Details
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Type:
Bug
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Status:
Resolved
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Priority:
Minor
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Resolution: Fixed
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Affects Version/s: 1.7
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Fix Version/s: 1.7.1
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Component/s: Taverna GUI
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Labels:None
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Environment:All - but discovered on Mac OSX with T1.7.0
Description
Trying to move an Rshell component from one workflow to another.
Right-click and choose "Add new Workflow Scavenger" and then use a
URL to load the source workflow. The source workflow shows up in the
"Available Processors" list and the Rshell component is there, named
correctly. However when I add the component to the target workflow
the component has no input/output ports and the script content is
empty. This occurs whether I add the Source workflow using a http://
or a file:// url.
http://freelancepropaganda.com/temp/rshell_comp_not_scavenged.xml (attached)
Seems to be failing during RShellXMLHandler method loadProcessorFromXML(Element processorElement, ScuflModel model, String name)
where it trys to get the XML Element processorElement.getChild(RSHELL_TAG, XScufl.XScuflNS). RSHELL = "rshell" and XScuflNS is s:http://org.embl.ebi.escience/xscufl/0.1alpha
The overall XML it is trying to find the child from is
<s:rshell xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha" s:hostname="localhost" s:port="6311" s:username="" s:password="" s:keepSessionAlive="false"># Text for the test Rshell component.
test_output_port1 <- test_input_port1
test_output_port2 <- test_input_port2<s:rshellInputPortList><s:rshellInputPort s:syntacticType="'application/x-java-serialized-object'" s:symanticType="REXP">test_input_port_1</s:rshellInputPort><s:rshellInputPort s:syntacticType="'application/x-java-serialized-object'" s:symanticType="REXP">test_input_port_2</s:rshellInputPort></s:rshellInputPortList><s:rshellOutputPortList><s:rshellOutputPort s:syntacticType="'application/x-java-serialized-object'" s:symanticType="REXP">test_output_port_1</s:rshellOutputPort><s:rshellOutputPort s:syntacticType="'application/x-java-serialized-object'" s:symanticType="REXP">test_output_port_2</s:rshellOutputPort></s:rshellOutputPortList></s:rshell>
Is this valid XML?