<?xml version="1.0"?> | |
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<workflow xmlns="http://taverna.sf.net/2008/xml/t2flow" version="1" producedBy="taverna-2.2.0"><dataflow id="dc227a10-e8f6-44b0-88c5-c946a15ff669" role="top"><name>Workflow1</name><inputPorts /><outputPorts /><processors><processor><name>Beanshell</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.beanshell.BeanshellActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean xmlns=""> | |
<script>the | |
script;</script> | |
<dependencies /> | |
<classLoaderSharing>workflow</classLoaderSharing> | |
<localDependencies> | |
<string>a.jar</string> | |
<string>b.jar</string> | |
</localDependencies> | |
<artifactDependencies /> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>in1</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>text/plain</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>in2</name> | |
<depth>1</depth> | |
<mimeTypes> | |
<string>text/plain</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>out1</name> | |
<depth>0</depth> | |
<mimeTypes /> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>1</granularDepth> | |
<name>out2</name> | |
<depth>1</depth> | |
<mimeTypes /> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
</outputs> | |
</net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>Nested_workflow</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>dataflow-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.dataflow.DataflowActivity</class><inputMap /><outputMap /><configBean encoding="dataflow"><dataflow ref="a838d861-e4b8-4e7f-839c-e0fc748749b9" /></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>Rshell</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>rshell-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.rshell.RshellActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.rshell.RshellActivityConfigurationBean xmlns=""> | |
<rVersion>false</rVersion> | |
<script>rshell | |
script</script> | |
<connectionSettings> | |
<host>localhost</host> | |
<port>6311</port> | |
<username>user</username> | |
<password>passwd</password> | |
<keepSessionAlive>true</keepSessionAlive> | |
<newRVersion>false</newRVersion> | |
</connectionSettings> | |
<inputSymanticTypes> | |
<net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<name>in1</name> | |
<symanticType>STRING</symanticType> | |
</net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<name>in2</name> | |
<symanticType>DOUBLE</symanticType> | |
</net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<name>in3</name> | |
<symanticType>INTEGER_LIST</symanticType> | |
</net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
</inputSymanticTypes> | |
<outputSymanticTypes> | |
<net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<name>out1</name> | |
<symanticType reference="../../../inputSymanticTypes/net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean/symanticType" /> | |
</net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<name>out2</name> | |
<symanticType>PNG_FILE</symanticType> | |
</net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<name>out3</name> | |
<symanticType>STRING_LIST</symanticType> | |
</net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
<name>out4</name> | |
<symanticType reference="../../../inputSymanticTypes/net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean[2]/symanticType" /> | |
</net.sf.taverna.t2.activities.rshell.RShellPortSymanticTypeBean> | |
</outputSymanticTypes> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>in1</name> | |
<depth>0</depth> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>in2</name> | |
<depth>0</depth> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>in3</name> | |
<depth>1</depth> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>out1</name> | |
<depth>0</depth> | |
<mimeTypes /> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>out2</name> | |
<depth>0</depth> | |
<mimeTypes /> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>1</granularDepth> | |
<name>out3</name> | |
<depth>1</depth> | |
<mimeTypes /> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>out4</name> | |
<depth>0</depth> | |
<mimeTypes /> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
</outputs> | |
</net.sf.taverna.t2.activities.rshell.RshellActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>SpreadsheetImport</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>spreadsheet-import-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.spreadsheet.SpreadsheetImportActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.spreadsheet.SpreadsheetImportConfiguration xmlns=""> | |
<columnRange> | |
<start>0</start> | |
<end>2</end> | |
<excludes /> | |
</columnRange> | |
<rowRange> | |
<start>1</start> | |
<end>-1</end> | |
<excludes /> | |
</rowRange> | |
<emptyCellValue>empty</emptyCellValue> | |
<columnNames> | |
<entry> | |
<string>A</string> | |
<string>fish</string> | |
</entry> | |
<entry> | |
<string>B</string> | |
<string>soup</string> | |
</entry> | |
</columnNames> | |
<allRows>true</allRows> | |
<excludeFirstRow>true</excludeFirstRow> | |
<ignoreBlankRows>true</ignoreBlankRows> | |
<emptyCellPolicy>USER_DEFINED</emptyCellPolicy> | |
<outputFormat>PORT_PER_COLUMN</outputFormat> | |
<csvDelimiter>,</csvDelimiter> | |
</net.sf.taverna.t2.activities.spreadsheet.SpreadsheetImportConfiguration></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.LoopConfiguration xmlns=""> | |
<conditionXML><activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.beanshell.BeanshellActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean xmlns="">
 | |
<script>sdsdsd</script>
 | |
<dependencies />
 | |
<classLoaderSharing>workflow</classLoaderSharing>
 | |
<localDependencies>
 | |
<string>a.jar</string>
 | |
</localDependencies>
 | |
<artifactDependencies />
 | |
<inputs>
 | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
 | |
<handledReferenceSchemes />
 | |
<translatedElementType>java.lang.String</translatedElementType>
 | |
<allowsLiteralValues>true</allowsLiteralValues>
 | |
<name>in1</name>
 | |
<depth>0</depth>
 | |
<mimeTypes>
 | |
<string>text/plain</string>
 | |
</mimeTypes>
 | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
 | |
</inputs>
 | |
<outputs>
 | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
 | |
<granularDepth>0</granularDepth>
 | |
<name>out1</name>
 | |
<depth>0</depth>
 | |
<mimeTypes />
 | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
 | |
</outputs>
 | |
</net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean></configBean><annotations /></activity></conditionXML> | |
<runFirst>true</runFirst> | |
<properties> | |
<property name="comparison" value="custom" /> | |
</properties> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.LoopConfiguration></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>String_constant</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>stringconstant-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.stringconstant.StringConstantActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.stringconstant.StringConstantConfigurationBean xmlns=""> | |
<value>string</value> | |
</net.sf.taverna.t2.activities.stringconstant.StringConstantConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>14</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.LoopConfiguration xmlns=""> | |
<conditionXML><activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.beanshell.BeanshellActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean xmlns="">
 | |
<script>loop = "" + ! value.equals("ssdsd"); 
 | |
if ("true".matches(loop)) {
 | |
Thread.sleep(500);
 | |
}</script>
 | |
<dependencies />
 | |
<classLoaderSharing>workflow</classLoaderSharing>
 | |
<localDependencies />
 | |
<artifactDependencies />
 | |
<inputs>
 | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
 | |
<translatedElementType>java.lang.String</translatedElementType>
 | |
<allowsLiteralValues>true</allowsLiteralValues>
 | |
<name>value</name>
 | |
<depth>0</depth>
 | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
 | |
</inputs>
 | |
<outputs>
 | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
 | |
<granularDepth>0</granularDepth>
 | |
<name>loop</name>
 | |
<depth>0</depth>
 | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
 | |
</outputs>
 | |
</net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean></configBean><annotations /></activity></conditionXML> | |
<runFirst>true</runFirst> | |
<properties> | |
<property name="compareValue" value="ssdsd" /> | |
<property name="delay" value="0.5" /> | |
<property name="comparePort" value="value" /> | |
<property name="isFeedBack" value="true" /> | |
<property name="comparison" value="EqualTo" /> | |
</properties> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.LoopConfiguration></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>150</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>5</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>localWorker_bytearray</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>localworker-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.localworker.LocalworkerActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.localworker.LocalworkerActivityConfigurationBean xmlns=""> | |
<localworkerName>org.embl.ebi.escience.scuflworkers.java.EncodeBase64</localworkerName> | |
<script>import org.apache.commons.codec.binary.Base64; | |
base64 = new String(Base64.encodeBase64(bytes));</script> | |
<dependencies class="java.util.Collections$SingletonList"> | |
<element class="string">commons-codec:commons-codec:1.3</element> | |
</dependencies> | |
<classLoaderSharing>workflow</classLoaderSharing> | |
<localDependencies /> | |
<artifactDependencies> | |
<net.sf.taverna.raven.repository.BasicArtifact> | |
<groupId>commons-codec</groupId> | |
<artifactId>commons-codec</artifactId> | |
<version>1.3</version> | |
<hashCode>1635363350</hashCode> | |
<string>commons-codec:commons-codec:1.3</string> | |
</net.sf.taverna.raven.repository.BasicArtifact> | |
</artifactDependencies> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>[B</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>bytes</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>'application/octet-stream'</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>base64</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>'text/plain'</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
</outputs> | |
</net.sf.taverna.t2.activities.localworker.LocalworkerActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>localWorker</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>localworker-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.localworker.LocalworkerActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.localworker.LocalworkerActivityConfigurationBean xmlns=""> | |
<localworkerName>org.embl.ebi.escience.scuflworkers.java.FlattenList</localworkerName> | |
<script>flatten(inputs, outputs, depth) { | |
for (i = inputs.iterator(); i.hasNext();) { | |
element = i.next(); | |
if (element instanceof Collection && depth > 0) { | |
flatten(element, outputs, depth - 1); | |
} else { | |
outputs.add(element); | |
} | |
} | |
} | |
outputlist = new ArrayList(); | |
flatten(inputlist, outputlist, 1);</script> | |
<dependencies /> | |
<classLoaderSharing>workflow</classLoaderSharing> | |
<localDependencies /> | |
<artifactDependencies /> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>[B</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>inputlist</name> | |
<depth>2</depth> | |
<mimeTypes> | |
<string>l(l(''))</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>1</granularDepth> | |
<name>outputlist</name> | |
<depth>1</depth> | |
<mimeTypes> | |
<string>l('')</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
</outputs> | |
</net.sf.taverna.t2.activities.localworker.LocalworkerActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>mobyObject</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>biomoby-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.biomoby.BiomobyObjectActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.biomoby.BiomobyObjectActivityConfigurationBean xmlns=""> | |
<mobyEndpoint>http://moby.ucalgary.ca/moby/MOBY-Central.pl</mobyEndpoint> | |
<serviceName>AlleleAssociation</serviceName> | |
<authorityName>cegen.upf.es</authorityName> | |
</net.sf.taverna.t2.activities.biomoby.BiomobyObjectActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy><cross /></strategy></iteration></iterationStrategyStack></processor><processor><name>mobyService</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>biomoby-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.biomoby.BiomobyActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.biomoby.BiomobyActivityConfigurationBean xmlns=""> | |
<mobyEndpoint>http://moby.ucalgary.ca/moby/MOBY-Central.pl</mobyEndpoint> | |
<serviceName>getTmhmmPrediction</serviceName> | |
<authorityName>mips.gsf.de</authorityName> | |
<category /> | |
<serviceType /> | |
<secondaries /> | |
</net.sf.taverna.t2.activities.biomoby.BiomobyActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>soaplab</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>soaplab-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.soaplab.SoaplabActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.soaplab.SoaplabActivityConfigurationBean xmlns=""> | |
<endpoint>http://www.ebi.ac.uk/soaplab/services/feature_tables.coderet</endpoint> | |
<pollingInterval>4</pollingInterval> | |
<pollingBackoff>1.1</pollingBackoff> | |
<pollingIntervalMax>5</pollingIntervalMax> | |
</net.sf.taverna.t2.activities.soaplab.SoaplabActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>wsdl_document</name><inputPorts /><outputPorts><port><name>queryStatusOutput</name><depth>0</depth><granularDepth>0</granularDepth></port></outputPorts><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.wsdl.WSDLActivity</class><inputMap /><outputMap><map from="queryStatusOutput" to="queryStatusOutput" /></outputMap><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean xmlns=""> | |
<wsdl>http://webservices.genouest.org/typedservices/InterProScan.wsdl</wsdl> | |
<operation>queryStatus</operation> | |
<securityProfile>HTTPBasicAuthNPlainTextPassword</securityProfile> | |
</net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>xmlSplitter</name><inputPorts><port><name>input</name><depth>0</depth></port></inputPorts><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity</class><inputMap><map from="input" to="input" /></inputMap><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean xmlns=""> | |
<wrappedTypeXML><s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="queryStatusOutput" name="queryStatusOutput" qname="{http://nbcr.sdsc.edu/opal/types}queryStatusOutput"><s:elements><s:basetype optional="false" unbounded="false" typename="int" name="code" qname="StatusOutputType&gt;code" /><s:basetype optional="false" unbounded="false" typename="string" name="message" qname="StatusOutputType&gt;message" /><s:basetype optional="false" unbounded="false" typename="anyURI" name="baseURL" qname="StatusOutputType&gt;baseURL" /></s:elements></s:complextype></s:extensions></wrappedTypeXML> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>input</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/xml'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>code</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/plain'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>message</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/plain'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>baseURL</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/plain'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
</outputs> | |
</net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy><cross><port name="input" depth="0" /></cross></strategy></iteration></iterationStrategyStack></processor><processor><name>wsdl_rpc</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.wsdl.WSDLActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean xmlns=""> | |
<wsdl>http://soap.genome.jp/KEGG.wsdl</wsdl> | |
<operation>get_compounds_by_enzyme</operation> | |
</net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>wsdl_secured</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.wsdl.WSDLActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean xmlns=""> | |
<wsdl>http://soap.genome.jp/KEGG.wsdl</wsdl> | |
<operation>get_genes_by_organism</operation> | |
<securityProfile>WSSecurityTimestampUsernameTokenPlainTextPassword</securityProfile> | |
</net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>biomart</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>biomart-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.biomart.BiomartActivity</class><inputMap /><outputMap /><configBean encoding="jdomxml"><MartQuery xmlns=""><MartService location="http://www.biomart.org/biomart/martservice" /><MartDataset displayName="Drosophila melanogaster features (BDGP5.13)" name="dmelanogaster_feature_set" type="TableSet" initialBatchSize="200" maximumBatchSize="50000" visible="false" interface="default" modified="2010-06-07 11:08:23"><MartURLLocation database="functional_genomics_mart_58" default="0" displayName="ENSEMBL FUNCTIONAL GENOMICS 58 (SANGER UK)" host="www.biomart.org" includeDatasets="" martUser="" name="functional_genomics" path="/biomart/martservice" port="80" serverVirtualSchema="default" virtualSchema="default" visible="1" redirect="0" /></MartDataset><Query virtualSchemaName="default" count="0" uniqueRows="0" softwareVersion="0.6" requestId="taverna"><Dataset name="dmelanogaster_feature_set"><Attribute name="cell_type_display_label_1048" /><Attribute name="name_1011" /><Attribute name="display_label_1049" /><Filter name="chromosome_name" value="2L" /><Filter name="end" value="10000000" /><Filter name="start" value="1" /></Dataset></Query></MartQuery></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>Send_an_Email</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>localworker-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.localworker.LocalworkerActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.localworker.LocalworkerActivityConfigurationBean xmlns=""> | |
<localworkerName>org.embl.ebi.escience.scuflworkers.java.SendEmail</localworkerName> | |
<script>import javax.mail.Message; | |
import javax.mail.Session; | |
import javax.mail.Transport; | |
import javax.mail.internet.MimeMessage; | |
import javax.mail.internet.InternetAddress; | |
if (subject == void) { | |
subject = "No subject"; | |
} | |
if (body == void) { | |
throw new Exception("No body specified for message"); | |
} | |
Properties mailProps = System.getProperties(); | |
if (smtpserver != void) { | |
mailProps.put("mail.smtp.host", smtpserver); | |
} | |
Session session = Session.getDefaultInstance(mailProps, null); | |
MimeMessage message = new MimeMessage(session); | |
message.setFrom(new InternetAddress(from)); | |
message.addRecipient(Message.RecipientType.TO, new InternetAddress(to)); | |
message.setSubject(subject); | |
message.setText(body); | |
Transport.send(message); | |
</script> | |
<dependencies> | |
<string>javax.mail:mail:1.4</string> | |
<string>javax.activation:activation:1.1</string> | |
</dependencies> | |
<classLoaderSharing>workflow</classLoaderSharing> | |
<localDependencies /> | |
<artifactDependencies> | |
<net.sf.taverna.raven.repository.BasicArtifact> | |
<groupId>javax.mail</groupId> | |
<artifactId>mail</artifactId> | |
<version>1.4</version> | |
<hashCode>789035249</hashCode> | |
<string>javax.mail:mail:1.4</string> | |
</net.sf.taverna.raven.repository.BasicArtifact> | |
<net.sf.taverna.raven.repository.BasicArtifact> | |
<groupId>javax.activation</groupId> | |
<artifactId>activation</artifactId> | |
<version>1.1</version> | |
<hashCode>518094512</hashCode> | |
<string>javax.activation:activation:1.1</string> | |
</net.sf.taverna.raven.repository.BasicArtifact> | |
</artifactDependencies> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>to</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>'text/plain'</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>from</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>'text/plain'</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>subject</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>'text/plain'</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>body</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>'text/plain'</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>true</allowsLiteralValues> | |
<name>smtpserver</name> | |
<depth>0</depth> | |
<mimeTypes> | |
<string>'text/plain'</string> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs /> | |
</net.sf.taverna.t2.activities.localworker.LocalworkerActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>TavernaResearchObject</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>apiconsumer-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.apiconsumer.ApiConsumerActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.apiconsumer.ApiConsumerActivityConfigurationBean xmlns=""> | |
<apiConsumerName>No name</apiConsumerName> | |
<apiConsumerDescription>No description</apiConsumerDescription> | |
<description /> | |
<className>org.apache.taverna.scufl2.api.container.TavernaResearchObject</className> | |
<methodName>TavernaResearchObject</methodName> | |
<parameterNames /> | |
<parameterDimensions /> | |
<parameterTypes /> | |
<returnType>org.apache.taverna.scufl2.api.container.TavernaResearchObject</returnType> | |
<returnDimension>0</returnDimension> | |
<isMethodStatic>false</isMethodStatic> | |
<isMethodConstructor>true</isMethodConstructor> | |
<classLoaderSharing>workflow</classLoaderSharing> | |
<localDependencies /> | |
<artifactDependencies /> | |
<inputs /> | |
<outputs /> | |
</net.sf.taverna.t2.activities.apiconsumer.ApiConsumerActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>setWorkflows</name><inputPorts /><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>apiconsumer-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.apiconsumer.ApiConsumerActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.apiconsumer.ApiConsumerActivityConfigurationBean xmlns=""> | |
<apiConsumerName>No name</apiConsumerName> | |
<apiConsumerDescription>No description</apiConsumerDescription> | |
<description /> | |
<className>org.apache.taverna.scufl2.api.container.TavernaResearchObject</className> | |
<methodName>setWorkflows</methodName> | |
<parameterNames> | |
<string>workflows</string> | |
</parameterNames> | |
<parameterDimensions> | |
<int>0</int> | |
</parameterDimensions> | |
<parameterTypes> | |
<string>java.util.Set</string> | |
</parameterTypes> | |
<returnType>void</returnType> | |
<returnDimension>0</returnDimension> | |
<isMethodStatic>false</isMethodStatic> | |
<isMethodConstructor>false</isMethodConstructor> | |
<classLoaderSharing>workflow</classLoaderSharing> | |
<localDependencies> | |
<string>a.jar</string> | |
</localDependencies> | |
<artifactDependencies /> | |
<inputs /> | |
<outputs /> | |
</net.sf.taverna.t2.activities.apiconsumer.ApiConsumerActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>run</name><inputPorts><port><name>parameters</name><depth>0</depth></port></inputPorts><outputPorts><port><name>parameters</name><depth>0</depth><granularDepth>0</granularDepth></port></outputPorts><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.wsdl.WSDLActivity</class><inputMap><map from="parameters" to="parameters" /></inputMap><outputMap><map from="parameters" to="parameters" /></outputMap><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean xmlns=""> | |
<wsdl>http://www.ebi.ac.uk/Tools/services/soap/wublast?wsdl</wsdl> | |
<operation>run</operation> | |
</net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy><cross><port name="parameters" depth="0" /></cross></strategy></iteration></iterationStrategyStack></processor><processor><name>run_input</name><inputPorts /><outputPorts><port><name>output</name><depth>0</depth><granularDepth>0</granularDepth></port></outputPorts><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity</class><inputMap /><outputMap><map from="output" to="output" /></outputMap><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean xmlns=""> | |
<wrappedTypeXML><s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="run" name="parameters" qname="{http://soap.jdispatcher.ebi.ac.uk}run"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="email" qname="&gt;run&gt;email" /><s:basetype optional="true" unbounded="false" typename="string" name="title" qname="&gt;run&gt;title" /><s:complextype optional="false" unbounded="false" typename="InputParameters" name="parameters" qname="&gt;run&gt;parameters"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="program" qname="InputParameters&gt;program" /><s:basetype optional="true" unbounded="false" typename="string" name="exp" qname="InputParameters&gt;exp" /><s:basetype optional="true" unbounded="false" typename="int" name="alignments" qname="InputParameters&gt;alignments" /><s:basetype optional="true" unbounded="false" typename="int" name="scores" qname="InputParameters&gt;scores" /><s:basetype optional="true" unbounded="false" typename="int" name="align" qname="InputParameters&gt;align" /><s:basetype optional="true" unbounded="false" typename="string" name="matrix" qname="InputParameters&gt;matrix" /><s:basetype optional="true" unbounded="false" typename="string" name="stats" qname="InputParameters&gt;stats" /><s:basetype optional="true" unbounded="false" typename="string" name="sensitivity" qname="InputParameters&gt;sensitivity" /><s:basetype optional="true" unbounded="false" typename="string" name="topcombon" qname="InputParameters&gt;topcombon" /><s:basetype optional="true" unbounded="false" typename="boolean" name="viewfilter" qname="InputParameters&gt;viewfilter" /><s:basetype optional="true" unbounded="false" typename="string" name="filter" qname="InputParameters&gt;filter" /><s:basetype optional="true" unbounded="false" typename="string" name="strand" qname="InputParameters&gt;strand" /><s:basetype optional="true" unbounded="false" typename="string" name="sort" qname="InputParameters&gt;sort" /><s:basetype optional="false" unbounded="false" typename="string" name="stype" qname="InputParameters&gt;stype" /><s:basetype optional="true" unbounded="false" typename="string" name="sequence" qname="InputParameters&gt;sequence" /><s:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfString" name="database" qname="InputParameters&gt;database"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="" qname="{http://www.w3.org/2001/XMLSchema}string" /></s:elementtype></s:arraytype></s:elements></s:complextype></s:elements></s:complextype></s:extensions></wrappedTypeXML> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>email</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/plain'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>title</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/plain'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>parameters</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/xml'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>output</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/xml'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
</outputs> | |
</net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor><processor><name>run_output</name><inputPorts><port><name>input</name><depth>0</depth></port></inputPorts><outputPorts /><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity</class><inputMap><map from="input" to="input" /></inputMap><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean xmlns=""> | |
<wrappedTypeXML><s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="runResponse" name="parameters" qname="{http://soap.jdispatcher.ebi.ac.uk}runResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="jobId" qname="&gt;runResponse&gt;jobId" /></s:elements></s:complextype></s:extensions></wrappedTypeXML> | |
<inputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
<handledReferenceSchemes /> | |
<translatedElementType>java.lang.String</translatedElementType> | |
<allowsLiteralValues>false</allowsLiteralValues> | |
<name>input</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/xml'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> | |
</inputs> | |
<outputs> | |
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
<granularDepth>0</granularDepth> | |
<name>jobId</name> | |
<depth>0</depth> | |
<mimeTypes class="java.util.Collections$SingletonList"> | |
<element class="string">'text/plain'</element> | |
</mimeTypes> | |
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> | |
</outputs> | |
</net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy><cross><port name="input" depth="0" /></cross></strategy></iteration></iterationStrategyStack></processor></processors><conditions /><datalinks><datalink><sink type="processor"><processor>xmlSplitter</processor><port>input</port></sink><source type="processor"><processor>wsdl_document</processor><port>queryStatusOutput</port></source></datalink><datalink><sink type="processor"><processor>run</processor><port>parameters</port></sink><source type="processor"><processor>run_input</processor><port>output</port></source></datalink><datalink><sink type="processor"><processor>run_output</processor><port>input</port></sink><source type="processor"><processor>run</processor><port>parameters</port></source></datalink></datalinks><annotations><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>48fbf225-4742-47c4-830d-ecf9a2011021</identification> | |
</annotationBean> | |
<date>2010-07-21 13:51:40.494 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>811fc894-a25d-430a-b432-a56f48d1628b</identification> | |
</annotationBean> | |
<date>2010-07-21 13:51:27.321 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>8e91e2d8-c99e-4988-a18c-5cea4e568a51</identification> | |
</annotationBean> | |
<date>2010-07-21 13:19:53.260 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>dc227a10-e8f6-44b0-88c5-c946a15ff669</identification> | |
</annotationBean> | |
<date>2010-07-21 16:06:17.324 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>eb3d672e-f41f-4980-b6d2-805a2b1105ca</identification> | |
</annotationBean> | |
<date>2010-07-21 13:01:22.489 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>1798ae74-29b6-4a1d-a49e-3aa6850d03d0</identification> | |
</annotationBean> | |
<date>2010-07-21 11:02:50.119 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>8e3d420e-bb75-48d5-ab17-0f4351291c3f</identification> | |
</annotationBean> | |
<date>2010-07-21 13:20:20.418 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>23808b1d-f11b-4dca-a290-315bdfdfd6ad</identification> | |
</annotationBean> | |
<date>2010-07-21 14:04:18.367 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>407e1d06-a60d-41f6-ab72-1c6757f6111d</identification> | |
</annotationBean> | |
<date>2010-07-21 11:15:56.922 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2></annotations></dataflow><dataflow id="a838d861-e4b8-4e7f-839c-e0fc748749b9" role="nested"><name>Workflow4</name><inputPorts><port><name>in0</name><depth>0</depth><granularDepth>0</granularDepth><annotations /></port></inputPorts><outputPorts><port><name>out0</name><annotations /></port></outputPorts><processors><processor><name>String_constant</name><inputPorts /><outputPorts><port><name>value</name><depth>0</depth><granularDepth>0</granularDepth></port></outputPorts><annotations /><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>stringconstant-activity</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.activities.stringconstant.StringConstantActivity</class><inputMap /><outputMap><map from="value" to="value" /></outputMap><configBean encoding="xstream"><net.sf.taverna.t2.activities.stringconstant.StringConstantConfigurationBean xmlns=""> | |
<value>string</value> | |
</net.sf.taverna.t2.activities.stringconstant.StringConstantConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig xmlns=""> | |
<maxJobs>1</maxJobs> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig xmlns=""> | |
<backoffFactor>1.0</backoffFactor> | |
<initialDelay>1000</initialDelay> | |
<maxDelay>5000</maxDelay> | |
<maxRetries>0</maxRetries> | |
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.2</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean encoding="xstream"><null xmlns="" /></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy /></iteration></iterationStrategyStack></processor></processors><conditions /><datalinks><datalink><sink type="merge"><port>out0</port></sink><source type="processor"><processor>String_constant</processor><port>value</port></source></datalink><datalink><sink type="merge"><port>out0</port></sink><source type="dataflow"><port>in0</port></source></datalink></datalinks><annotations><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>a838d861-e4b8-4e7f-839c-e0fc748749b9</identification> | |
</annotationBean> | |
<date>2010-07-21 10:59:50.24 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2><annotation_chain_2_2 encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl xmlns=""> | |
<annotationAssertions> | |
<net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
<annotationBean class="net.sf.taverna.t2.annotation.annotationbeans.IdentificationAssertion"> | |
<identification>bd6a90b7-38a1-4693-8b0a-1be92fc19a4f</identification> | |
</annotationBean> | |
<date>2010-07-21 10:59:24.726 BST</date> | |
<creators /> | |
<curationEventList /> | |
</net.sf.taverna.t2.annotation.AnnotationAssertionImpl> | |
</annotationAssertions> | |
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain_2_2></annotations></dataflow></workflow> |