Remove old test from web site to replace with most recent

[jabaws.git] / website / tests / testng-results.xml

diff --git a/website/tests/testng-results.xml b/website/tests/testng-results.xml
deleted file mode 100644 (file)
index 399a8e0..0000000
--- a/website/tests/testng-results.xml
+++ /dev/null
@@ -1,1435 +0,0 @@
-<testng-results>
-  <reporter-output>
-  </reporter-output>
-  <suite name="Ant suite">
-    <groups>
-      <group name="engine">
-        <method signature="compbio.engine.FilePullerTester.testGetDelay()" name="testGetDelay" class="compbio.engine.FilePullerTester"/>
-        <method signature="compbio.engine.FilePullerTester.testPull()" name="testPull" class="compbio.engine.FilePullerTester"/>
-        <method signature="compbio.engine.FilePullerTester.testCache()" name="testCache" class="compbio.engine.FilePullerTester"/>
-        <method signature="compbio.engine.cluster.drmaa.ClusterSessionTester.testTaskList()" name="testTaskList" class="compbio.engine.cluster.drmaa.ClusterSessionTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testCancel()" name="testCancel" class="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testGetJobStatus()" name="testGetJobStatus" class="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testSubmit()" name="testSubmit" class="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester.testCancel()" name="testCancel" class="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester.testSubmit()" name="testSubmit" class="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester"/>
-        <method signature="compbio.engine.local.AsyncLocalRunnerTester.testAsyncCancelOperation()" name="testAsyncCancelOperation" class="compbio.engine.local.AsyncLocalRunnerTester"/>
-        <method signature="compbio.engine.local.AsyncLocalRunnerTester.testAsyncRetrievOperation()" name="testAsyncRetrievOperation" class="compbio.engine.local.AsyncLocalRunnerTester"/>
-        <method signature="compbio.engine.local.AsyncLocalRunnerTester.testCancelCompletedTaskLocally()" name="testCancelCompletedTaskLocally" class="compbio.engine.local.AsyncLocalRunnerTester"/>
-        <method signature="compbio.engine.local.AsyncLocalRunnerTester.testCancelLocally()" name="testCancelLocally" class="compbio.engine.local.AsyncLocalRunnerTester"/>
-        <method signature="compbio.engine.local.AsyncLocalRunnerTester.testGetStatus()" name="testGetStatus" class="compbio.engine.local.AsyncLocalRunnerTester"/>
-        <method signature="compbio.engine.local.AsyncLocalRunnerTester.testMultipleCancelLocally()" name="testMultipleCancelLocally" class="compbio.engine.local.AsyncLocalRunnerTester"/>
-        <method signature="compbio.engine.local.AsyncLocalRunnerTester.testSubmitLocally()" name="testSubmitLocally" class="compbio.engine.local.AsyncLocalRunnerTester"/>
-        <method signature="compbio.engine.local.LocalRunnerTester.testCancelCompletedTaskLocally()" name="testCancelCompletedTaskLocally" class="compbio.engine.local.LocalRunnerTester"/>
-        <method signature="compbio.engine.local.LocalRunnerTester.testCancelLocally()" name="testCancelLocally" class="compbio.engine.local.LocalRunnerTester"/>
-        <method signature="compbio.engine.local.LocalRunnerTester.testMultipleCancelLocally()" name="testMultipleCancelLocally" class="compbio.engine.local.LocalRunnerTester"/>
-      </group>
-      <group name="cluster">
-        <method signature="compbio.engine.cluster.drmaa.ClusterSessionTester.testTaskList()" name="testTaskList" class="compbio.engine.cluster.drmaa.ClusterSessionTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testCancel()" name="testCancel" class="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testGetJobStatus()" name="testGetJobStatus" class="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testSubmit()" name="testSubmit" class="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester.testCancel()" name="testCancel" class="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester"/>
-        <method signature="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester.testSubmit()" name="testSubmit" class="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester"/>
-        <method signature="compbio.engine.conf.PropertyHelperManagerTester.testClusterEngineConf()" name="testClusterEngineConf" class="compbio.engine.conf.PropertyHelperManagerTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.readStatisticsClusterExecution()" name="readStatisticsClusterExecution" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.testRunOnCluster()" name="testRunOnCluster" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testRunOnClusterAsyncCheckStatusLongPoolingTime()" name="testRunOnClusterAsyncCheckStatusLongPoolingTime" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MuscleTester.testRunOnCluster()" name="testRunOnCluster" class="compbio.runner.msa.MuscleTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.TcoffeeTester"/>
-      </group>
-      <group name="runner">
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWParametersTester.testPresets()" name="testPresets" class="compbio.runner.msa.ClustalWParametersTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.readStatisticsClusterExecution()" name="readStatisticsClusterExecution" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.testConfigurationLoading()" name="testConfigurationLoading" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.testOptionsLocally()" name="testOptionsLocally" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.testRunLocally()" name="testRunLocally" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.testRunOnCluster()" name="testRunOnCluster" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.ClustalWTester.testRunWithMatrix()" name="testRunWithMatrix" class="compbio.runner.msa.ClustalWTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testPresets()" name="testPresets" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testConfigurationLoading()" name="testConfigurationLoading" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testExecute()" name="testExecute" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testRunOnClusterAsyncCheckStatusLongPoolingTime()" name="testRunOnClusterAsyncCheckStatusLongPoolingTime" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testSetInputTester()" name="testSetInputTester" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleParametersTester.testPresets()" name="testPresets" class="compbio.runner.msa.MuscleParametersTester"/>
-        <method signature="compbio.runner.msa.MuscleTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.MuscleTester"/>
-        <method signature="compbio.runner.msa.MuscleTester.testConfigurationLoading()" name="testConfigurationLoading" class="compbio.runner.msa.MuscleTester"/>
-        <method signature="compbio.runner.msa.MuscleTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.MuscleTester"/>
-        <method signature="compbio.runner.msa.MuscleTester.testRunLocally()" name="testRunLocally" class="compbio.runner.msa.MuscleTester"/>
-        <method signature="compbio.runner.msa.MuscleTester.testRunOnCluster()" name="testRunOnCluster" class="compbio.runner.msa.MuscleTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testConfigurationLoading()" name="testConfigurationLoading" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testExecute()" name="testExecute" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testSetInputTester()" name="testSetInputTester" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testPresets()" name="testPresets" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testConfigurationLoading()" name="testConfigurationLoading" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testExecute()" name="testExecute" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testNcore()" name="testNcore" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.TcoffeeTester"/>
-      </group>
-      <group name="non_windows">
-        <method signature="compbio.runner.msa.MafftParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftParametersTester.testPresets()" name="testPresets" class="compbio.runner.msa.MafftParametersTester"/>
-        <method signature="compbio.runner.msa.MafftTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testExecute()" name="testExecute" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testRunOnClusterAsyncCheckStatusLongPoolingTime()" name="testRunOnClusterAsyncCheckStatusLongPoolingTime" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.MafftTester.testSetInputTester()" name="testSetInputTester" class="compbio.runner.msa.MafftTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.ProbconsParametersTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testExecute()" name="testExecute" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.ProbconsTester.testSetInputTester()" name="testSetInputTester" class="compbio.runner.msa.ProbconsTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testArguments()" name="testArguments" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testDefaultParameters()" name="testDefaultParameters" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testOptions()" name="testOptions" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testParameters()" name="testParameters" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeParametersTester.testPresets()" name="testPresets" class="compbio.runner.msa.TcoffeeParametersTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.readStatistics()" name="readStatistics" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testClusterExecute()" name="testClusterExecute" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testExecute()" name="testExecute" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testNcore()" name="testNcore" class="compbio.runner.msa.TcoffeeTester"/>
-        <method signature="compbio.runner.msa.TcoffeeTester.testPersistance()" name="testPersistance" class="compbio.runner.msa.TcoffeeTester"/>
-      </group>
-    </groups>
-    <test name="Ant test">
-      <class name="compbio.engine.client.CommandBuilderTester">
-        <test-method status="PASS" signature="testCommandBuilding()" name="testCommandBuilding" duration-ms="1" started-at="2010-02-17T15:34:38Z" finished-at="2010-02-17T15:34:38Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptionsToCommand()" name="testOptionsToCommand" duration-ms="567" started-at="2010-02-17T15:34:38Z" finished-at="2010-02-17T15:34:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testSpaceDelimiterExecutable()" name="testSpaceDelimiterExecutable" duration-ms="0" started-at="2010-02-17T15:34:39Z" finished-at="2010-02-17T15:34:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.metadata.RunnerConfigTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="34" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testCreateNumParameterWithoutValidValue()" name="testCreateNumParameterWithoutValidValue" duration-ms="1" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-          <exception class="java.lang.IllegalStateException">
-            <message>
-              <![CDATA[Attempting to set default value for parameter: Option name: Matrix
-Description: DNA weight matrix
-URL: null
-Is required: false
-
- Without possible values! Please define possible value first!]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[java.lang.IllegalStateException: Attempting to set default value for parameter: Option name: Matrix
-Description: DNA weight matrix
-URL: null
-Is required: false
-
- Without possible values! Please define possible value first!
-       at compbio.metadata.Parameter.setDefaultValue(Parameter.java:234)
-       at compbio.metadata.RunnerConfigTester.testCreateNumParameterWithoutValidValue(RunnerConfigTester.java:222)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="15" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testCreateParameter()" name="testCreateParameter" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-          <exception class="compbio.metadata.WrongParameterException">
-            <message>
-              <![CDATA[Attempting to set illegal value 'pam22' for the parameter: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
-POSSIBLE VALUES:
-BLOSUM
-GONNET
-ID
-PAM
-
-]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[compbio.metadata.WrongParameterException: Attempting to set illegal value 'pam22' for the parameter: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
-POSSIBLE VALUES:
-BLOSUM
-GONNET
-ID
-PAM
-
-
-       at compbio.metadata.Parameter.setDefaultValue(Parameter.java:240)
-       at compbio.metadata.RunnerConfigTester.testCreateParameter(RunnerConfigTester.java:93)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="14" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testCreateParameterWithValidValueConstrain()" name="testCreateParameterWithValidValueConstrain" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="14" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptionNoDefaultValidate()" name="testOptionNoDefaultValidate" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-          <exception class="javax.xml.bind.ValidationException">
-            <message>
-              <![CDATA[Default value is required as multiple optionNames are defined for option: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
---ABMAT
---BBBB
-]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[javax.xml.bind.ValidationException: Default value is required as multiple optionNames are defined for option: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
---ABMAT
---BBBB
-
-       at compbio.metadata.Option.validate(Option.java:317)
-       at compbio.metadata.RunnerConfigTester.testOptionNoDefaultValidate(RunnerConfigTester.java:149)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="14" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptionSetInvalidValue()" name="testOptionSetInvalidValue" duration-ms="1" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-          <exception class="compbio.metadata.WrongParameterException">
-            <message>
-              <![CDATA[Attempting to set illegal defaultValue 'AAA' which is not defined optionNames for option: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
---ABMAT
---BBBB
-]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[compbio.metadata.WrongParameterException: Attempting to set illegal defaultValue 'AAA' which is not defined optionNames for option: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
---ABMAT
---BBBB
-
-       at compbio.metadata.Option.setDefaultValue(Option.java:130)
-       at compbio.metadata.RunnerConfigTester.testOptionSetInvalidValue(RunnerConfigTester.java:172)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="15" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="15" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptionToCommand()" name="testOptionToCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testParameterToCommand()" name="testParameterToCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="15" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testValidate()" name="testValidate" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="203" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testValidateBoundaryConstrainCheck()" name="testValidateBoundaryConstrainCheck" duration-ms="1" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="15" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testValidateLowerBoundaryConstrainCheck()" name="testValidateLowerBoundaryConstrainCheck" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-          <exception class="compbio.metadata.WrongParameterException">
-            <message>
-              <![CDATA[Attempting to set default value outside boundaries defined by the constraint: Type: Float
-Min: -10.12
-Max: 0
-
- For parameter: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
-Type: Float
-Min: -10.12
-Max: 0
-
-]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[compbio.metadata.WrongParameterException: Attempting to set default value outside boundaries defined by the constraint: Type: Float
-Min: -10.12
-Max: 0
-
- For parameter: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
-Type: Float
-Min: -10.12
-Max: 0
-
-
-       at compbio.metadata.Parameter.setDefaultValue(Parameter.java:248)
-       at compbio.metadata.RunnerConfigTester.testValidateLowerBoundaryConstrainCheck(RunnerConfigTester.java:268)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="15" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testValidateUpperBoundaryConstrainCheck()" name="testValidateUpperBoundaryConstrainCheck" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-          <exception class="compbio.metadata.WrongParameterException">
-            <message>
-              <![CDATA[Attempting to set default value outside boundaries defined by the constraint: Type: Float
-Min: -10.12
-Max: 0
-
- For parameter: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
-Type: Float
-Min: -10.12
-Max: 0
-
-]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[compbio.metadata.WrongParameterException: Attempting to set default value outside boundaries defined by the constraint: Type: Float
-Min: -10.12
-Max: 0
-
- For parameter: Option name: Matrix1
-Description: Protein weight matrix
-URL: http://www.compbio.dundee.ac.uk/users/pvtroshin/ws/Index.html
-Is required: true
-Option Names: 
---AAMATRIX
-Type: Float
-Min: -10.12
-Max: 0
-
-
-       at compbio.metadata.Parameter.setDefaultValue(Parameter.java:248)
-       at compbio.metadata.RunnerConfigTester.testValidateUpperBoundaryConstrainCheck(RunnerConfigTester.java:296)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="15" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testValidateValueConstrain()" name="testValidateValueConstrain" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-          <exception class="javax.xml.bind.ValidationException">
-            <message>
-              <![CDATA[Both boundaries (min and max) is undefined for ValueConstrain: Type: Float
-]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[javax.xml.bind.ValidationException: Both boundaries (min and max) is undefined for ValueConstrain: Type: Float
-
-       at compbio.metadata.ValueConstrain.validate(ValueConstrain.java:208)
-       at compbio.metadata.RunnerConfigTester.testValidateValueConstrain(RunnerConfigTester.java:341)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-      </class>
-      <class name="compbio.runner._impl.NetNglycTester">
-        <test-method status="PASS" signature="testGetTestCommand()" name="testGetTestCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.EngineConfiguratorTester">
-        <test-method status="PASS" signature="testGetAsyncEngine()" name="testGetAsyncEngine" duration-ms="296" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetSyncEngine()" name="testGetSyncEngine" duration-ms="0" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.MafftParametersTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="47" started-at="2010-02-17T15:37:09Z" finished-at="2010-02-17T15:37:09Z">
-        </test-method>
-        <test-method status="PASS" signature="testArguments()" name="testArguments" duration-ms="6103" started-at="2010-02-17T15:37:09Z" finished-at="2010-02-17T15:37:15Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="54" started-at="2010-02-17T15:37:15Z" finished-at="2010-02-17T15:37:15Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfiguration()" name="testConfiguration" duration-ms="1" started-at="2010-02-17T15:37:15Z" finished-at="2010-02-17T15:37:15Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="44" started-at="2010-02-17T15:37:15Z" finished-at="2010-02-17T15:37:15Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" duration-ms="3235" started-at="2010-02-17T15:37:15Z" finished-at="2010-02-17T15:37:18Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="47" started-at="2010-02-17T15:37:18Z" finished-at="2010-02-17T15:37:18Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" duration-ms="1326" started-at="2010-02-17T15:37:18Z" finished-at="2010-02-17T15:37:19Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="45" started-at="2010-02-17T15:37:19Z" finished-at="2010-02-17T15:37:20Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" duration-ms="7672" started-at="2010-02-17T15:37:20Z" finished-at="2010-02-17T15:37:27Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="47" started-at="2010-02-17T15:37:27Z" finished-at="2010-02-17T15:37:27Z">
-        </test-method>
-        <test-method status="PASS" signature="testDefaultParameters()" name="testDefaultParameters" duration-ms="20463" started-at="2010-02-17T15:37:27Z" finished-at="2010-02-17T15:37:48Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="55" started-at="2010-02-17T15:37:48Z" finished-at="2010-02-17T15:37:48Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptions()" name="testOptions" duration-ms="4449" started-at="2010-02-17T15:37:48Z" finished-at="2010-02-17T15:37:52Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="52" started-at="2010-02-17T15:37:52Z" finished-at="2010-02-17T15:37:52Z">
-        </test-method>
-        <test-method status="PASS" signature="testParameters()" name="testParameters" duration-ms="2422" started-at="2010-02-17T15:37:52Z" finished-at="2010-02-17T15:37:55Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="47" started-at="2010-02-17T15:37:55Z" finished-at="2010-02-17T15:37:55Z">
-        </test-method>
-        <test-method status="PASS" signature="testPresets()" name="testPresets" duration-ms="2136" started-at="2010-02-17T15:37:55Z" finished-at="2010-02-17T15:37:57Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner._impl.RonnTester">
-        <test-method status="PASS" signature="testGetTestCommand()" name="testGetTestCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.ProbconsTester">
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:09Z" finished-at="2010-02-17T15:41:09Z">
-        </test-method>
-        <test-method status="PASS" signature="readStatistics()" name="readStatistics" duration-ms="441" started-at="2010-02-17T15:41:09Z" finished-at="2010-02-17T15:41:10Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="1" started-at="2010-02-17T15:41:10Z" finished-at="2010-02-17T15:41:10Z">
-        </test-method>
-        <test-method status="PASS" signature="testClusterExecute()" name="testClusterExecute" duration-ms="19326" started-at="2010-02-17T15:41:10Z" finished-at="2010-02-17T15:41:29Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfigurationLoading()" name="testConfigurationLoading" duration-ms="107" started-at="2010-02-17T15:41:29Z" finished-at="2010-02-17T15:41:29Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:29Z" finished-at="2010-02-17T15:41:29Z">
-        </test-method>
-        <test-method status="PASS" signature="testExecute()" name="testExecute" duration-ms="436" started-at="2010-02-17T15:41:29Z" finished-at="2010-02-17T15:41:30Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:29Z" finished-at="2010-02-17T15:41:29Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:30Z" finished-at="2010-02-17T15:41:30Z">
-        </test-method>
-        <test-method status="PASS" signature="testPersistance()" name="testPersistance" duration-ms="509" started-at="2010-02-17T15:41:30Z" finished-at="2010-02-17T15:41:30Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:30Z" finished-at="2010-02-17T15:41:30Z">
-        </test-method>
-        <test-method status="PASS" signature="testSetInputTester()" name="testSetInputTester" duration-ms="0" started-at="2010-02-17T15:41:30Z" finished-at="2010-02-17T15:41:30Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.conf.PropertyHelperManagerTester">
-        <test-method status="PASS" signature="testLoadResources()" name="testLoadResources" is-config="true" duration-ms="2" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="testClusterEngineConf()" name="testClusterEngineConf" duration-ms="104" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="validateClustalConfiguration()" name="validateClustalConfiguration" duration-ms="43" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="validateMafftConfiguration()" name="validateMafftConfiguration" duration-ms="1" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="validateMuscleConfiguration()" name="validateMuscleConfiguration" duration-ms="4" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="validateTcoffeeConfiguration()" name="validateTcoffeeConfiguration" duration-ms="4" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-      </class>
-      <class name="compbio.metadata.OptionCombinatorTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="400" started-at="2010-02-17T15:36:37Z" finished-at="2010-02-17T15:36:37Z">
-        </test-method>
-        <test-method status="PASS" signature="testgetAllOptions()" name="testgetAllOptions" duration-ms="1" started-at="2010-02-17T15:36:37Z" finished-at="2010-02-17T15:36:37Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="111" started-at="2010-02-17T15:36:37Z" finished-at="2010-02-17T15:36:38Z">
-        </test-method>
-        <test-method status="PASS" signature="testgetAllParameters()" name="testgetAllParameters" duration-ms="3" started-at="2010-02-17T15:36:38Z" finished-at="2010-02-17T15:36:38Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.FilePullerTester">
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="1739" started-at="2010-02-17T15:34:08Z" finished-at="2010-02-17T15:34:10Z">
-        </test-method>
-        <test-method status="PASS" signature="loadPresets()" name="loadPresets" is-config="true" duration-ms="167" started-at="2010-02-17T15:34:10Z" finished-at="2010-02-17T15:34:10Z">
-        </test-method>
-        <test-method status="PASS" signature="testPull()" name="testPull" duration-ms="450" started-at="2010-02-17T15:34:10Z" finished-at="2010-02-17T15:34:11Z">
-        </test-method>
-        <test-method status="PASS" signature="testCache()" name="testCache" duration-ms="6006" started-at="2010-02-17T15:34:11Z" depends-on-methods="compbio.engine.FilePullerTester.testPull" finished-at="2010-02-17T15:34:17Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetDelay()" name="testGetDelay" duration-ms="0" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-        <test-method status="PASS" signature="testGet()" name="testGet" duration-ms="46" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.MuscleTester">
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:38:59Z" finished-at="2010-02-17T15:38:59Z">
-        </test-method>
-        <test-method status="PASS" signature="readStatistics()" name="readStatistics" duration-ms="932" started-at="2010-02-17T15:38:59Z" finished-at="2010-02-17T15:39:00Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="1" started-at="2010-02-17T15:39:00Z" finished-at="2010-02-17T15:39:00Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfigurationLoading()" name="testConfigurationLoading" duration-ms="313" started-at="2010-02-17T15:39:00Z" finished-at="2010-02-17T15:39:00Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="1" started-at="2010-02-17T15:39:00Z" finished-at="2010-02-17T15:39:00Z">
-        </test-method>
-        <test-method status="PASS" signature="testPersistance()" name="testPersistance" duration-ms="241" started-at="2010-02-17T15:39:00Z" finished-at="2010-02-17T15:39:01Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="1" started-at="2010-02-17T15:39:01Z" finished-at="2010-02-17T15:39:01Z">
-        </test-method>
-        <test-method status="PASS" signature="testRunLocally()" name="testRunLocally" duration-ms="101" started-at="2010-02-17T15:39:01Z" finished-at="2010-02-17T15:39:01Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="1" started-at="2010-02-17T15:39:01Z" finished-at="2010-02-17T15:39:01Z">
-        </test-method>
-        <test-method status="PASS" signature="testRunOnCluster()" name="testRunOnCluster" duration-ms="8142" started-at="2010-02-17T15:39:01Z" finished-at="2010-02-17T15:39:09Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.TcoffeeTester">
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="1" started-at="2010-02-17T15:42:43Z" finished-at="2010-02-17T15:42:43Z">
-        </test-method>
-        <test-method status="PASS" signature="readStatistics()" name="readStatistics" duration-ms="876" started-at="2010-02-17T15:42:43Z" finished-at="2010-02-17T15:42:44Z">
-        </test-method>
-        <test-method status="PASS" signature="testClusterExecute()" name="testClusterExecute" duration-ms="5526" started-at="2010-02-17T15:42:44Z" finished-at="2010-02-17T15:42:50Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:42:44Z" finished-at="2010-02-17T15:42:44Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfigurationLoading()" name="testConfigurationLoading" duration-ms="99" started-at="2010-02-17T15:42:50Z" finished-at="2010-02-17T15:42:50Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:42:50Z" finished-at="2010-02-17T15:42:50Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:42:50Z" finished-at="2010-02-17T15:42:50Z">
-        </test-method>
-        <test-method status="PASS" signature="testExecute()" name="testExecute" duration-ms="868" started-at="2010-02-17T15:42:50Z" finished-at="2010-02-17T15:42:51Z">
-        </test-method>
-        <test-method status="PASS" signature="testNcore()" name="testNcore" duration-ms="1" started-at="2010-02-17T15:42:51Z" finished-at="2010-02-17T15:42:51Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:42:51Z" finished-at="2010-02-17T15:42:51Z">
-        </test-method>
-        <test-method status="PASS" signature="testPersistance()" name="testPersistance" duration-ms="1771" started-at="2010-02-17T15:42:51Z" finished-at="2010-02-17T15:42:53Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:42:51Z" finished-at="2010-02-17T15:42:51Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.LimitTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="61" started-at="2010-02-17T15:37:09Z" finished-at="2010-02-17T15:37:09Z">
-        </test-method>
-        <test-method status="PASS" signature="testLoadLimits()" name="testLoadLimits" duration-ms="0" started-at="2010-02-17T15:37:09Z" finished-at="2010-02-17T15:37:09Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner._impl.OBTester">
-        <test-method status="PASS" signature="testGetTestCommand()" name="testGetTestCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetTestArgsCommand()" name="testGetTestArgsCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.local.LocalRunnerTester">
-        <test-method status="PASS" signature="testCancelCompletedTaskLocally()" name="testCancelCompletedTaskLocally" duration-ms="336" started-at="2010-02-17T15:36:37Z" finished-at="2010-02-17T15:36:37Z">
-          <exception class="java.util.concurrent.CancellationException">
-            <full-stacktrace>
-              <![CDATA[java.util.concurrent.CancellationException
-       at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
-       at java.util.concurrent.FutureTask.get(FutureTask.java:83)
-       at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
-       at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
-       at compbio.engine.local.LocalRunnerTester.testCancelCompletedTaskLocally(LocalRunnerTester.java:139)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="testCancelLocally()" name="testCancelLocally" duration-ms="20" started-at="2010-02-17T15:36:37Z" finished-at="2010-02-17T15:36:37Z">
-          <exception class="java.util.concurrent.CancellationException">
-            <full-stacktrace>
-              <![CDATA[java.util.concurrent.CancellationException
-       at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
-       at java.util.concurrent.FutureTask.get(FutureTask.java:83)
-       at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
-       at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
-       at compbio.engine.local.LocalRunnerTester.testCancelLocally(LocalRunnerTester.java:66)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="testMultipleCancelLocally()" name="testMultipleCancelLocally" duration-ms="58" started-at="2010-02-17T15:36:37Z" finished-at="2010-02-17T15:36:37Z">
-          <exception class="java.util.concurrent.CancellationException">
-            <full-stacktrace>
-              <![CDATA[java.util.concurrent.CancellationException
-       at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
-       at java.util.concurrent.FutureTask.get(FutureTask.java:83)
-       at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
-       at compbio.engine.local.LocalRunner.waitForResult(LocalRunner.java:99)
-       at compbio.engine.local.LocalRunnerTester.testMultipleCancelLocally(LocalRunnerTester.java:114)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-      </class>
-      <class name="compbio.engine.local.AsyncLocalRunnerTester">
-        <test-method status="PASS" signature="testAsyncCancelOperation()" name="testAsyncCancelOperation" duration-ms="48" started-at="2010-02-17T15:35:50Z" finished-at="2010-02-17T15:35:50Z">
-        </test-method>
-        <test-method status="PASS" signature="testAsyncRetrievOperation()" name="testAsyncRetrievOperation" duration-ms="560" started-at="2010-02-17T15:35:50Z" finished-at="2010-02-17T15:35:51Z">
-        </test-method>
-        <test-method status="PASS" signature="testCancelCompletedTaskLocally()" name="testCancelCompletedTaskLocally" duration-ms="3053" started-at="2010-02-17T15:35:51Z" finished-at="2010-02-17T15:35:54Z">
-        </test-method>
-        <test-method status="PASS" signature="testCancelLocally()" name="testCancelLocally" duration-ms="27" started-at="2010-02-17T15:35:54Z" finished-at="2010-02-17T15:35:54Z">
-          <exception class="java.util.concurrent.CancellationException">
-            <full-stacktrace>
-              <![CDATA[java.util.concurrent.CancellationException
-       at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
-       at java.util.concurrent.FutureTask.get(FutureTask.java:83)
-       at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
-       at compbio.engine.local.AsyncLocalRunner.getResults(AsyncLocalRunner.java:130)
-       at compbio.engine.local.AsyncLocalRunnerTester.testCancelLocally(AsyncLocalRunnerTester.java:105)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="testGetStatus()" name="testGetStatus" duration-ms="21332" started-at="2010-02-17T15:35:54Z" finished-at="2010-02-17T15:36:15Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetStatus()" name="testGetStatus" duration-ms="20872" started-at="2010-02-17T15:35:54Z" finished-at="2010-02-17T15:36:15Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetStatus()" name="testGetStatus" duration-ms="40987" started-at="2010-02-17T15:35:54Z" finished-at="2010-02-17T15:36:35Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetStatus()" name="testGetStatus" duration-ms="20915" started-at="2010-02-17T15:35:54Z" finished-at="2010-02-17T15:36:15Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetStatus()" name="testGetStatus" duration-ms="20863" started-at="2010-02-17T15:36:15Z" finished-at="2010-02-17T15:36:36Z">
-        </test-method>
-        <test-method status="PASS" signature="testMultipleCancelLocally()" name="testMultipleCancelLocally" duration-ms="267" started-at="2010-02-17T15:36:36Z" finished-at="2010-02-17T15:36:36Z">
-          <exception class="java.util.concurrent.CancellationException">
-            <full-stacktrace>
-              <![CDATA[java.util.concurrent.CancellationException
-       at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:220)
-       at java.util.concurrent.FutureTask.get(FutureTask.java:83)
-       at compbio.engine.local.LocalEngineUtil.getResults(LocalEngineUtil.java:108)
-       at compbio.engine.local.AsyncLocalRunner.getResults(AsyncLocalRunner.java:130)
-       at compbio.engine.local.AsyncLocalRunnerTester.testMultipleCancelLocally(AsyncLocalRunnerTester.java:239)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="testSubmitLocally()" name="testSubmitLocally" duration-ms="634" started-at="2010-02-17T15:36:36Z" finished-at="2010-02-17T15:36:37Z">
-        </test-method>
-        <test-method status="PASS" signature="testSubmitLocally()" name="testSubmitLocally" duration-ms="220" started-at="2010-02-17T15:36:36Z" finished-at="2010-02-17T15:36:36Z">
-        </test-method>
-        <test-method status="PASS" signature="testSubmitLocally()" name="testSubmitLocally" duration-ms="125" started-at="2010-02-17T15:36:36Z" finished-at="2010-02-17T15:36:36Z">
-        </test-method>
-        <test-method status="PASS" signature="testSubmitLocally()" name="testSubmitLocally" duration-ms="482" started-at="2010-02-17T15:36:36Z" finished-at="2010-02-17T15:36:36Z">
-        </test-method>
-        <test-method status="PASS" signature="testSubmitLocally()" name="testSubmitLocally" duration-ms="176" started-at="2010-02-17T15:36:36Z" finished-at="2010-02-17T15:36:36Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner._impl.Tmhmm2Tester">
-        <test-method status="PASS" signature="testGetTestCommand()" name="testGetTestCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.MafftTester">
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:37:57Z" finished-at="2010-02-17T15:37:57Z">
-        </test-method>
-        <test-method status="PASS" signature="readStatistics()" name="readStatistics" duration-ms="639" started-at="2010-02-17T15:37:57Z" finished-at="2010-02-17T15:37:57Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:37:57Z" finished-at="2010-02-17T15:37:57Z">
-        </test-method>
-        <test-method status="PASS" signature="testClusterExecute()" name="testClusterExecute" duration-ms="11340" started-at="2010-02-17T15:37:57Z" finished-at="2010-02-17T15:38:09Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfigurationLoading()" name="testConfigurationLoading" duration-ms="435" started-at="2010-02-17T15:38:09Z" finished-at="2010-02-17T15:38:09Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:38:09Z" finished-at="2010-02-17T15:38:09Z">
-        </test-method>
-        <test-method status="PASS" signature="testExecute()" name="testExecute" duration-ms="428" started-at="2010-02-17T15:38:09Z" finished-at="2010-02-17T15:38:10Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:38:09Z" finished-at="2010-02-17T15:38:09Z">
-        </test-method>
-        <test-method status="PASS" signature="testPersistance()" name="testPersistance" duration-ms="1033" started-at="2010-02-17T15:38:10Z" finished-at="2010-02-17T15:38:11Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:38:10Z" finished-at="2010-02-17T15:38:10Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:38:11Z" finished-at="2010-02-17T15:38:11Z">
-        </test-method>
-        <test-method status="PASS" signature="testRunOnClusterAsyncCheckStatusLongPoolingTime()" name="testRunOnClusterAsyncCheckStatusLongPoolingTime" duration-ms="21418" started-at="2010-02-17T15:38:11Z" finished-at="2010-02-17T15:38:32Z">
-        </test-method>
-        <test-method status="PASS" signature="testSetInputTester()" name="testSetInputTester" duration-ms="0" started-at="2010-02-17T15:38:32Z" finished-at="2010-02-17T15:38:32Z">
-        </test-method>
-        <test-method status="PASS" signature="init()" name="init" is-config="true" duration-ms="0" started-at="2010-02-17T15:38:32Z" finished-at="2010-02-17T15:38:32Z">
-        </test-method>
-      </class>
-      <class name="compbio.data.sequence.ClustalAlignmentUtilTester">
-        <test-method status="PASS" signature="testReadClustalFile()" name="testReadClustalFile" duration-ms="22" started-at="2010-02-17T15:34:32Z" finished-at="2010-02-17T15:34:32Z">
-        </test-method>
-        <test-method status="PASS" signature="testReadClustalFileLongNames()" name="testReadClustalFileLongNames" duration-ms="52" started-at="2010-02-17T15:34:32Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-        <test-method status="PASS" signature="testReadClustalFileShortNames()" name="testReadClustalFileShortNames" duration-ms="54" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.MuscleParametersTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="85" started-at="2010-02-17T15:38:32Z" finished-at="2010-02-17T15:38:32Z">
-        </test-method>
-        <test-method status="PASS" signature="testArguments()" name="testArguments" duration-ms="7798" started-at="2010-02-17T15:38:32Z" finished-at="2010-02-17T15:38:40Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="44" started-at="2010-02-17T15:38:40Z" finished-at="2010-02-17T15:38:40Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfiguration()" name="testConfiguration" duration-ms="0" started-at="2010-02-17T15:38:40Z" finished-at="2010-02-17T15:38:40Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="41" started-at="2010-02-17T15:38:40Z" finished-at="2010-02-17T15:38:40Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" duration-ms="1534" started-at="2010-02-17T15:38:40Z" finished-at="2010-02-17T15:38:42Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="44" started-at="2010-02-17T15:38:42Z" finished-at="2010-02-17T15:38:42Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" duration-ms="845" started-at="2010-02-17T15:38:42Z" finished-at="2010-02-17T15:38:43Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="43" started-at="2010-02-17T15:38:43Z" finished-at="2010-02-17T15:38:43Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" duration-ms="7603" started-at="2010-02-17T15:38:43Z" finished-at="2010-02-17T15:38:50Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="42" started-at="2010-02-17T15:38:50Z" finished-at="2010-02-17T15:38:50Z">
-        </test-method>
-        <test-method status="PASS" signature="testDefaultParameters()" name="testDefaultParameters" duration-ms="622" started-at="2010-02-17T15:38:50Z" finished-at="2010-02-17T15:38:51Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="42" started-at="2010-02-17T15:38:51Z" finished-at="2010-02-17T15:38:51Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptions()" name="testOptions" duration-ms="2481" started-at="2010-02-17T15:38:51Z" finished-at="2010-02-17T15:38:53Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="44" started-at="2010-02-17T15:38:53Z" finished-at="2010-02-17T15:38:53Z">
-        </test-method>
-        <test-method status="PASS" signature="testParameters()" name="testParameters" duration-ms="4773" started-at="2010-02-17T15:38:53Z" finished-at="2010-02-17T15:38:58Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="48" started-at="2010-02-17T15:38:58Z" finished-at="2010-02-17T15:38:58Z">
-        </test-method>
-        <test-method status="PASS" signature="testPresets()" name="testPresets" duration-ms="856" started-at="2010-02-17T15:38:58Z" finished-at="2010-02-17T15:38:59Z">
-        </test-method>
-      </class>
-      <class name="compbio.data.sequence.FastaSequenceGeneratorTester">
-        <test-method status="PASS" signature="testProteinSequenceGeneration()" name="testProteinSequenceGeneration" duration-ms="8" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.cluster.drmaa.ClusterSessionTester">
-        <test-method status="PASS" signature="testTaskList()" name="testTaskList" duration-ms="8964" started-at="2010-02-17T15:34:39Z" finished-at="2010-02-17T15:34:48Z">
-        </test-method>
-      </class>
-      <class name="compbio.data.sequence.FastaSequenceTester">
-        <test-method status="PASS" signature="testGetFormattedFasta()" name="testGetFormattedFasta" duration-ms="0" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.client.PathValidatorTester">
-        <test-method status="PASS" signature="testGetClassPath()" name="testGetClassPath" duration-ms="234" started-at="2010-02-17T15:34:39Z" finished-at="2010-02-17T15:34:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testIsAbsolutePath()" name="testIsAbsolutePath" duration-ms="0" started-at="2010-02-17T15:34:39Z" finished-at="2010-02-17T15:34:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.data.sequence.SequenceUtilTester">
-        <test-method status="PASS" signature="testCleanSequence()" name="testCleanSequence" duration-ms="0" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-        <test-method status="PASS" signature="testReadWriteFasta()" name="testReadWriteFasta" duration-ms="16" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-        <test-method status="PASS" signature="testDeepCleanSequence()" name="testDeepCleanSequence" duration-ms="0" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-        <test-method status="PASS" signature="testisNonAmbNucleotideSequence()" name="testisNonAmbNucleotideSequence" duration-ms="0" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-        <test-method status="PASS" signature="testisProteinSequence()" name="testisProteinSequence" duration-ms="0" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:33Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.TcoffeeParametersTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:30Z" finished-at="2010-02-17T15:41:30Z">
-        </test-method>
-        <test-method status="PASS" signature="testArguments()" name="testArguments" duration-ms="8765" started-at="2010-02-17T15:41:30Z" finished-at="2010-02-17T15:41:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfiguration()" name="testConfiguration" duration-ms="0" started-at="2010-02-17T15:41:39Z" finished-at="2010-02-17T15:41:39Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:39Z" finished-at="2010-02-17T15:41:39Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:39Z" finished-at="2010-02-17T15:41:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" duration-ms="11166" started-at="2010-02-17T15:41:39Z" finished-at="2010-02-17T15:41:50Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="1" started-at="2010-02-17T15:41:50Z" finished-at="2010-02-17T15:41:50Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" duration-ms="5507" started-at="2010-02-17T15:41:50Z" finished-at="2010-02-17T15:41:56Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:41:56Z" finished-at="2010-02-17T15:41:56Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" duration-ms="21942" started-at="2010-02-17T15:41:56Z" finished-at="2010-02-17T15:42:18Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="1" started-at="2010-02-17T15:42:18Z" finished-at="2010-02-17T15:42:18Z">
-        </test-method>
-        <test-method status="PASS" signature="testDefaultParameters()" name="testDefaultParameters" duration-ms="10988" started-at="2010-02-17T15:42:18Z" finished-at="2010-02-17T15:42:29Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptions()" name="testOptions" duration-ms="891" started-at="2010-02-17T15:42:29Z" finished-at="2010-02-17T15:42:30Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:42:29Z" finished-at="2010-02-17T15:42:29Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="1" started-at="2010-02-17T15:42:30Z" finished-at="2010-02-17T15:42:30Z">
-        </test-method>
-        <test-method status="PASS" signature="testParameters()" name="testParameters" duration-ms="12717" started-at="2010-02-17T15:42:30Z" finished-at="2010-02-17T15:42:42Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:42:42Z" finished-at="2010-02-17T15:42:42Z">
-        </test-method>
-        <test-method status="PASS" signature="testPresets()" name="testPresets" duration-ms="1094" started-at="2010-02-17T15:42:42Z" finished-at="2010-02-17T15:42:43Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.cluster.drmaa.UtilTester">
-        <test-method status="PASS" signature="testParser()" name="testParser" duration-ms="0" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.ClustalWTester">
-        <test-method status="PASS" signature="readStatistics()" name="readStatistics" duration-ms="1178" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:40Z">
-        </test-method>
-        <test-method status="PASS" signature="readStatisticsClusterExecution()" name="readStatisticsClusterExecution" duration-ms="8121" started-at="2010-02-17T15:36:40Z" finished-at="2010-02-17T15:36:49Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfigurationLoading()" name="testConfigurationLoading" duration-ms="688" started-at="2010-02-17T15:36:49Z" finished-at="2010-02-17T15:36:49Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptionsLocally()" name="testOptionsLocally" duration-ms="1932" started-at="2010-02-17T15:36:49Z" finished-at="2010-02-17T15:36:51Z">
-        </test-method>
-        <test-method status="PASS" signature="testPersistance()" name="testPersistance" duration-ms="431" started-at="2010-02-17T15:36:51Z" finished-at="2010-02-17T15:36:52Z">
-        </test-method>
-        <test-method status="PASS" signature="testRunLocally()" name="testRunLocally" duration-ms="171" started-at="2010-02-17T15:36:52Z" finished-at="2010-02-17T15:36:52Z">
-        </test-method>
-        <test-method status="PASS" signature="testRunOnCluster()" name="testRunOnCluster" duration-ms="15937" started-at="2010-02-17T15:36:52Z" finished-at="2010-02-17T15:37:08Z">
-        </test-method>
-        <test-method status="PASS" signature="testRunWithMatrix()" name="testRunWithMatrix" duration-ms="824" started-at="2010-02-17T15:37:08Z" finished-at="2010-02-17T15:37:09Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.conf.DirectoryManagerTester">
-        <test-method status="PASS" signature="testGetDirectory()" name="testGetDirectory" duration-ms="110" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetDirectory()" name="testGetDirectory" duration-ms="104" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetDirectory()" name="testGetDirectory" duration-ms="103" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetDirectory()" name="testGetDirectory" duration-ms="100" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester">
-        <test-method status="PASS" signature="testCancel()" name="testCancel" duration-ms="1587" started-at="2010-02-17T15:35:29Z" finished-at="2010-02-17T15:35:30Z">
-        </test-method>
-        <test-method status="PASS" signature="testSubmit()" name="testSubmit" duration-ms="17835" started-at="2010-02-17T15:35:30Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester">
-        <test-method status="PASS" signature="testCancel()" name="testCancel" duration-ms="1273" started-at="2010-02-17T15:34:48Z" finished-at="2010-02-17T15:34:49Z">
-          <exception class="compbio.metadata.ResultNotAvailableException">
-            <message>
-              <![CDATA[java.io.FileNotFoundException: Result for the jobId /homes/pvtroshin/workspace/clustengine/jobsout/local/ClustalW#6731244848891847 with file name TO1381.clustal.cluster.out is not found!]]>
-            </message>
-            <full-stacktrace>
-              <![CDATA[compbio.metadata.ResultNotAvailableException: java.io.FileNotFoundException: Result for the jobId /homes/pvtroshin/workspace/clustengine/jobsout/local/ClustalW#6731244848891847 with file name TO1381.clustal.cluster.out is not found!
-       at compbio.runner.msa.ClustalW.getResults(ClustalW.java:79)
-       at compbio.runner.msa.ClustalW.getResults(ClustalW.java:37)
-       at compbio.engine.client.ConfExecutable.getResults(ConfExecutable.java:206)
-       at compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester.testCancel(DrmaaAsyncClusterEngineTester.java:109)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-Caused by: java.io.FileNotFoundException: Result for the jobId /homes/pvtroshin/workspace/clustengine/jobsout/local/ClustalW#6731244848891847 with file name TO1381.clustal.cluster.out is not found!
-       at compbio.runner.Util.readClustalFile(Util.java:126)
-       at compbio.runner.msa.ClustalW.getResults(ClustalW.java:76)
-       ... 25 more
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="testGetJobStatus()" name="testGetJobStatus" duration-ms="20778" started-at="2010-02-17T15:34:49Z" finished-at="2010-02-17T15:35:10Z">
-        </test-method>
-        <test-method status="PASS" signature="testSubmit()" name="testSubmit" duration-ms="18714" started-at="2010-02-17T15:35:10Z" finished-at="2010-02-17T15:35:29Z">
-        </test-method>
-      </class>
-      <class name="compbio.metadata.PresetTester">
-        <test-method status="PASS" signature="marshallPreset()" name="marshallPreset" duration-ms="899" started-at="2010-02-17T15:36:38Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="validatePresets()" name="validatePresets" duration-ms="1" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.metadata.OptionMarshallerTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:36:38Z" finished-at="2010-02-17T15:36:38Z">
-        </test-method>
-        <test-method status="PASS" signature="testMarshalling()" name="testMarshalling" duration-ms="58" started-at="2010-02-17T15:36:38Z" finished-at="2010-02-17T15:36:38Z">
-          <exception class="javax.xml.bind.MarshalException">
-            <full-stacktrace>
-              <![CDATA[javax.xml.bind.MarshalException
- - with linked exception:
-[org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.]
-       at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:328)
-       at com.sun.xml.bind.v2.runtime.MarshallerImpl.marshal(MarshallerImpl.java:254)
-       at javax.xml.bind.helpers.AbstractMarshallerImpl.marshal(AbstractMarshallerImpl.java:75)
-       at compbio.engine.conf.RunnerConfigMarshaller.writeAndValidate(RunnerConfigMarshaller.java:88)
-       at compbio.metadata.OptionMarshallerTester.testMarshalling(OptionMarshallerTester.java:140)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-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.
-       at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.createSAXParseException(ErrorHandlerWrapper.java:195)
-       at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.error(ErrorHandlerWrapper.java:131)
-       at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:384)
-       at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:318)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator$XSIErrorReporter.reportError(XMLSchemaValidator.java:410)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.reportSchemaError(XMLSchemaValidator.java:3165)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.handleStartElement(XMLSchemaValidator.java:1777)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.startElement(XMLSchemaValidator.java:685)
-       at com.sun.org.apache.xerces.internal.jaxp.validation.ValidatorHandlerImpl.startElement(ValidatorHandlerImpl.java:549)
-       at org.xml.sax.helpers.XMLFilterImpl.startElement(XMLFilterImpl.java:527)
-       at com.sun.xml.bind.v2.runtime.output.SAXOutput.endStartTag(SAXOutput.java:124)
-       at com.sun.xml.bind.v2.runtime.output.ForkXmlOutput.endStartTag(ForkXmlOutput.java:102)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.endAttributes(XMLSerializer.java:305)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsXsiType(XMLSerializer.java:697)
-       at com.sun.xml.bind.v2.runtime.property.ArrayElementNodeProperty.serializeItem(ArrayElementNodeProperty.java:65)
-       at com.sun.xml.bind.v2.runtime.property.ArrayElementProperty.serializeListBody(ArrayElementProperty.java:168)
-       at com.sun.xml.bind.v2.runtime.property.ArrayERProperty.serializeBody(ArrayERProperty.java:152)
-       at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeBody(ClassBeanInfoImpl.java:332)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsSoleContent(XMLSerializer.java:592)
-       at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeRoot(ClassBeanInfoImpl.java:320)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsRoot(XMLSerializer.java:493)
-       at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:325)
-       ... 26 more
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="0" started-at="2010-02-17T15:36:38Z" finished-at="2010-02-17T15:36:38Z">
-        </test-method>
-        <test-method status="PASS" signature="testUnMarshalling()" name="testUnMarshalling" duration-ms="386" started-at="2010-02-17T15:36:38Z" finished-at="2010-02-17T15:36:38Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.PulledFileCacheTester">
-        <test-method status="PASS" signature="test()" name="test" duration-ms="5187" started-at="2010-02-17T15:34:33Z" finished-at="2010-02-17T15:34:38Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner._impl.RPSBlastTester">
-        <test-method status="PASS" signature="testGetTestArgsCommand()" name="testGetTestArgsCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-        <test-method status="PASS" signature="testGetTestCommand()" name="testGetTestCommand" duration-ms="0" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.ClustalWParametersTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="369" started-at="2010-02-17T15:34:17Z" finished-at="2010-02-17T15:34:17Z">
-        </test-method>
-        <test-method status="PASS" signature="testArguments()" name="testArguments" duration-ms="3518" started-at="2010-02-17T15:34:17Z" finished-at="2010-02-17T15:34:20Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="33" started-at="2010-02-17T15:34:20Z" finished-at="2010-02-17T15:34:20Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfiguration()" name="testConfiguration" duration-ms="1" started-at="2010-02-17T15:34:20Z" finished-at="2010-02-17T15:34:20Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="26" started-at="2010-02-17T15:34:20Z" finished-at="2010-02-17T15:34:20Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" duration-ms="1835" started-at="2010-02-17T15:34:20Z" finished-at="2010-02-17T15:34:22Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="30" started-at="2010-02-17T15:34:22Z" finished-at="2010-02-17T15:34:22Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" duration-ms="1232" started-at="2010-02-17T15:34:22Z" finished-at="2010-02-17T15:34:24Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="61" started-at="2010-02-17T15:34:24Z" finished-at="2010-02-17T15:34:24Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" duration-ms="3105" started-at="2010-02-17T15:34:24Z" finished-at="2010-02-17T15:34:27Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="53" started-at="2010-02-17T15:34:27Z" finished-at="2010-02-17T15:34:27Z">
-        </test-method>
-        <test-method status="PASS" signature="testDefaultParameters()" name="testDefaultParameters" duration-ms="502" started-at="2010-02-17T15:34:27Z" finished-at="2010-02-17T15:34:27Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="56" started-at="2010-02-17T15:34:27Z" finished-at="2010-02-17T15:34:27Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptions()" name="testOptions" duration-ms="2109" started-at="2010-02-17T15:34:27Z" finished-at="2010-02-17T15:34:29Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="54" started-at="2010-02-17T15:34:29Z" finished-at="2010-02-17T15:34:30Z">
-        </test-method>
-        <test-method status="PASS" signature="testParameters()" name="testParameters" duration-ms="2680" started-at="2010-02-17T15:34:30Z" finished-at="2010-02-17T15:34:32Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="77" started-at="2010-02-17T15:34:32Z" finished-at="2010-02-17T15:34:32Z">
-        </test-method>
-        <test-method status="PASS" signature="testPresets()" name="testPresets" duration-ms="177" started-at="2010-02-17T15:34:32Z" finished-at="2010-02-17T15:34:32Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner._impl.MclTester">
-        <test-method status="PASS" signature="testGetTestCommand()" name="testGetTestCommand" duration-ms="1" started-at="2010-02-17T15:36:39Z" finished-at="2010-02-17T15:36:39Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.cluster.dundee._QueueTester">
-        <test-method status="PASS" signature="testQueue()" name="testQueue" duration-ms="0" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-      </class>
-      <class name="compbio.runner.msa.ProbconsParametersTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="50" started-at="2010-02-17T15:39:09Z" finished-at="2010-02-17T15:39:09Z">
-        </test-method>
-        <test-method status="PASS" signature="testArguments()" name="testArguments" duration-ms="2874" started-at="2010-02-17T15:39:09Z" finished-at="2010-02-17T15:39:12Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="28" started-at="2010-02-17T15:39:12Z" finished-at="2010-02-17T15:39:12Z">
-        </test-method>
-        <test-method status="PASS" signature="testConfiguration()" name="testConfiguration" duration-ms="1" started-at="2010-02-17T15:39:12Z" finished-at="2010-02-17T15:39:12Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="29" started-at="2010-02-17T15:39:12Z" finished-at="2010-02-17T15:39:12Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMaxValues()" name="testConstrainedParametersMaxValues" duration-ms="38416" started-at="2010-02-17T15:39:12Z" finished-at="2010-02-17T15:39:50Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="38" started-at="2010-02-17T15:39:50Z" finished-at="2010-02-17T15:39:50Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersMinValues()" name="testConstrainedParametersMinValues" duration-ms="768" started-at="2010-02-17T15:39:50Z" finished-at="2010-02-17T15:39:51Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="29" started-at="2010-02-17T15:39:51Z" finished-at="2010-02-17T15:39:51Z">
-        </test-method>
-        <test-method status="PASS" signature="testConstrainedParametersRandomValues()" name="testConstrainedParametersRandomValues" duration-ms="61881" started-at="2010-02-17T15:39:51Z" finished-at="2010-02-17T15:40:53Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="29" started-at="2010-02-17T15:40:53Z" finished-at="2010-02-17T15:40:53Z">
-        </test-method>
-        <test-method status="PASS" signature="testDefaultParameters()" name="testDefaultParameters" duration-ms="14704" started-at="2010-02-17T15:40:53Z" finished-at="2010-02-17T15:41:08Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="28" started-at="2010-02-17T15:41:08Z" finished-at="2010-02-17T15:41:08Z">
-        </test-method>
-        <test-method status="PASS" signature="testOptions()" name="testOptions" duration-ms="433" started-at="2010-02-17T15:41:08Z" finished-at="2010-02-17T15:41:08Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="31" started-at="2010-02-17T15:41:08Z" finished-at="2010-02-17T15:41:08Z">
-        </test-method>
-        <test-method status="PASS" signature="testParameters()" name="testParameters" duration-ms="1321" started-at="2010-02-17T15:41:08Z" finished-at="2010-02-17T15:41:09Z">
-        </test-method>
-      </class>
-      <class name="compbio.engine.conf.RunnerConfigMarshallerTester">
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="29" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="testMarshalling()" name="testMarshalling" duration-ms="20" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="16" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:48Z">
-        </test-method>
-        <test-method status="PASS" signature="testSchemaFromCodeGeneration()" name="testSchemaFromCodeGeneration" duration-ms="504" started-at="2010-02-17T15:35:48Z" finished-at="2010-02-17T15:35:49Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="67" started-at="2010-02-17T15:35:49Z" finished-at="2010-02-17T15:35:49Z">
-        </test-method>
-        <test-method status="PASS" signature="testUnMarshalling()" name="testUnMarshalling" duration-ms="580" started-at="2010-02-17T15:35:49Z" finished-at="2010-02-17T15:35:50Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="18" started-at="2010-02-17T15:35:50Z" finished-at="2010-02-17T15:35:50Z">
-        </test-method>
-        <test-method status="PASS" signature="testValidation()" name="testValidation" duration-ms="636" started-at="2010-02-17T15:35:50Z" finished-at="2010-02-17T15:35:50Z">
-        </test-method>
-        <test-method status="PASS" signature="setup()" name="setup" is-config="true" duration-ms="16" started-at="2010-02-17T15:35:50Z" finished-at="2010-02-17T15:35:50Z">
-        </test-method>
-        <test-method status="PASS" signature="testValidationOnMarshalling()" name="testValidationOnMarshalling" duration-ms="11" started-at="2010-02-17T15:35:50Z" finished-at="2010-02-17T15:35:50Z">
-          <exception class="javax.xml.bind.MarshalException">
-            <full-stacktrace>
-              <![CDATA[javax.xml.bind.MarshalException
- - with linked exception:
-[org.xml.sax.SAXParseException: cvc-complex-type.2.4.a: Invalid content was found starting with element 'options'. One of '{runnerClassName}' is expected.]
-       at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:328)
-       at com.sun.xml.bind.v2.runtime.MarshallerImpl.marshal(MarshallerImpl.java:254)
-       at javax.xml.bind.helpers.AbstractMarshallerImpl.marshal(AbstractMarshallerImpl.java:75)
-       at compbio.engine.conf.RunnerConfigMarshaller.writeAndValidate(RunnerConfigMarshaller.java:88)
-       at compbio.engine.conf.RunnerConfigMarshallerTester.testValidationOnMarshalling(RunnerConfigMarshallerTester.java:258)
-       at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
-       at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
-       at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
-       at java.lang.reflect.Method.invoke(Method.java:597)
-       at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:609)
-       at org.testng.internal.Invoker.invokeMethod(Invoker.java:532)
-       at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:686)
-       at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1018)
-       at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:128)
-       at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112)
-       at org.testng.TestRunner.runWorkers(TestRunner.java:759)
-       at org.testng.TestRunner.privateRun(TestRunner.java:592)
-       at org.testng.TestRunner.run(TestRunner.java:486)
-       at org.testng.SuiteRunner.runTest(SuiteRunner.java:332)
-       at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:327)
-       at org.testng.SuiteRunner.privateRun(SuiteRunner.java:299)
-       at org.testng.SuiteRunner.run(SuiteRunner.java:204)
-       at org.testng.TestNG.createAndRunSuiteRunners(TestNG.java:912)
-       at org.testng.TestNG.runSuitesLocally(TestNG.java:876)
-       at org.testng.TestNG.run(TestNG.java:784)
-       at org.testng.TestNG.privateMain(TestNG.java:949)
-       at org.testng.TestNG.main(TestNG.java:922)
-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.
-       at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.createSAXParseException(ErrorHandlerWrapper.java:195)
-       at com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.error(ErrorHandlerWrapper.java:131)
-       at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:384)
-       at com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:318)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator$XSIErrorReporter.reportError(XMLSchemaValidator.java:410)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.reportSchemaError(XMLSchemaValidator.java:3165)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.handleStartElement(XMLSchemaValidator.java:1777)
-       at com.sun.org.apache.xerces.internal.impl.xs.XMLSchemaValidator.startElement(XMLSchemaValidator.java:685)
-       at com.sun.org.apache.xerces.internal.jaxp.validation.ValidatorHandlerImpl.startElement(ValidatorHandlerImpl.java:549)
-       at org.xml.sax.helpers.XMLFilterImpl.startElement(XMLFilterImpl.java:527)
-       at com.sun.xml.bind.v2.runtime.output.SAXOutput.endStartTag(SAXOutput.java:124)
-       at com.sun.xml.bind.v2.runtime.output.ForkXmlOutput.endStartTag(ForkXmlOutput.java:102)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.endAttributes(XMLSerializer.java:305)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsXsiType(XMLSerializer.java:697)
-       at com.sun.xml.bind.v2.runtime.property.ArrayElementNodeProperty.serializeItem(ArrayElementNodeProperty.java:65)
-       at com.sun.xml.bind.v2.runtime.property.ArrayElementProperty.serializeListBody(ArrayElementProperty.java:168)
-       at com.sun.xml.bind.v2.runtime.property.ArrayERProperty.serializeBody(ArrayERProperty.java:152)
-       at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeBody(ClassBeanInfoImpl.java:332)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsSoleContent(XMLSerializer.java:592)
-       at com.sun.xml.bind.v2.runtime.ClassBeanInfoImpl.serializeRoot(ClassBeanInfoImpl.java:320)
-       at com.sun.xml.bind.v2.runtime.XMLSerializer.childAsRoot(XMLSerializer.java:493)
-       at com.sun.xml.bind.v2.runtime.MarshallerImpl.write(MarshallerImpl.java:325)
-       ... 26 more
-]]>
-            </full-stacktrace>
-          </exception>
-        </test-method>
-      </class>
-    </test>
-  </suite>
-</testng-results>