[TAVERNA-94] Processors with looping fail

• Type: Bug
• Status: To Do
• Priority: Blocker
• Resolution: Unresolved
• Component/s: Taverna Engine
• Assignee: Unassigned
• Reporter: Stian Soiland-Reyes
• Created: 10/Oct/13 14:20
• Updated: 09/Jun/16 18:10

Description

Although it is not possible in alpha1 to create workflows with looping, loading them from t2flow should work.

This impacts any workflow using asynchronous services, such as the EBI Interproscan example in the starter pack.

However, the attached workflow (from http://www.myexperiment.org/workflows/1028/versions/3) fail to run in Taverna 3:

WARN  2013-10-10 14:17:18,648 (net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke:236) - Failed (INVOCATION) invoking net.sf.taverna.t2.activities.beanshell.BeanshellActivity@2d69627b for job DispatchJobEvent facade6:Dummy_example_of_looping:createJob[]: Uncaught exception while invoking net.sf.taverna.t2.activities.beanshell.BeanshellActivity@2d69627b
java.lang.NullPointerException
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop.receiveJob(Loop.java:140)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce.receiveJob(ErrorBounce.java:117)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.AbstractDispatchLayer.receiveJob(AbstractDispatchLayer.java:69)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.IntermediateProvenance.receiveJob(IntermediateProvenance.java:409)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize$StateModel.fillFromQueue(Parallelize.java:387)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize.receiveJobQueue(Parallelize.java:137)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.impl.DispatchStackImpl.receiveEvent(DispatchStackImpl.java:144)
	at net.sf.taverna.t2.workflowmodel.impl.ProcessorImpl$1.receiveEventFromStrategy(ProcessorImpl.java:121)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.impl.IterationStrategyImpl$TerminalNodeImpl.pushEvent(IterationStrategyImpl.java:106)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.impl.IterationStrategyImpl$TerminalNodeImpl.receiveJob(IterationStrategyImpl.java:92)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.AbstractIterationStrategyNode.pushJob(AbstractIterationStrategyNode.java:225)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.CrossProduct.innerReceiveJob(CrossProduct.java:57)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.CompletionHandlingAbstractIterationStrategyNode.receiveJob(CompletionHandlingAbstractIterationStrategyNode.java:96)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.AbstractIterationStrategyNode.pushJob(AbstractIterationStrategyNode.java:225)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.NamedInputPortNode.receiveJob(NamedInputPortNode.java:54)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.impl.IterationStrategyImpl.receiveData(IterationStrategyImpl.java:288)
	at net.sf.taverna.t2.workflowmodel.processor.iteration.impl.IterationStrategyStackImpl.receiveData(IterationStrategyStackImpl.java:123)
	at net.sf.taverna.t2.workflowmodel.impl.ProcessorInputPortImpl.pushData(ProcessorInputPortImpl.java:63)
	at net.sf.taverna.t2.workflowmodel.impl.AbstractFilteringInputPort.receiveToken(AbstractFilteringInputPort.java:103)
	at net.sf.taverna.t2.workflowmodel.impl.AbstractFilteringInputPort.receiveEvent(AbstractFilteringInputPort.java:57)
	at net.sf.taverna.t2.workflowmodel.impl.BasicEventForwardingOutputPort.sendEvent(BasicEventForwardingOutputPort.java:70)
	at net.sf.taverna.t2.workflowmodel.impl.ProcessorOutputPortImpl.receiveEvent(ProcessorOutputPortImpl.java:54)
	at net.sf.taverna.t2.workflowmodel.impl.ProcessorCrystalizerImpl.jobCreated(ProcessorCrystalizerImpl.java:66)
	at net.sf.taverna.t2.workflowmodel.impl.AbstractCrystalizer.receiveEvent(AbstractCrystalizer.java:90)
	at net.sf.taverna.t2.workflowmodel.impl.ProcessorImpl$2.pushEvent(ProcessorImpl.java:144)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.impl.DispatchStackImpl$TopLayer.receiveResult(DispatchStackImpl.java:277)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize.receiveResult(Parallelize.java:174)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.AbstractDispatchLayer.receiveResult(AbstractDispatchLayer.java:85)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.IntermediateProvenance.receiveResult(IntermediateProvenance.java:472)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.AbstractDispatchLayer.receiveResult(AbstractDispatchLayer.java:85)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.AbstractErrorHandlerLayer.receiveResult(AbstractErrorHandlerLayer.java:136)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.AbstractErrorHandlerLayer.receiveResult(AbstractErrorHandlerLayer.java:136)
	at net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke$InvokeCallBack.receiveResult(Invoke.java:340)
	at net.sf.taverna.t2.activities.beanshell.BeanshellActivity$1.run(BeanshellActivity.java:186)
	at java.lang.Thread.run(Thread.java:724)

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