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Add updated web site from JWS2 branch
[jabaws.git] / website / tests / Ant suite / Ant test.xml
diff --git a/website/tests/Ant suite/Ant test.xml b/website/tests/Ant suite/Ant test.xml
new file mode 100644 (file)
index 0000000..7af5c76
--- /dev/null
+++ b/website/tests/Ant suite/Ant test.xml
@@ -0,0 +1,169 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<testsuite name="Ant test" failures="0" tests="165" time="524.407" errors="0">
+  <properties/>
+  <testcase name="testPull" time="0.45" classname="compbio.engine.FilePullerTester"/>
+  <testcase name="testCache" time="6.006" classname="compbio.engine.FilePullerTester"/>
+  <testcase name="testArguments" time="3.518" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testConfiguration" time="0.0010" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testConstrainedParametersMaxValues" time="1.835" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testConstrainedParametersMinValues" time="1.232" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testConstrainedParametersRandomValues" time="3.105" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testDefaultParameters" time="0.502" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testOptions" time="2.109" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testParameters" time="2.68" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testPresets" time="0.177" classname="compbio.runner.msa.ClustalWParametersTester"/>
+  <testcase name="testReadClustalFile" time="0.022" classname="compbio.data.sequence.ClustalAlignmentUtilTester"/>
+  <testcase name="testReadClustalFileLongNames" time="0.052" classname="compbio.data.sequence.ClustalAlignmentUtilTester"/>
+  <testcase name="testReadClustalFileShortNames" time="0.054" classname="compbio.data.sequence.ClustalAlignmentUtilTester"/>
+  <testcase name="testProteinSequenceGeneration" time="0.0080" classname="compbio.data.sequence.FastaSequenceGeneratorTester"/>
+  <testcase name="testGetFormattedFasta" time="0.0" classname="compbio.data.sequence.FastaSequenceTester"/>
+  <testcase name="testCleanSequence" time="0.0" classname="compbio.data.sequence.SequenceUtilTester"/>
+  <testcase name="testDeepCleanSequence" time="0.0" classname="compbio.data.sequence.SequenceUtilTester"/>
+  <testcase name="testReadWriteFasta" time="0.016" classname="compbio.data.sequence.SequenceUtilTester"/>
+  <testcase name="testisNonAmbNucleotideSequence" time="0.0" classname="compbio.data.sequence.SequenceUtilTester"/>
+  <testcase name="testisProteinSequence" time="0.0" classname="compbio.data.sequence.SequenceUtilTester"/>
+  <testcase name="testGetAsyncEngine" time="0.296" classname="compbio.engine.EngineConfiguratorTester"/>
+  <testcase name="testGetSyncEngine" time="0.0" classname="compbio.engine.EngineConfiguratorTester"/>
+  <testcase name="testGetDelay" time="0.0" classname="compbio.engine.FilePullerTester"/>
+  <testcase name="testGet" time="0.046" classname="compbio.engine.FilePullerTester"/>
+  <testcase name="test" time="5.187" classname="compbio.engine.PulledFileCacheTester"/>
+  <testcase name="testCommandBuilding" time="0.0010" classname="compbio.engine.client.CommandBuilderTester"/>
+  <testcase name="testOptionsToCommand" time="0.567" classname="compbio.engine.client.CommandBuilderTester"/>
+  <testcase name="testSpaceDelimiterExecutable" time="0.0" classname="compbio.engine.client.CommandBuilderTester"/>
+  <testcase name="testGetClassPath" time="0.234" classname="compbio.engine.client.PathValidatorTester"/>
+  <testcase name="testIsAbsolutePath" time="0.0" classname="compbio.engine.client.PathValidatorTester"/>
+  <testcase name="testTaskList" time="8.964" classname="compbio.engine.cluster.drmaa.ClusterSessionTester"/>
+  <testcase name="testCancel" time="1.273" classname="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
+  <testcase name="testGetJobStatus" time="20.778" classname="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
+  <testcase name="testSubmit" time="18.714" classname="compbio.engine.cluster.drmaa.DrmaaAsyncClusterEngineTester"/>
+  <testcase name="testCancel" time="1.587" classname="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester"/>
+  <testcase name="testSubmit" time="17.835" classname="compbio.engine.cluster.drmaa.DrmaaClusterEngineTester"/>
+  <testcase name="testParser" time="0.0" classname="compbio.engine.cluster.drmaa.UtilTester"/>
+  <testcase name="testQueue" time="0.0" classname="compbio.engine.cluster.dundee._QueueTester"/>
+  <testcase name="testGetDirectory" time="0.1" classname="compbio.engine.conf.DirectoryManagerTester"/>
+  <testcase name="testGetDirectory" time="0.104" classname="compbio.engine.conf.DirectoryManagerTester"/>
+  <testcase name="testGetDirectory" time="0.11" classname="compbio.engine.conf.DirectoryManagerTester"/>
+  <testcase name="testGetDirectory" time="0.103" classname="compbio.engine.conf.DirectoryManagerTester"/>
+  <testcase name="testClusterEngineConf" time="0.104" classname="compbio.engine.conf.PropertyHelperManagerTester"/>
+  <testcase name="validateClustalConfiguration" time="0.043" classname="compbio.engine.conf.PropertyHelperManagerTester"/>
+  <testcase name="validateMafftConfiguration" time="0.0010" classname="compbio.engine.conf.PropertyHelperManagerTester"/>
+  <testcase name="validateMuscleConfiguration" time="0.0040" classname="compbio.engine.conf.PropertyHelperManagerTester"/>
+  <testcase name="validateTcoffeeConfiguration" time="0.0040" classname="compbio.engine.conf.PropertyHelperManagerTester"/>
+  <testcase name="testMarshalling" time="0.02" classname="compbio.engine.conf.RunnerConfigMarshallerTester"/>
+  <testcase name="testSchemaFromCodeGeneration" time="0.504" classname="compbio.engine.conf.RunnerConfigMarshallerTester"/>
+  <testcase name="testUnMarshalling" time="0.58" classname="compbio.engine.conf.RunnerConfigMarshallerTester"/>
+  <testcase name="testValidation" time="0.636" classname="compbio.engine.conf.RunnerConfigMarshallerTester"/>
+  <testcase name="testValidationOnMarshalling" time="0.011" classname="compbio.engine.conf.RunnerConfigMarshallerTester"/>
+  <testcase name="testAsyncCancelOperation" time="0.048" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testAsyncRetrievOperation" time="0.56" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testCancelCompletedTaskLocally" time="3.053" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testCancelLocally" time="0.027" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testGetStatus" time="20.872" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testGetStatus" time="20.915" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testGetStatus" time="21.332" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testGetStatus" time="40.987" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testGetStatus" time="20.863" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testMultipleCancelLocally" time="0.267" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testSubmitLocally" time="0.125" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testSubmitLocally" time="0.22" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testSubmitLocally" time="0.176" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testSubmitLocally" time="0.482" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testSubmitLocally" time="0.634" classname="compbio.engine.local.AsyncLocalRunnerTester"/>
+  <testcase name="testCancelCompletedTaskLocally" time="0.336" classname="compbio.engine.local.LocalRunnerTester"/>
+  <testcase name="testCancelLocally" time="0.02" classname="compbio.engine.local.LocalRunnerTester"/>
+  <testcase name="testMultipleCancelLocally" time="0.058" classname="compbio.engine.local.LocalRunnerTester"/>
+  <testcase name="testgetAllOptions" time="0.0010" classname="compbio.metadata.OptionCombinatorTester"/>
+  <testcase name="testgetAllParameters" time="0.0030" classname="compbio.metadata.OptionCombinatorTester"/>
+  <testcase name="testMarshalling" time="0.058" classname="compbio.metadata.OptionMarshallerTester"/>
+  <testcase name="testUnMarshalling" time="0.386" classname="compbio.metadata.OptionMarshallerTester"/>
+  <testcase name="marshallPreset" time="0.899" classname="compbio.metadata.PresetTester"/>
+  <testcase name="validatePresets" time="0.0010" classname="compbio.metadata.PresetTester"/>
+  <testcase name="testCreateNumParameterWithoutValidValue" time="0.0010" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testCreateParameter" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testCreateParameterWithValidValueConstrain" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testOptionNoDefaultValidate" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testOptionSetInvalidValue" time="0.0010" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testOptionToCommand" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testParameterToCommand" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testValidate" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testValidateBoundaryConstrainCheck" time="0.0010" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testValidateLowerBoundaryConstrainCheck" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testValidateUpperBoundaryConstrainCheck" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testValidateValueConstrain" time="0.0" classname="compbio.metadata.RunnerConfigTester"/>
+  <testcase name="testGetTestCommand" time="0.0010" classname="compbio.runner._impl.MclTester"/>
+  <testcase name="testGetTestCommand" time="0.0" classname="compbio.runner._impl.NetNglycTester"/>
+  <testcase name="testGetTestArgsCommand" time="0.0" classname="compbio.runner._impl.OBTester"/>
+  <testcase name="testGetTestCommand" time="0.0" classname="compbio.runner._impl.OBTester"/>
+  <testcase name="testGetTestArgsCommand" time="0.0" classname="compbio.runner._impl.RPSBlastTester"/>
+  <testcase name="testGetTestCommand" time="0.0" classname="compbio.runner._impl.RPSBlastTester"/>
+  <testcase name="testGetTestCommand" time="0.0" classname="compbio.runner._impl.RonnTester"/>
+  <testcase name="testGetTestCommand" time="0.0" classname="compbio.runner._impl.Tmhmm2Tester"/>
+  <testcase name="readStatistics" time="1.178" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="readStatisticsClusterExecution" time="8.121" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="testConfigurationLoading" time="0.688" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="testOptionsLocally" time="1.932" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="testPersistance" time="0.431" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="testRunLocally" time="0.171" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="testRunOnCluster" time="15.937" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="testRunWithMatrix" time="0.824" classname="compbio.runner.msa.ClustalWTester"/>
+  <testcase name="testLoadLimits" time="0.0" classname="compbio.runner.msa.LimitTester"/>
+  <testcase name="testArguments" time="6.103" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testConfiguration" time="0.0010" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testConstrainedParametersMaxValues" time="3.235" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testConstrainedParametersMinValues" time="1.326" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testConstrainedParametersRandomValues" time="7.672" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testDefaultParameters" time="20.463" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testOptions" time="4.449" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testParameters" time="2.422" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="testPresets" time="2.136" classname="compbio.runner.msa.MafftParametersTester"/>
+  <testcase name="readStatistics" time="0.639" classname="compbio.runner.msa.MafftTester"/>
+  <testcase name="testClusterExecute" time="11.34" classname="compbio.runner.msa.MafftTester"/>
+  <testcase name="testConfigurationLoading" time="0.435" classname="compbio.runner.msa.MafftTester"/>
+  <testcase name="testExecute" time="0.428" classname="compbio.runner.msa.MafftTester"/>
+  <testcase name="testPersistance" time="1.033" classname="compbio.runner.msa.MafftTester"/>
+  <testcase name="testRunOnClusterAsyncCheckStatusLongPoolingTime" time="21.418" classname="compbio.runner.msa.MafftTester"/>
+  <testcase name="testSetInputTester" time="0.0" classname="compbio.runner.msa.MafftTester"/>
+  <testcase name="testArguments" time="7.798" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testConfiguration" time="0.0" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testConstrainedParametersMaxValues" time="1.534" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testConstrainedParametersMinValues" time="0.845" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testConstrainedParametersRandomValues" time="7.603" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testDefaultParameters" time="0.622" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testOptions" time="2.481" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testParameters" time="4.773" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="testPresets" time="0.856" classname="compbio.runner.msa.MuscleParametersTester"/>
+  <testcase name="readStatistics" time="0.932" classname="compbio.runner.msa.MuscleTester"/>
+  <testcase name="testConfigurationLoading" time="0.313" classname="compbio.runner.msa.MuscleTester"/>
+  <testcase name="testPersistance" time="0.241" classname="compbio.runner.msa.MuscleTester"/>
+  <testcase name="testRunLocally" time="0.101" classname="compbio.runner.msa.MuscleTester"/>
+  <testcase name="testRunOnCluster" time="8.142" classname="compbio.runner.msa.MuscleTester"/>
+  <testcase name="testArguments" time="2.874" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="testConfiguration" time="0.0010" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="testConstrainedParametersMaxValues" time="38.416" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="testConstrainedParametersMinValues" time="0.768" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="testConstrainedParametersRandomValues" time="61.881" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="testDefaultParameters" time="14.704" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="testOptions" time="0.433" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="testParameters" time="1.321" classname="compbio.runner.msa.ProbconsParametersTester"/>
+  <testcase name="readStatistics" time="0.441" classname="compbio.runner.msa.ProbconsTester"/>
+  <testcase name="testClusterExecute" time="19.326" classname="compbio.runner.msa.ProbconsTester"/>
+  <testcase name="testConfigurationLoading" time="0.107" classname="compbio.runner.msa.ProbconsTester"/>
+  <testcase name="testExecute" time="0.436" classname="compbio.runner.msa.ProbconsTester"/>
+  <testcase name="testPersistance" time="0.509" classname="compbio.runner.msa.ProbconsTester"/>
+  <testcase name="testSetInputTester" time="0.0" classname="compbio.runner.msa.ProbconsTester"/>
+  <testcase name="testArguments" time="8.765" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testConfiguration" time="0.0" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testConstrainedParametersMaxValues" time="11.166" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testConstrainedParametersMinValues" time="5.507" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testConstrainedParametersRandomValues" time="21.942" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testDefaultParameters" time="10.988" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testOptions" time="0.891" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testParameters" time="12.717" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="testPresets" time="1.094" classname="compbio.runner.msa.TcoffeeParametersTester"/>
+  <testcase name="readStatistics" time="0.876" classname="compbio.runner.msa.TcoffeeTester"/>
+  <testcase name="testClusterExecute" time="5.526" classname="compbio.runner.msa.TcoffeeTester"/>
+  <testcase name="testConfigurationLoading" time="0.099" classname="compbio.runner.msa.TcoffeeTester"/>
+  <testcase name="testExecute" time="0.868" classname="compbio.runner.msa.TcoffeeTester"/>
+  <testcase name="testNcore" time="0.0010" classname="compbio.runner.msa.TcoffeeTester"/>
+  <testcase name="testPersistance" time="1.771" classname="compbio.runner.msa.TcoffeeTester"/>
+</testsuite>