HiI am making a very simple workflow that runs searchSimple service from http://xml.nig.ac.jp/wsdl/Blast.wsdl.
The T1 and T2 workflows are in attachments The input values are: -query: >|query| AITRRVACLDGVNTATNAACCALFAVRDDIQQNLFDGGECGEEVHESLRLTFHDAIGISPSLAATGKFGGGGADGSIMIFDDIEPNFHANNGVDEIINAQKPFVAKHNMTAGDFIQFAGAVGVSNCPGAPQLSFFLGRPA -database PROTEIN -program blastp (see attached input file for t1). When I run run t1 workflow, I get proper result (BLAST output).When I run t2 workflow, I get "t2:ref//testNamespace?test23" written in results (in the lower, left corner), but the result browser in lower right corner is empty.
Am I doing something wrong or is it a bug? Jurek
<workflow xmlns="http://taverna.sf.net/2008/xml/t2flow"; version="1"><dataflow id="d2ab4c10-9ec8-4280-8b75-b9c2e23e5950" role="top"><name>dataflow0</name><inputPorts><port><name>query</name><depth>0</depth><granularDepth>0</granularDepth></port><port><name>program</name><depth>0</depth><granularDepth>0</granularDepth></port><port><name>database</name><depth>0</depth><granularDepth>0</granularDepth></port></inputPorts><outputPorts><port><name>result</name></port></outputPorts><processors><processor><name>searchSimple</name><inputPorts><port><name>database</name><depth>0</depth></port><port><name>program</name><depth>0</depth></port><port><name>query</name><depth>0</depth></port></inputPorts><outputPorts><port><name>Result</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>0.4</version></raven><class>net.sf.taverna.t2.activities.wsdl.WSDLActivity</class><inputMap><map from="query" to="query" /><map from="program" to="program" /><map from="database" to="database" /></inputMap><outputMap><map from="Result" to="Result" /></outputMap><configBean encoding="xstream"><net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean xmlns=""> <wsdl>http://xml.nig.ac.jp/wsdl/Blast.wsdl</wsdl> <operation>searchSimple</operation> </net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean></configBean><annotations /></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2</group><artifact>workflowmodel-impl</artifact><version>0.4</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</group><artifact>workflowmodel-impl</artifact><version>0.4</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</group><artifact>workflowmodel-impl</artifact><version>0.4</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</group><artifact>workflowmodel-impl</artifact><version>0.4</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</group><artifact>workflowmodel-impl</artifact><version>0.4</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="database" depth="0" /><port name="program" depth="0" /><port name="query" depth="0" /></cross></strategy></iteration></iterationStrategyStack></processor></processors><conditions /><datalinks><datalink><sink type="processor"><processor>searchSimple</processor><port>database</port></sink><source type="dataflow"><port>database</port></source></datalink><datalink><sink type="processor"><processor>searchSimple</processor><port>program</port></sink><source type="dataflow"><port>program</port></source></datalink><datalink><sink type="processor"><processor>searchSimple</processor><port>query</port></sink><source type="dataflow"><port>query</port></source></datalink><datalink><sink type="dataflow"><port>result</port></sink><source type="processor"><processor>searchSimple</processor><port>Result</port></source></datalink></datalinks><annotations /></dataflow></workflow>
<?xml version="1.0" encoding="UTF-8"?> <s:scufl xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"; version="0.2" log="0"> <s:workflowdescription lsid="urn:lsid:net.sf.taverna:wfDefinition:ae2b21e1-f7da-4c42-9e4c-948c9fbcfdec" author="" title="searchSimple" /> <s:processor name="searchSimple"> <s:description>Execute Blast</s:description> <s:arbitrarywsdl> <s:wsdl>http://xml.nig.ac.jp/wsdl/Blast.wsdl</s:wsdl> <s:operation>searchSimple</s:operation> </s:arbitrarywsdl> </s:processor> <s:link source="database" sink="searchSimple:database" /> <s:link source="program" sink="searchSimple:program" /> <s:link source="query" sink="searchSimple:query" /> <s:link source="searchSimple:Result" sink="result" /> <s:source name="query" /> <s:source name="program" /> <s:source name="database" /> <s:sink name="result" /> </s:scufl>
<?xml version="1.0" encoding="UTF-8"?> <b:dataThingMap xmlns:b="http://org.embl.ebi.escience/baclava/0.1alpha";> <b:dataThing key="program"> <b:myGridDataDocument lsid="" syntactictype="'text/plain'"> <s:metadata xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha";> <s:mimeTypes> <s:mimeType>text/plain</s:mimeType> </s:mimeTypes> </s:metadata> <b:dataElement lsid="urn:lsid:net.sf.taverna:dataItem:af855e06-ead2-49e4-8dff-d53fad989e1c"> <b:dataElementData>Ymxhc3Rw</b:dataElementData> </b:dataElement> </b:myGridDataDocument> </b:dataThing> <b:dataThing key="query"> <b:myGridDataDocument lsid="" syntactictype="'text/plain'"> <s:metadata xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha";> <s:mimeTypes> <s:mimeType>text/plain</s:mimeType> </s:mimeTypes> </s:metadata> <b:dataElement lsid="urn:lsid:net.sf.taverna:dataItem:b5729a7b-0d0a-4c31-b85f-87dcdd91273a"> <b:dataElementData>PnxxdWVyeXwKQUlUUlJWQUNMREdWTlRBVE5BQUNDQUxGQVZSRERJUVFOTEZER0dFQ0dFRVZIRVNM UkxURkhEQUlHSVNQU0xBQVRHS0ZHR0dHQURHU0lNSUZERElFUE5GSEFOTkdWREVJSU5BUUtQRlZB S0hOTVRBR0RGSVFGQUdBVkdWU05DUEdBUFFMU0ZGTEdSUEE=</b:dataElementData> </b:dataElement> </b:myGridDataDocument> </b:dataThing> <b:dataThing key="database"> <b:myGridDataDocument lsid="" syntactictype="'text/plain'"> <s:metadata xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha";> <s:mimeTypes> <s:mimeType>text/plain</s:mimeType> </s:mimeTypes> </s:metadata> <b:dataElement lsid="urn:lsid:net.sf.taverna:dataItem:8eea2592-2fed-48ec-ad90-e4caffa9612e"> <b:dataElementData>UFJPVEVJTg==</b:dataElementData> </b:dataElement> </b:myGridDataDocument> </b:dataThing> </b:dataThingMap>
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