>0</td>
1545 <td></td>
1546 </tr>
1547 <tr>
1548 <td title='compbio.metadata.OptionMarshallerTester.testUnMarshalling()'><b>testUnMarshalling</b><br>Test class:Ant test</td>
1549 <td>compbio.metadata.OptionMarshallerTester@6087e704</td><td>0</td>
1550 <td></td>
1551 </tr>
1552 <tr>
1553 <td title='compbio.stat.collector.ExecutionStatCollectorTester.testUpdateStatTester()'><b>testUpdateStatTester</b><br>Test class:Ant test</td>
1554 <td>compbio.stat.collector.ExecutionStatCollectorTester@b478a2d</td><td>35</td>
1555 <td></td>
1556 </tr>
1557 <tr>
1558 <td title='compbio.metadata.RunnerConfigTester.testValidate()'><b>testValidate</b><br>Test class:Ant test</td>
1559 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1560 <td></td>
1561 </tr>
1562 <tr>
1563 <td title='compbio.metadata.RunnerConfigTester.testValidateBoundaryConstrainCheck()'><b>testValidateBoundaryConstrainCheck</b><br>Test class:Ant test</td>
1564 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1565 <td></td>
1566 </tr>
1567 <tr>
1568 <td title='compbio.metadata.RunnerConfigTester.testValidateLowerBoundaryConstrainCheck()'><b>testValidateLowerBoundaryConstrainCheck</b><br>Test class:Ant test</td>
1569 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1570 <td><div><pre>compbio.metadata.WrongParameterException: Attempting to set default value outside boundaries defined by the constraint: Type: Float
1571 Min: -10.12
1572 Max: 0
1573
1574  For parameter: Option name: Matrix1
1575 Description: Protein weight matrix
1576 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1577 Is required: true
1578 Option Names:
1579 --AAMATRIX
1580 Type: Float
1581 Min: -10.12
1582 Max: 0
1583
1584
1585         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:248)
1586         at compbio.metadata.RunnerConfigTester.testValidateLowerBoundaryConstrainCheck(RunnerConfigTester.java:268)
1587 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace1382320624", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
1588 <div class='stack-trace' id='stack-trace1382320624'><pre>compbio.metadata.WrongParameterException: Attempting to set default value outside boundaries defined by the constraint: Type: Float
1589 Min: -10.12
1590 Max: 0
1591
1592  For parameter: Option name: Matrix1
1593 Description: Protein weight matrix
1594 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1595 Is required: true
1596 Option Names:
1597 --AAMATRIX
1598 Type: Float
1599 Min: -10.12
1600 Max: 0
1601
1602
1603         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:248)
1604         at compbio.metadata.RunnerConfigTester.testValidateLowerBoundaryConstrainCheck(RunnerConfigTester.java:268)
1605         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
1606         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
1607         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
1608         at java.lang.reflect.Method.invoke(Method.java:597)
1609         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
1610         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
1611         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
1612         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
1613         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
1614         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
1615         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
1616         at org.testng.TestRunner.privateRun(TestRunner.java:592)
1617         at org.testng.TestRunner.run(TestRunner.java:486)
1618         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
1619         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
1620         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
1621         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
1622         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
1623         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
1624         at org.testng.TestNG.run(TestNG.java:784)
1625         at org.testng.TestNG.privateMain(TestNG.java:949)
1626         at org.testng.TestNG.main(TestNG.java:922)
1627 </pre></div></td>
1628 </tr>
1629 <tr>
1630 <td title='compbio.metadata.RunnerConfigTester.testValidateUpperBoundaryConstrainCheck()'><b>testValidateUpperBoundaryConstrainCheck</b><br>Test class:Ant test</td>
1631 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1632 <td><div><pre>compbio.metadata.WrongParameterException: Attempting to set default value outside boundaries defined by the constraint: Type: Float
1633 Min: -10.12
1634 Max: 0
1635
1636  For parameter: Option name: Matrix1
1637 Description: Protein weight matrix
1638 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1639 Is required: true
1640 Option Names:
1641 --AAMATRIX
1642 Type: Float
1643 Min: -10.12
1644 Max: 0
1645
1646
1647         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:248)
1648         at compbio.metadata.RunnerConfigTester.testValidateUpperBoundaryConstrainCheck(RunnerConfigTester.java:296)
1649 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace853232781", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
1650 <div class='stack-trace' id='stack-trace853232781'><pre>compbio.metadata.WrongParameterException: Attempting to set default value outside boundaries defined by the constraint: Type: Float
1651 Min: -10.12
1652 Max: 0
1653
1654  For parameter: Option name: Matrix1
1655 Description: Protein weight matrix
1656 URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
1657 Is required: true
1658 Option Names:
1659 --AAMATRIX
1660 Type: Float
1661 Min: -10.12
1662 Max: 0
1663
1664
1665         at compbio.metadata.Parameter.setDefaultValue(Parameter.java:248)
1666         at compbio.metadata.RunnerConfigTester.testValidateUpperBoundaryConstrainCheck(RunnerConfigTester.java:296)
1667         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
1668         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
1669         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
1670         at java.lang.reflect.Method.invoke(Method.java:597)
1671         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
1672         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
1673         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
1674         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
1675         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
1676         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
1677         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
1678         at org.testng.TestRunner.privateRun(TestRunner.java:592)
1679         at org.testng.TestRunner.run(TestRunner.java:486)
1680         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
1681         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
1682         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
1683         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
1684         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
1685         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
1686         at org.testng.TestNG.run(TestNG.java:784)
1687         at org.testng.TestNG.privateMain(TestNG.java:949)
1688         at org.testng.TestNG.main(TestNG.java:922)
1689 </pre></div></td>
1690 </tr>
1691 <tr>
1692 <td title='compbio.metadata.RunnerConfigTester.testValidateValueConstrain()'><b>testValidateValueConstrain</b><br>Test class:Ant test</td>
1693 <td>compbio.metadata.RunnerConfigTester@1451ef4e</td><td>0</td>
1694 <td><div><pre>javax.xml.bind.ValidationException: Both boundaries (min and max) is undefined for ValueConstrain: Type: Float
1695
1696         at compbio.metadata.ValueConstrain.validate(ValueConstrain.java:208)
1697         at compbio.metadata.RunnerConfigTester.testValidateValueConstrain(RunnerConfigTester.java:341)
1698 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace206051672", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
1699 <div class='stack-trace' id='stack-trace206051672'><pre>javax.xml.bind.ValidationException: Both boundaries (min and max) is undefined for ValueConstrain: Type: Float
1700
1701         at compbio.metadata.ValueConstrain.validate(ValueConstrain.java:208)
1702         at compbio.metadata.RunnerConfigTester.testValidateValueConstrain(RunnerConfigTester.java:341)
1703         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
1704         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
1705         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
1706         at java.lang.reflect.Method.invoke(Method.java:597)
1707         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
1708         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
1709         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
1710         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
1711         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
1712         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
1713         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
1714         at org.testng.TestRunner.privateRun(TestRunner.java:592)
1715         at org.testng.TestRunner.run(TestRunner.java:486)
1716         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
1717         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
1718         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
1719         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
1720         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
1721         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
1722         at org.testng.TestNG.run(TestNG.java:784)
1723         at org.testng.TestNG.privateMain(TestNG.java:949)
1724         at org.testng.TestNG.main(TestNG.java:922)
1725 </pre></div></td>
1726 </tr>
1727 <tr>
1728 <td title='compbio.engine.conf.RunnerConfigMarshallerTester.testValidation()'><b>testValidation</b><br>Test class:Ant test</td>
1729 <td>compbio.engine.conf.RunnerConfigMarshallerTester@29a7789c</td><td>0</td>
1730 <td></td>
1731 </tr>
1732 <tr>
1733 <td title='compbio.engine.conf.RunnerConfigMarshallerTester.testValidationOnMarshalling()'><b>testValidationOnMarshalling</b><br>Test class:Ant test</td>
1734 <td>compbio.engine.conf.RunnerConfigMarshallerTester@29a7789c</td><td>0</td>
1735 <td><div><pre>javax.xml.bind.MarshalException
1736  - with linked exception:
1737 [org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.]
1738         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:323)
1739         at com.sun.xml.bind.v2.runtime.MarshallerImpl.marshal(MarshallerImpl.java:249)
1740         at javax.xml.bind.helpers.AbstractMarshallerImpl.marshal(AbstractMarshallerImpl.java:75)
1741         at compbio.engine.conf.RunnerConfigMarshaller.writeAndValidate(RunnerConfigMarshaller.java:88)
1742         at compbio.engine.conf.RunnerConfigMarshallerTester.testValidationOnMarshalling(RunnerConfigMarshallerTester.java:259)
1743 Caused by: org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.
1744         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.createSAXParseException(ErrorHandlerWrapper.java:195)
1745         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.error(ErrorHandlerWrapper.java:131)
1746         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:384)
1747         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:318)
1748         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator$XSIErrorReporter.reportError(XMLSchemaValidator.java:410)
1749         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.reportSchemaError(XMLSchemaValidator.java:3165)
1750         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.handleStartElement(XMLSchemaValidator.java:1777)
1751         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.startElement(XMLSchemaValidator.java:685)
1752         at com.sun.org.apache.xerces.internal.jaxp.validation.ValidatorHandlerImpl.startElement(ValidatorHandlerImpl.java:549)
1753         at org.xml.sax.helpers.XMLFilterImpl.startElement(XMLFilterImpl.java:527)
1754         at com.sun.xml.bind.v2.runtime.output.SAXOutput.endStartTag(SAXOutput.java:128)
1755         at com.sun.xml.bind.v2.runtime.output.ForkXmlOutput.endStartTag(ForkXmlOutput.java:106)
1756         at com.sun.xml.bind.v2.runtime.XMLSerializer.endAttributes(XMLSerializer.java:310)
1757         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsXsiType(XMLSerializer.java:699)
1758         at com.sun.xml.bind.v2.runtime.property.ArrayElementNodeProperty.serializeItem(ArrayElementNodeProperty.java:69)
1759         at com.sun.xml.bind.v2.runtime.property.ArrayElementProperty.serializeListBody(ArrayElementProperty.java:172)
1760         at com.sun.xml.bind.v2.runtime.property.ArrayERProperty.serializeBody(ArrayERProperty.java:159)
1761         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeBody(ClassBeanInfoImpl.java:344)
1762         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsSoleContent(XMLSerializer.java:597)
1763         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeRoot(ClassBeanInfoImpl.java:328)
1764         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsRoot(XMLSerializer.java:498)
1765         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:320)
1766         ... 26 more
1767 ... Removed 22 stack frames</pre></div><a href='#' onClick='toggleBox("stack-trace1252050054", this, "Click to show all stack frames", "Click to hide stack frames")'>Click to show all stack frames</a>
1768 <div class='stack-trace' id='stack-trace1252050054'><pre>javax.xml.bind.MarshalException
1769  - with linked exception:
1770 [org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.]
1771         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:323)
1772         at com.sun.xml.bind.v2.runtime.MarshallerImpl.marshal(MarshallerImpl.java:249)
1773         at javax.xml.bind.helpers.AbstractMarshallerImpl.marshal(AbstractMarshallerImpl.java:75)
1774         at compbio.engine.conf.RunnerConfigMarshaller.writeAndValidate(RunnerConfigMarshaller.java:88)
1775         at compbio.engine.conf.RunnerConfigMarshallerTester.testValidationOnMarshalling(RunnerConfigMarshallerTester.java:259)
1776         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
1777         at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
1778         at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
1779         at java.lang.reflect.Method.invoke(Method.java:597)
1780         at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
1781         at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
1782         at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
1783         at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
1784         at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
1785         at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
1786         at org.testng.TestRunner.runWorkers(TestRunner.java:759)
1787         at org.testng.TestRunner.privateRun(TestRunner.java:592)
1788         at org.testng.TestRunner.run(TestRunner.java:486)
1789         at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
1790         at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
1791         at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
1792         at org.testng.SuiteRunner.run(SuiteRunner.java:204)
1793         at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
1794         at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
1795         at org.testng.TestNG.run(TestNG.java:784)
1796         at org.testng.TestNG.privateMain(TestNG.java:949)
1797         at org.testng.TestNG.main(TestNG.java:922)
1798 Caused by: org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.
1799         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.createSAXParseException(ErrorHandlerWrapper.java:195)
1800         at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.error(ErrorHandlerWrapper.java:131)
1801         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:384)
1802         at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:318)
1803         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator$XSIErrorReporter.reportError(XMLSchemaValidator.java:410)
1804         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.reportSchemaError(XMLSchemaValidator.java:3165)
1805         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.handleStartElement(XMLSchemaValidator.java:1777)
1806         at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.startElement(XMLSchemaValidator.java:685)
1807         at com.sun.org.apache.xerces.internal.jaxp.validation.ValidatorHandlerImpl.startElement(ValidatorHandlerImpl.java:549)
1808         at org.xml.sax.helpers.XMLFilterImpl.startElement(XMLFilterImpl.java:527)
1809         at com.sun.xml.bind.v2.runtime.output.SAXOutput.endStartTag(SAXOutput.java:128)
1810         at com.sun.xml.bind.v2.runtime.output.ForkXmlOutput.endStartTag(ForkXmlOutput.java:106)
1811         at com.sun.xml.bind.v2.runtime.XMLSerializer.endAttributes(XMLSerializer.java:310)
1812         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsXsiType(XMLSerializer.java:699)
1813         at com.sun.xml.bind.v2.runtime.property.ArrayElementNodeProperty.serializeItem(ArrayElementNodeProperty.java:69)
1814         at com.sun.xml.bind.v2.runtime.property.ArrayElementProperty.serializeListBody(ArrayElementProperty.java:172)
1815         at com.sun.xml.bind.v2.runtime.property.ArrayERProperty.serializeBody(ArrayERProperty.java:159)
1816         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeBody(ClassBeanInfoImpl.java:344)
1817         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsSoleContent(XMLSerializer.java:597)
1818         at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeRoot(ClassBeanInfoImpl.java:328)
1819         at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsRoot(XMLSerializer.java:498)
1820         at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:320)
1821         ... 26 more
1822 </pre></div></td>
1823 </tr>
1824 <tr>
1825 <td title='compbio.stat.collector.StatDBTester.testVerifyJobsCount()'><b>testVerifyJobsCount</b><br>Test class:Ant test</td>
1826 <td>compbio.stat.collector.StatDBTester@5c09624</td><td>0</td>
1827 <td></td>
1828 </tr>
1829 <tr>
1830 <td title='compbio.metadata.OptionCombinatorTester.testgetAllOptions()'><b>testgetAllOptions</b><br>Test class:Ant test</td>
1831 <td>compbio.metadata.OptionCombinatorTester@2afb6c5f</td><td>0</td>
1832 <td></td>
1833 </tr>
1834 <tr>
1835 <td title='compbio.metadata.OptionCombinatorTester.testgetAllParameters()'><b>testgetAllParameters</b><br>Test class:Ant test</td>
1836 <td>compbio.metadata.OptionCombinatorTester@2afb6c5f</td><td>0</td>
1837 <td></td>
1838 </tr>
1839 <tr>
1840 <td title='compbio.data.sequence.SequenceUtilTester.testisNonAmbNucleotideSequence()'><b>testisNonAmbNucleotideSequence</b><br>Test class:Ant test</td>
1841 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1842 <td></td>
1843 </tr>
1844 <tr>
1845 <td title='compbio.data.sequence.SequenceUtilTester.testisProteinSequence()'><b>testisProteinSequence</b><br>Test class:Ant test</td>
1846 <td>compbio.data.sequence.SequenceUtilTester@235f4a7f</td><td>0</td>
1847 <td></td>
1848 </tr>
1849 <tr>
1850 <td title='compbio.engine.conf.PropertyHelperManagerTester.validateClustalConfiguration()'><b>validateClustalConfiguration</b><br>Test class:Ant test</td>
1851 <td>compbio.engine.conf.PropertyHelperManagerTester@4ee14d81</td><td>0</td>
1852 <td></td>
1853 </tr>
1854 <tr>
1855 <td title='compbio.engine.conf.PropertyHelperManagerTester.validateMafftConfiguration()'><b>validateMafftConfiguration</b><br>Test class:Ant test</td>
1856 <td>compbio.engine.conf.PropertyHelperManagerTester@4ee14d81</td><td>0</td>
1857 <td></td>
1858 </tr>
1859 <tr>
1860 <td title='compbio.engine.conf.PropertyHelperManagerTester.validateMuscleConfiguration()'><b>validateMuscleConfiguration</b><br>Test class:Ant test</td>
1861 <td>compbio.engine.conf.PropertyHelperManagerTester@4ee14d81</td><td>0</td>
1862 <td></td>
1863 </tr>
1864 <tr>
1865 <td title='compbio.metadata.PresetTester.validatePresets()'><b>validatePresets</b><br>Test class:Ant test</td>
1866 <td>compbio.metadata.PresetTester@7a4fe91e</td><td>0</td>
1867 <td></td>
1868 </tr>
1869 <tr>
1870 <td title='compbio.engine.conf.PropertyHelperManagerTester.validateTcoffeeConfiguration()'><b>validateTcoffeeConfiguration</b><br>Test class:Ant test</td>
1871 <td>compbio.engine.conf.PropertyHelperManagerTester@4ee14d81</td><td>0</td>
1872 <td></td>
1873 </tr>
1874 </table><p>
1875 </body>
1876 </html>