Drug_Re_Purposing_WorkflowDrug_Target_Protein_FASTA00 D:\Workflows\Ours\drug_target_proteins.txt 2011-03-30 20:23:16.233 BST Target_Proteomes_GI11 160367075 2011-03-30 20:24:58.462 BST root_directory00 D:\Workflows\Ours\Live_Demo\Drug\demo 2011-04-01 02:57:01.501 BST D:\Workflows\Ours\target_proteins.txt 2011-03-25 18:40:49.587 GMT D:\Workflows\Ours\target 2011-03-31 16:41:05.518 BST thresholdIdentity00 90.0 2011-04-01 02:57:35.289 BST protein_idsNCBIGitoKeggPathways_pathway_descriptionsGO_output_2NCBIGitoKeggPathways_URLInterProPubMed_Results_2outout_2Extract_proteins_using_a_giid1fasta_file_path0file_output11net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 3 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMicrobase_BlastPsubjectURL0queryURL0BlastReport00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_DrugTarget_Fasta_Urlcontents_file0url_string00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true contents_file 0 text/plain 0 url_string 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_Target_Fasta_Urlcontents_file0url_string00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true contents_file 0 text/plain 0 url_string 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeThreshold_Resultsblast_file0thresholdIdentity0thresholdedBlastResults00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeString_to_listin10out111net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true in1 0 text/plain 1 out1 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_EMBL_idsthresholded_blast0gi_numbers00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeKEGG_ResultsUniprot_ids0pathway_descriptions11URL11net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_Uniprot_DataSearchTerm0parsed_data00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_identifiers_from_uniprotparsed_uniprot0identifier_name0out111net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true parsed_uniprot 0 text/plain java.lang.String true identifier_name 0 text/plain 1 out1 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeAC_identifiervalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity AC net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGene_Ontology_Resultsparsed_uniprot0GO_Results00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInterPro_Resultsparsed_uniprot0EB_Eye_Results00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_identifiers_from_uniprot_2_2identifier_name0parsed_uniprot0out111net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true parsed_uniprot 0 text/plain java.lang.String true identifier_name 0 text/plain 1 out1 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePubMedvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity PubMed net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesearchCitationsparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://www.ebi.ac.uk/webservices/citexplore/v1.0/service?wsdl searchCitations net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesearchCitations_inputluceneQueryString0email0outputFormat0offSet0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="searchCitations" name="parameters" qname="{http://webservice.cdb.ebi.ac.uk/}searchCitations"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="luceneQueryString" qname="searchCitations&gt;luceneQueryString" /><s:basetype optional="true" unbounded="false" typename="string" name="outputFormat" qname="searchCitations&gt;outputFormat" /><s:basetype optional="false" unbounded="false" typename="int" name="offSet" qname="searchCitations&gt;offSet" /><s:basetype optional="true" unbounded="false" typename="string" name="email" qname="searchCitations&gt;email" /></s:elements></s:complextype></s:extensions> false luceneQueryString 0 'text/plain' false outputFormat 0 'text/plain' false offSet 0 'text/plain' false email 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesearchCitations_outputinput0return00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="searchCitationsResponse" name="parameters" qname="{http://webservice.cdb.ebi.ac.uk/}searchCitationsResponse"><s:elements><s:complextype optional="true" unbounded="false" typename="resultListBean" name="return" qname="searchCitationsResponse&gt;return"><s:elements><s:basetype optional="false" unbounded="false" typename="int" name="hitCount" qname="resultListBean&gt;hitCount" /><s:basetype optional="false" unbounded="false" typename="int" name="offSet" qname="resultListBean&gt;offSet" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="resultBean" name="resultBeanCollection" qname="resultListBean&gt;resultBeanCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="resultBean" name="" qname="{http://webservice.cdb.ebi.ac.uk/}resultBean"><s:elements><s:complextype optional="true" unbounded="false" typename="citation" name="citation" qname="resultBean&gt;citation"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="abstractText" qname="citation&gt;abstractText" /><s:basetype optional="true" unbounded="false" typename="string" name="affiliation" qname="citation&gt;affiliation" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="author" name="authorCollection" qname="citation&gt;authorCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="author" name="" qname="{http://webservice.cdb.ebi.ac.uk/}author"><s:elements><s:basetype optional="true" unbounded="false" typename="int" name="citationId" qname="author&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="collectiveName" qname="author&gt;collectiveName" /><s:basetype optional="true" unbounded="false" typename="string" name="fullName" qname="author&gt;fullName" /><s:basetype optional="true" unbounded="false" typename="string" name="initials" qname="author&gt;initials" /><s:basetype optional="true" unbounded="false" typename="string" name="initialsNonAscii" qname="author&gt;initialsNonAscii" /><s:basetype optional="true" unbounded="false" typename="string" name="lastName" qname="author&gt;lastName" /><s:basetype optional="true" unbounded="false" typename="string" name="lastNameNonAscii" qname="author&gt;lastNameNonAscii" /><s:basetype optional="true" unbounded="false" typename="short" name="orderIn" qname="author&gt;orderIn" /><s:basetype optional="true" unbounded="false" typename="string" name="suffix" qname="author&gt;suffix" /><s:basetype optional="true" unbounded="false" typename="string" name="suffixNonAscii" qname="author&gt;suffixNonAscii" /><s:basetype optional="true" unbounded="false" typename="string" name="valid" qname="author&gt;valid" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:complextype optional="true" unbounded="false" typename="bookOrReport" name="bookOrReportDetails" qname="citation&gt;bookOrReportDetails"><s:elements><s:basetype optional="true" unbounded="false" typename="int" name="citationId" qname="bookOrReport&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="comprisingTitle" qname="bookOrReport&gt;comprisingTitle" /><s:basetype optional="true" unbounded="false" typename="string" name="comprisingTitleNonAscii" qname="bookOrReport&gt;comprisingTitleNonAscii" /><s:basetype optional="true" unbounded="false" typename="string" name="edition" qname="bookOrReport&gt;edition" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="editor" name="editorCollection" qname="bookOrReport&gt;editorCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="editor" name="" qname="{http://webservice.cdb.ebi.ac.uk/}editor"><s:elements><s:basetype optional="true" unbounded="false" typename="int" name="citationId" qname="editor&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="collectiveName" qname="editor&gt;collectiveName" /><s:basetype optional="true" unbounded="false" typename="string" name="initials" qname="editor&gt;initials" /><s:basetype optional="true" unbounded="false" typename="string" name="initialsNonAscii" qname="editor&gt;initialsNonAscii" /><s:basetype optional="true" unbounded="false" typename="string" name="lastName" qname="editor&gt;lastName" /><s:basetype optional="true" unbounded="false" typename="string" name="lastNameNonAscii" qname="editor&gt;lastNameNonAscii" /><s:basetype optional="false" unbounded="false" typename="short" name="orderIn" qname="editor&gt;orderIn" /><s:basetype optional="true" unbounded="false" typename="string" name="suffix" qname="editor&gt;suffix" /><s:basetype optional="true" unbounded="false" typename="string" name="suffixNonAscii" qname="editor&gt;suffixNonAscii" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="extraInformation" qname="bookOrReport&gt;extraInformation" /><s:basetype optional="true" unbounded="false" typename="string" name="isbn10" qname="bookOrReport&gt;isbn10" /><s:basetype optional="true" unbounded="false" typename="string" name="isbn13" qname="bookOrReport&gt;isbn13" /><s:basetype optional="true" unbounded="false" typename="string" name="numberOfPages" qname="bookOrReport&gt;numberOfPages" /><s:basetype optional="true" unbounded="false" typename="byte" name="publicationDay" qname="bookOrReport&gt;publicationDay" /><s:basetype optional="true" unbounded="false" typename="byte" name="publicationMonth" qname="bookOrReport&gt;publicationMonth" /><s:basetype optional="true" unbounded="false" typename="short" name="publicationYear" qname="bookOrReport&gt;publicationYear" /><s:basetype optional="true" unbounded="false" typename="string" name="publisher" qname="bookOrReport&gt;publisher" /><s:basetype optional="true" unbounded="false" typename="string" name="seriesIssn" qname="bookOrReport&gt;seriesIssn" /><s:basetype optional="true" unbounded="false" typename="string" name="seriesName" qname="bookOrReport&gt;seriesName" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="dateTime" name="cachedAt" qname="citation&gt;cachedAt" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="chemical" name="chemicalCollection" qname="citation&gt;chemicalCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="chemical" name="" qname="{http://webservice.cdb.ebi.ac.uk/}chemical"><s:elements><s:basetype optional="true" unbounded="false" typename="int" name="id" qname="chemical&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="name" qname="chemical&gt;name" /><s:basetype optional="true" unbounded="false" typename="string" name="registryNumber" qname="chemical&gt;registryNumber" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="comment" name="commentsAndCorrectionsCollection" qname="citation&gt;commentsAndCorrectionsCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="comment" name="" qname="{http://webservice.cdb.ebi.ac.uk/}comment"><s:elements><s:basetype optional="false" unbounded="false" typename="int" name="citationId" qname="comment&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="externalId" qname="comment&gt;externalId" /><s:basetype optional="true" unbounded="false" typename="string" name="note" qname="comment&gt;note" /><s:basetype optional="false" unbounded="false" typename="byte" name="orderIn" qname="comment&gt;orderIn" /><s:basetype optional="true" unbounded="false" typename="string" name="reference" qname="comment&gt;reference" /><s:basetype optional="true" unbounded="false" typename="string" name="source" qname="comment&gt;source" /><s:basetype optional="true" unbounded="false" typename="string" name="type" qname="comment&gt;type" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="authorsConcatenation" name="concatenatedAuthorsCollection" qname="citation&gt;concatenatedAuthorsCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="authorsConcatenation" name="" qname="{http://webservice.cdb.ebi.ac.uk/}authorsConcatenation"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="authorsConcatenation" qname="authorsConcatenation&gt;authorsConcatenation" /><s:basetype optional="true" unbounded="false" typename="string" name="authorsConcatenation_clob" qname="authorsConcatenation&gt;authorsConcatenation_clob" /><s:basetype optional="true" unbounded="false" typename="int" name="citationId" qname="authorsConcatenation&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="hasNonAsciiCharacters" qname="authorsConcatenation&gt;hasNonAsciiCharacters" /><s:basetype optional="true" unbounded="false" typename="string" name="validAuthorsConcatenation" qname="authorsConcatenation&gt;validAuthorsConcatenation" /><s:basetype optional="true" unbounded="false" typename="string" name="validAuthorsConcatenation_clob" qname="authorsConcatenation&gt;validAuthorsConcatenation_clob" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferenceAltSpliceFunCollection" qname="citation&gt;crossReferenceAltSpliceFunCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="crossReference" name="" qname="{http://webservice.cdb.ebi.ac.uk/}crossReference"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="dataSource" qname="crossReference&gt;dataSource" /><s:basetype optional="true" unbounded="false" typename="string" name="externalId" qname="crossReference&gt;externalId" /><s:basetype optional="true" unbounded="false" typename="string" name="info1" qname="crossReference&gt;info1" /><s:basetype optional="true" unbounded="false" typename="string" name="info2" qname="crossReference&gt;info2" /><s:basetype optional="true" unbounded="false" typename="string" name="info3" qname="crossReference&gt;info3" /><s:basetype optional="true" unbounded="false" typename="string" name="info4" qname="crossReference&gt;info4" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferenceAltSpliceSeqCollection" qname="citation&gt;crossReferenceAltSpliceSeqCollection"><s:elementtype><s:complextype id="{http://webservice.cdb.ebi.ac.uk/}crossReference" optional="false" unbounded="false" typename="crossReference" name="" /></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferenceEMBLCollection" qname="citation&gt;crossReferenceEMBLCollection"><s:elementtype><s:complextype id="{http://webservice.cdb.ebi.ac.uk/}crossReference" optional="false" unbounded="false" typename="crossReference" name="" /></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferenceInterproCollection" qname="citation&gt;crossReferenceInterproCollection"><s:elementtype><s:complextype id="{http://webservice.cdb.ebi.ac.uk/}crossReference" optional="false" unbounded="false" typename="crossReference" name="" /></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferenceUniprotCollection" qname="citation&gt;crossReferenceUniprotCollection"><s:elementtype><s:complextype id="{http://webservice.cdb.ebi.ac.uk/}crossReference" optional="false" unbounded="false" typename="crossReference" name="" /></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferencesChEBICollection" qname="citation&gt;crossReferencesChEBICollection"><s:elementtype><s:complextype id="{http://webservice.cdb.ebi.ac.uk/}crossReference" optional="false" unbounded="false" typename="crossReference" name="" /></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferencesIntactCollection" qname="citation&gt;crossReferencesIntactCollection"><s:elementtype><s:complextype id="{http://webservice.cdb.ebi.ac.uk/}crossReference" optional="false" unbounded="false" typename="crossReference" name="" /></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="crossReference" name="crossReferencesMSDCollection" qname="citation&gt;crossReferencesMSDCollection"><s:elementtype><s:complextype id="{http://webservice.cdb.ebi.ac.uk/}crossReference" optional="false" unbounded="false" typename="crossReference" name="" /></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="dataSource" qname="citation&gt;dataSource" /><s:basetype optional="true" unbounded="false" typename="dateTime" name="dateOfCompletion" qname="citation&gt;dateOfCompletion" /><s:basetype optional="true" unbounded="false" typename="dateTime" name="dateOfCreation" qname="citation&gt;dateOfCreation" /><s:basetype optional="true" unbounded="false" typename="dateTime" name="dateOfRevision" qname="citation&gt;dateOfRevision" /><s:basetype optional="true" unbounded="false" typename="string" name="externalId" qname="citation&gt;externalId" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="geneOntology" name="geneOntologyCollection" qname="citation&gt;geneOntologyCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="geneOntology" name="" qname="{http://webservice.cdb.ebi.ac.uk/}geneOntology"><s:elements><s:basetype optional="true" unbounded="false" typename="decimal" name="citationId" qname="geneOntology&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="goId" qname="geneOntology&gt;goId" /><s:basetype optional="true" unbounded="false" typename="string" name="goTerm" qname="geneOntology&gt;goTerm" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="grant" name="grantCollection" qname="citation&gt;grantCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="grant" name="" qname="{http://webservice.cdb.ebi.ac.uk/}grant"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="acronym" qname="grant&gt;acronym" /><s:basetype optional="true" unbounded="false" typename="string" name="agency" qname="grant&gt;agency" /><s:basetype optional="false" unbounded="false" typename="int" name="citationId" qname="grant&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="grantId" qname="grant&gt;grantId" /><s:basetype optional="false" unbounded="false" typename="short" name="orderIn" qname="grant&gt;orderIn" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="int" name="id" qname="citation&gt;id" /><s:complextype optional="true" unbounded="false" typename="journalIssue" name="journalIssue" qname="citation&gt;journalIssue"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="dateOfPublication" qname="journalIssue&gt;dateOfPublication" /><s:basetype optional="true" unbounded="false" typename="int" name="id" qname="journalIssue&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="issue" qname="journalIssue&gt;issue" /><s:complextype optional="true" unbounded="false" typename="journal" name="journal" qname="journalIssue&gt;journal"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="ESSN" qname="journal&gt;ESSN" /><s:basetype optional="true" unbounded="false" typename="string" name="ISOAbbreviation" qname="journal&gt;ISOAbbreviation" /><s:basetype optional="true" unbounded="false" typename="string" name="ISSN" qname="journal&gt;ISSN" /><s:basetype optional="true" unbounded="false" typename="int" name="id" qname="journal&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="medlineAbbreviation" qname="journal&gt;medlineAbbreviation" /><s:basetype optional="true" unbounded="false" typename="string" name="NLMid" qname="journal&gt;NLMid" /><s:basetype optional="true" unbounded="false" typename="string" name="title" qname="journal&gt;title" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="byte" name="monthOfPublication" qname="journalIssue&gt;monthOfPublication" /><s:basetype optional="true" unbounded="false" typename="string" name="volume" qname="journalIssue&gt;volume" /><s:basetype optional="true" unbounded="false" typename="short" name="yearOfPublication" qname="journalIssue&gt;yearOfPublication" /></s:elements></s:complextype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="keyword" name="keywordCollection" qname="citation&gt;keywordCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="keyword" name="" qname="{http://webservice.cdb.ebi.ac.uk/}keyword"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="eurofirCode" qname="keyword&gt;eurofirCode" /><s:basetype optional="true" unbounded="false" typename="int" name="id" qname="keyword&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="keyword" qname="keyword&gt;keyword" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="language" qname="citation&gt;language" /><s:complextype optional="true" unbounded="false" typename="medlineXml" name="medlineXML" qname="citation&gt;medlineXML"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="dataSource" qname="medlineXml&gt;dataSource" /><s:basetype optional="true" unbounded="false" typename="string" name="pubmedID" qname="medlineXml&gt;pubmedID" /><s:basetype optional="true" unbounded="false" typename="string" name="XML" qname="medlineXml&gt;XML" /></s:elements></s:complextype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="meshHeading" name="meshCollection" qname="citation&gt;meshCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="meshHeading" name="" qname="{http://webservice.cdb.ebi.ac.uk/}meshHeading"><s:elements><s:basetype optional="true" unbounded="false" typename="int" name="citationId" qname="meshHeading&gt;citationId" /><s:basetype optional="true" unbounded="false" typename="string" name="majorTopic_YN" qname="meshHeading&gt;majorTopic_YN" /><s:complextype optional="true" unbounded="false" typename="meshHeadingType" name="meshHeadingType" qname="meshHeading&gt;meshHeadingType"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="descriptor" qname="meshHeadingType&gt;descriptor" /><s:basetype optional="true" unbounded="false" typename="int" name="id" qname="meshHeadingType&gt;id" /></s:elements></s:complextype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="meshQualifier" name="meshQualifierCollection" qname="meshHeading&gt;meshQualifierCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="meshQualifier" name="" qname="{http://webservice.cdb.ebi.ac.uk/}meshQualifier"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="majorTopic_YN" qname="meshQualifier&gt;majorTopic_YN" /><s:complextype optional="true" unbounded="false" typename="meshQualifierType" name="meshQualifierType" qname="meshQualifier&gt;meshQualifierType"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="abbreviation" qname="meshQualifierType&gt;abbreviation" /><s:basetype optional="true" unbounded="false" typename="string" name="id" qname="meshQualifierType&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="qualifier" qname="meshQualifierType&gt;qualifier" /></s:elements></s:complextype></s:elements></s:complextype></s:elementtype></s:arraytype></s:elements></s:complextype></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="originalTitle" qname="citation&gt;originalTitle" /><s:basetype optional="true" unbounded="false" typename="string" name="pageInfo" qname="citation&gt;pageInfo" /><s:complextype optional="true" unbounded="false" typename="patentAbstractXml" name="patentAbstractXML" qname="citation&gt;patentAbstractXML"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="dataSource" qname="patentAbstractXml&gt;dataSource" /><s:basetype optional="true" unbounded="false" typename="string" name="patentNumber" qname="patentAbstractXml&gt;patentNumber" /><s:basetype optional="true" unbounded="false" typename="string" name="XML" qname="patentAbstractXml&gt;XML" /></s:elements></s:complextype><s:complextype optional="true" unbounded="false" typename="patentDetails" name="patentDetails" qname="citation&gt;patentDetails"><s:elements><s:basetype optional="true" unbounded="false" typename="int" name="citationId" qname="patentDetails&gt;citationId" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="patentClassifier" name="classifierCollection" qname="patentDetails&gt;classifierCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="patentClassifier" name="" qname="{http://webservice.cdb.ebi.ac.uk/}patentClassifier"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="classification" qname="patentClassifier&gt;classification" /><s:basetype optional="true" unbounded="false" typename="string" name="classificationType" qname="patentClassifier&gt;classificationType" /><s:basetype optional="true" unbounded="false" typename="string" name="hyperlink" qname="patentClassifier&gt;hyperlink" /><s:basetype optional="true" unbounded="false" typename="int" name="patentDetailId" qname="patentClassifier&gt;patentDetailId" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="country" qname="patentDetails&gt;country" /><s:basetype optional="true" unbounded="false" typename="string" name="countryCode" qname="patentDetails&gt;countryCode" /><s:basetype optional="true" unbounded="false" typename="int" name="patentDetailId" qname="patentDetails&gt;patentDetailId" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="secondaryNumber" name="secondaryNumberCollection" qname="patentDetails&gt;secondaryNumberCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="secondaryNumber" name="" qname="{http://webservice.cdb.ebi.ac.uk/}secondaryNumber"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="dataType" qname="secondaryNumber&gt;dataType" /><s:basetype optional="true" unbounded="false" typename="short" name="orderIn" qname="secondaryNumber&gt;orderIn" /><s:basetype optional="true" unbounded="false" typename="int" name="patentDetailId" qname="secondaryNumber&gt;patentDetailId" /><s:basetype optional="true" unbounded="false" typename="string" name="value" qname="secondaryNumber&gt;value" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="typeCode" qname="patentDetails&gt;typeCode" /><s:basetype optional="true" unbounded="false" typename="string" name="typeDescription" qname="patentDetails&gt;typeDescription" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="pubModel" qname="citation&gt;pubModel" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="publicationType" name="pubTypeCollection" qname="citation&gt;pubTypeCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="publicationType" name="" qname="{http://webservice.cdb.ebi.ac.uk/}publicationType"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="description" qname="publicationType&gt;description" /><s:basetype optional="true" unbounded="false" typename="int" name="id" qname="publicationType&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="name" qname="publicationType&gt;name" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="reference" name="referenceCollection" qname="citation&gt;referenceCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="reference" name="" qname="{http://webservice.cdb.ebi.ac.uk/}reference"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="authors" qname="reference&gt;authors" /><s:basetype optional="true" unbounded="false" typename="string" name="citationType" qname="reference&gt;citationType" /><s:basetype optional="false" unbounded="false" typename="int" name="citedOrder" qname="reference&gt;citedOrder" /><s:basetype optional="true" unbounded="false" typename="string" name="comments" qname="reference&gt;comments" /><s:basetype optional="true" unbounded="false" typename="string" name="doi" qname="reference&gt;doi" /><s:basetype optional="true" unbounded="false" typename="string" name="edition" qname="reference&gt;edition" /><s:basetype optional="true" unbounded="false" typename="string" name="editors" qname="reference&gt;editors" /><s:basetype optional="true" unbounded="false" typename="string" name="essn" qname="reference&gt;essn" /><s:basetype optional="true" unbounded="false" typename="string" name="externalId" qname="reference&gt;externalId" /><s:basetype optional="true" unbounded="false" typename="string" name="externalLink" qname="reference&gt;externalLink" /><s:basetype optional="true" unbounded="false" typename="decimal" name="id" qname="reference&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="isbn" qname="reference&gt;isbn" /><s:basetype optional="true" unbounded="false" typename="string" name="issn" qname="reference&gt;issn" /><s:basetype optional="true" unbounded="false" typename="string" name="issue" qname="reference&gt;issue" /><s:basetype optional="true" unbounded="false" typename="string" name="journalAbbr" qname="reference&gt;journalAbbr" /><s:basetype optional="true" unbounded="false" typename="string" name="match" qname="reference&gt;match" /><s:basetype optional="true" unbounded="false" typename="string" name="pageInfo" qname="reference&gt;pageInfo" /><s:basetype optional="false" unbounded="false" typename="int" name="parentId" qname="reference&gt;parentId" /><s:basetype optional="false" unbounded="false" typename="int" name="pubYear" qname="reference&gt;pubYear" /><s:basetype optional="true" unbounded="false" typename="string" name="publisherLoc" qname="reference&gt;publisherLoc" /><s:basetype optional="true" unbounded="false" typename="string" name="publisherName" qname="reference&gt;publisherName" /><s:basetype optional="true" unbounded="false" typename="string" name="refId" qname="reference&gt;refId" /><s:basetype optional="true" unbounded="false" typename="string" name="seriesName" qname="reference&gt;seriesName" /><s:basetype optional="true" unbounded="false" typename="string" name="source" qname="reference&gt;source" /><s:basetype optional="true" unbounded="false" typename="string" name="title" qname="reference&gt;title" /><s:basetype optional="true" unbounded="false" typename="string" name="unstructuredInformation" qname="reference&gt;unstructuredInformation" /><s:basetype optional="true" unbounded="false" typename="string" name="volume" qname="reference&gt;volume" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="textFragment" name="refererCollection" qname="citation&gt;refererCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="textFragment" name="" qname="{http://webservice.cdb.ebi.ac.uk/}textFragment"><s:elements><s:basetype optional="false" unbounded="false" typename="int" name="citationId" qname="textFragment&gt;citationId" /><s:basetype optional="false" unbounded="false" typename="int" name="lineNum" qname="textFragment&gt;lineNum" /><s:basetype optional="false" unbounded="false" typename="int" name="orderInReference" qname="textFragment&gt;orderInReference" /><s:basetype optional="true" unbounded="false" typename="string" name="referencedBy_ExternalId" qname="textFragment&gt;referencedBy_ExternalId" /><s:basetype optional="true" unbounded="false" typename="string" name="referencedBy_Source" qname="textFragment&gt;referencedBy_Source" /><s:basetype optional="true" unbounded="false" typename="string" name="text" qname="textFragment&gt;text" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="subSet" name="subsetCollection" qname="citation&gt;subsetCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="subSet" name="" qname="{http://webservice.cdb.ebi.ac.uk/}subSet"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="code" qname="subSet&gt;code" /><s:basetype optional="true" unbounded="false" typename="string" name="name" qname="subSet&gt;name" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="title" qname="citation&gt;title" /><s:basetype optional="true" unbounded="false" typename="string" name="titleNonAscii" qname="citation&gt;titleNonAscii" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="fullTextURL" name="urlCollection" qname="citation&gt;urlCollection"><s:elementtype><s:complextype optional="false" unbounded="false" typename="fullTextURL" name="" qname="{http://webservice.cdb.ebi.ac.uk/}fullTextURL"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="availability" qname="fullTextURL&gt;availability" /><s:basetype optional="true" unbounded="false" typename="string" name="availabilityCode" qname="fullTextURL&gt;availabilityCode" /><s:basetype optional="true" unbounded="false" typename="string" name="documentStyle" qname="fullTextURL&gt;documentStyle" /><s:basetype optional="true" unbounded="false" typename="string" name="externalId" qname="fullTextURL&gt;externalId" /><s:basetype optional="true" unbounded="false" typename="string" name="id" qname="fullTextURL&gt;id" /><s:basetype optional="true" unbounded="false" typename="string" name="site" qname="fullTextURL&gt;site" /><s:basetype optional="true" unbounded="false" typename="string" name="source" qname="fullTextURL&gt;source" /><s:basetype optional="true" unbounded="false" typename="string" name="url" qname="fullTextURL&gt;url" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:elements></s:complextype><s:basetype optional="false" unbounded="false" typename="float" name="score" qname="resultBean&gt;score" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:elements></s:complextype></s:elements></s:complextype></s:extensions> java.lang.String false input 0 'text/xml' 0 return 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeemailvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity m.l.taschuk@ncl.ac.uk net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecorevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity core net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokezerovalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokedeXMLerin10out100net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true in1 0 text/plain 0 out1 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_Stringdata1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true seperator 0 'text/plain' java.lang.String true data 1 text/plain 0 concatenated 0 UserNameHere 2011-03-30 16:25:55.280 BST UserNameHere 2011-03-30 16:29:15.546 BST UserNameHere 2011-03-30 16:51:40.964 BST UserNameHere 2011-03-30 16:27:49.467 BST net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFlatten_Listinputlist2outputlist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.FlattenList workflow [B true inputlist 2 l(l('')) 1 outputlist 1 l('') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_2stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_Filenamegi_num0root0path00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true root 0 text/plain java.lang.String true gi_num 0 text/plain 0 path 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeHeader_OutputIntro0Sid0Sim_M0outPutFile0Title0Tid0TotalID_d0outputFile00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true Title 0 text/plain java.lang.String true Intro 0 text/plain java.lang.String true Tid 0 text/plain java.lang.String true Sid 0 text/plain java.lang.String true Sim_M 0 text/plain java.lang.String true TotalID_d 0 text/plain java.lang.String true outPutFile 0 text/plain 0 outputFile 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_HTML_Filenameroot0path00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true root 0 text/plain java.lang.String true gi_num 0 text/plain 0 path 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeIntro_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity The drug repurposing workflow system screens at least 20 bacterial proteomes against this set of proteins that are already being treated against using established drugs. By screening the bacterial proteomes it will be possible to find proteins of highly similar structure to those that are existing drug protein targets and so this will infer that it is highly likely that the drugs can be used as antimicrobials against these proteins of highly similar structure. Proteomes that will be screened belong to Gram positive bacteria, with special focus on <i>Staphylococcus aureus</i>. We look at a variety of species and strains as the company advised. A mixture of screening targets could potentially identify targets for broad-spectrum antimicrobial development. The drug repurposing workflow shows where in the KEGG pathways the proteins are active and therefore where the action of the drug will be in the biochemical pathways of the bacteria. The workflow will update the Ondex database where new information on Gene Ontology annotations, functional annotation and literature references are available. All information about each unique protein is made available in an HTML document. net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSid_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity 3036 Unique Proteins from Target2Drug net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSim_Measure_Statementthreshold0out100net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true threshold 0 text/plain 0 out1 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTitle_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity A-Team: Drug Re-Purposing Analysis net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_3stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_4stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeWrite_Protein_HTMLGO0InterPro0PubMed0KPI0KDiagram0Title0input0Tid0output100net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true Tid 0 text/plain java.lang.String true TSpecies 0 text/plain java.lang.String true Sid 0 text/plain java.lang.String true SSpecies 0 text/plain java.lang.String true KPI 0 text/plain java.lang.String true input 0 text/plain java.lang.String true KDiagram 0 text/plain java.lang.String true GO 0 text/plain java.lang.String true InterPro 0 text/plain java.lang.String true PubMed 0 text/plain java.lang.String true OC_R 0 text/plain java.lang.String true Title 0 text/plain java.lang.String true OS 0 text/plain 0 output1 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_5stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFilename_SHIMfilename0uniprot1uniprot_ids11filenames11net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true filename 0 text/plain java.lang.String true uniprot 1 text/plain 1 filenames 1 1 uniprot_ids 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeExtract_proteins_using_a_giidTarget_Proteomes_GIExtract_proteins_using_a_gifasta_file_pathGet_FilenamepathMicrobase_BlastPsubjectURLGet_DrugTarget_Fasta_Urlurl_stringMicrobase_BlastPqueryURLGet_Target_Fasta_Urlurl_stringGet_DrugTarget_Fasta_Urlcontents_fileDrug_Target_Protein_FASTAGet_Target_Fasta_Urlcontents_fileGet_FilenamepathThreshold_Resultsblast_fileMicrobase_BlastPBlastReportThreshold_ResultsthresholdIdentitythresholdIdentityString_to_listin1Get_EMBL_idsgi_numbersGet_EMBL_idsthresholded_blastThreshold_ResultsthresholdedBlastResultsKEGG_ResultsUniprot_idsFlatten_ListoutputlistGet_Uniprot_DataSearchTermString_to_listout1get_identifiers_from_uniprotparsed_uniprotGet_Uniprot_Dataparsed_dataget_identifiers_from_uniprotidentifier_nameAC_identifiervalueGene_Ontology_Resultsparsed_uniprotGet_Uniprot_Dataparsed_dataInterPro_Resultsparsed_uniprotGet_Uniprot_Dataparsed_dataget_identifiers_from_uniprot_2_2identifier_namePubMedvalueget_identifiers_from_uniprot_2_2parsed_uniprotGet_Uniprot_Dataparsed_datasearchCitationsparameterssearchCitations_inputoutputsearchCitations_inputluceneQueryStringget_identifiers_from_uniprot_2_2out1searchCitations_inputemailemailvaluesearchCitations_inputoutputFormatcorevaluesearchCitations_inputoffSetzerovaluesearchCitations_outputinputsearchCitationsparametersdeXMLerin1searchCitations_outputreturnMerge_String_List_to_a_StringdatadeXMLerout1Flatten_Listinputlistget_identifiers_from_uniprotout1Merge_String_List_to_a_String_2stringlistKEGG_Resultspathway_descriptionsGet_Filenamegi_numTarget_Proteomes_GIGet_Filenamerootroot_directoryHeader_OutputIntroIntro_valuevalueHeader_OutputSidSid_valuevalueHeader_OutputSim_MSim_Measure_Statementout1Header_OutputoutPutFileGet_HTML_FilenamepathHeader_OutputTitleTitle_valuevalueHeader_OutputTidMerge_String_List_to_a_String_3concatenatedHeader_OutputTotalID_dMerge_String_List_to_a_String_4concatenatedGet_HTML_Filenamerootroot_directorySim_Measure_StatementthresholdthresholdIdentityMerge_String_List_to_a_String_3stringlistTarget_Proteomes_GIMerge_String_List_to_a_String_4stringlistThreshold_ResultsthresholdedBlastResultsWrite_Protein_HTMLGOGene_Ontology_ResultsGO_ResultsWrite_Protein_HTMLInterProInterPro_ResultsEB_Eye_ResultsWrite_Protein_HTMLPubMedMerge_String_List_to_a_StringconcatenatedWrite_Protein_HTMLKPIMerge_String_List_to_a_String_2concatenatedWrite_Protein_HTMLKDiagramMerge_String_List_to_a_String_5concatenatedWrite_Protein_HTMLTitleFilename_SHIMuniprot_idsWrite_Protein_HTMLinputFilename_SHIMfilenamesWrite_Protein_HTMLTidGet_Uniprot_Dataparsed_dataMerge_String_List_to_a_String_5stringlistKEGG_ResultsURLFilename_SHIMfilenameGet_HTML_FilenamepathFilename_SHIMuniprotFlatten_Listoutputlistprotein_idsGet_Uniprot_Dataparsed_dataNCBIGitoKeggPathways_pathway_descriptionsMerge_String_List_to_a_String_2concatenatedGO_output_2Gene_Ontology_ResultsGO_ResultsNCBIGitoKeggPathways_URLKEGG_ResultsURLInterProInterPro_ResultsEB_Eye_ResultsPubMed_Results_2Merge_String_List_to_a_StringconcatenatedoutHeader_OutputoutputFileout_2Write_Protein_HTMLoutput1 40329737-b8f1-41ed-839c-27d919202a35 2011-03-31 20:05:43.488 BST f59c526a-076b-4d41-9612-8f051985f6c5 2011-04-01 10:46:02.566 BST 5c7ab668-f89d-4da0-a35a-8f08cf5348a6 2011-03-30 20:28:06.400 BST 5dad9c27-f174-4178-b4dd-4de99da359d5 2011-04-01 02:57:38.15 BST 627bcf2b-9512-4e79-9f6b-470f3910b765 2011-03-31 22:53:29.457 BST f6558964-cc08-45b1-8ead-2700014d51df 2011-03-25 19:11:46.295 GMT 2b36819c-4f4a-45f2-996c-e02cda810018 2011-03-31 16:41:25.315 BST 299440f3-f6cb-4917-90a8-f9e27b4f9792 2011-03-30 20:34:33.670 BST efe69d39-5ebc-4cd6-9102-ef61d7a3913e 2011-03-30 10:47:51.219 BST b7314f4a-d93a-4582-b782-a1aef5b386f2 2011-03-25 15:22:44.991 GMT 2c17cf54-dbb3-42e5-8e1e-ee7d0360b768 2011-03-31 17:38:23.5 BST 40ee0320-dc68-48e4-9ff8-2a8be39a3308 2011-03-31 21:48:34.121 BST 8f8386df-6385-453c-9550-9c24583c9249 2011-03-28 13:56:08.131 BST The drug repurposing workflow system screens at least 20 bacterial proteomes against this set of proteins that are already being treated against using established drugs. By screening the bacterial proteomes it will be possible to find proteins of highly similar structure to those that are existing drug protein targets and so this will infer that it is highly likely that the drugs can be used as antimicrobials against these proteins of highly similar structure. Proteomes that will be screened belong to Gram positive bacteria, with special focus on <i>Staphylococcus aureus</i>. We look at a variety of species and strains as the company advised. A mixture of screening targets could potentially identify targets for broad-spectrum antimicrobial development. The drug repurposing workflow shows where in the KEGG pathways the proteins are active and therefore where the action of the drug will be in the biochemical pathways of the bacteria. The workflow will update the Ondex database where new information on Gene Ontology annotations, functional annotation and literature references are available. All information about each unique protein is made available in an HTML document. 2011-03-31 22:53:28.880 BST c8ffe6bc-0577-4a7a-8f5a-5a29d311f809 2011-03-30 20:25:19.255 BST 71f23402-77b6-4c3e-bbea-d07686d36de9 2011-03-31 20:25:08.531 BST b485a670-0c3e-4b3b-b0e8-9c969011217f 2011-03-30 20:05:24.997 BST daf61cd4-8796-4f36-bc20-e765960d9f4b 2011-03-31 19:23:55.564 BST ff808d5b-0681-427f-b2a3-90f89b5b9128 2011-03-31 22:49:45.469 BST 1d3a29d6-0fa8-43ab-b83a-fcad500c3a34 2011-03-31 20:40:24.959 BST 08be2a06-ae0a-47c6-a0ec-306b17161c36 2011-03-31 15:42:08.915 BST a149bb84-02f1-4295-a75b-ed7282796efd 2011-03-31 17:32:24.433 BST 81c09cf8-725c-4960-8c45-1e691d3c8116 2011-04-01 12:05:10.537 BST 50b9c052-1ee1-423b-bc8c-05eeb82d39f2 2011-03-30 10:42:56.949 BST 6353f76e-d241-4b18-910a-d4d19ec2ed71 2011-03-31 21:25:39.593 BST 531a8205-e72e-4a14-b99e-d72154909b92 2011-03-31 20:50:26.494 BST Drug Re-Purposing Workflow 2011-03-31 22:53:13.693 BST Untitledworkflow14parsed_uniprot00EB_Eye_ResultsInterPro_ResultsEntry_Id0Domain0getEntry_output_entryValues11net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_identifiers_from_uniprot_2_2parsed_uniprot0identifier_name0out111net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true parsed_uniprot 0 text/plain java.lang.String true identifier_name 0 text/plain 1 out1 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketo_Lower_Case_2in10out100net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true in1 0 text/plain 0 out1 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_Stringgo_ids1go_defs1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true go_defs 1 l('text/plain') java.lang.String true seperator 0 'text/plain' java.lang.String true go_ids 1 text/plain 0 concatenated 0 UserNameHere 2011-03-30 16:25:55.280 BST UserNameHere 2011-03-30 16:27:49.467 BST UserNameHere 2011-03-30 16:29:15.546 BST net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_2stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInterProvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity InterPro net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInterPro_ResultsEntry_Idget_identifiers_from_uniprot_2_2out1InterPro_ResultsDomainto_Lower_Case_2out1get_identifiers_from_uniprot_2_2parsed_uniprotparsed_uniprotget_identifiers_from_uniprot_2_2identifier_nameInterProvalueto_Lower_Case_2in1InterProvalueMerge_String_List_to_a_Stringgo_idsget_identifiers_from_uniprot_2_2out1Merge_String_List_to_a_Stringgo_defsMerge_String_List_to_a_String_2concatenatedMerge_String_List_to_a_String_2stringlistInterPro_ResultsgetEntry_output_entryValuesEB_Eye_ResultsMerge_String_List_to_a_Stringconcatenated 2011-03-28 16:28:59.317 BST c88315af-4ce4-43fb-b48d-45cc0e9424b2 2011-03-28 18:57:59.270 BST d7ce24f5-f65b-4b2b-8500-6d35cf027d1c 2011-03-28 19:02:12.80 BST f5b50570-afa2-4768-a298-a7bd35e90e11 2011-03-28 19:28:47.180 BST fda20a14-917b-454a-a88e-4d4cf58e24c6 2011-03-28 18:34:50.789 BST 33afbd5c-d9a6-4e58-a255-ac744742875a 2011-03-28 18:38:03.893 BST 2011-03-28 16:28:59.317 BST ff900e9f-7b8d-43fc-be47-cc638b4266d4 2011-03-28 19:00:51.178 BST 4ed40fd8-b13c-4aa2-8977-329988763674 2011-03-28 17:56:58.784 BST fb843096-2675-4579-9a51-05f43e15ba79 2011-03-28 17:54:29.330 BST 5f08104a-de65-423f-b532-dc7eb89c28ce 2011-03-28 16:39:56.913 BST f5c68892-7c8c-4bba-96cf-6e4094272de2 2011-03-28 18:51:46.105 BST Untitled workflow #14 2011-03-28 16:28:59.317 BST 11d4d655-87f9-4a31-88f1-eef56a3a03ee 2011-03-28 16:58:53.309 BST 5bc429c4-927b-4d7e-b4c8-9f8cd17838b7 2011-03-30 17:22:18.272 BST 427f85e8-da08-4e29-800f-8479992b79e5 2011-03-30 16:48:37.456 BST 3117ba0d-f09f-4956-ad74-7761dbf998d9 2011-03-28 19:18:13.311 BST acd0a40b-a688-473f-8618-1bdbd2046096 2011-03-28 16:33:17.871 BST 416a5592-70f9-4c5f-af15-397bd21af3cb 2011-03-28 19:15:54.482 BST 1752f7dd-badb-4e4a-a2f1-d50327f80d60 2011-03-30 16:46:50.149 BST 7ae7f0a1-1f28-48e1-8c41-7c6da1587e3d 2011-03-28 16:34:34.815 BST ef9de97c-ca76-479e-b933-d396f043e138 2011-03-28 16:39:02.585 BST eccaf02b-b85b-4894-9974-c4c49a168673 2011-03-30 16:40:30.44 BST 7f7920cf-259e-4947-8a28-bbd0bf0d5de4 2011-03-28 18:59:44.143 BST 2c33a9b5-8e1e-449a-9bf3-07b1ad48beab 2011-03-30 16:41:33.953 BST 7b3873e1-cd30-4e5c-ab3a-4e0178648eb6 2011-03-30 16:43:19.253 BST 9fedbdd2-dde5-4b08-ab50-80991ea7c41c 2011-03-28 18:55:56.909 BST Extract_proteins_using_a_gi___output_as_fasta_file_fasta_file_path00 This is where the workflow will save the fasta file 2010-03-18 23:57:05.740 GMT id11 The workflow uses the gi no to retrieve the xml genbank entry 2010-03-18 23:58:02.898 GMT file_output protein output for specified gi in fasta format 2010-03-18 23:58:47.780 GMT Extraction_of_infoxml_result0fastas_out00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true xml_result 0 text/plain 0 fastas_out 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeWrite_Text_FileoutputFile0filecontents0outputFile00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity net.sourceforge.taverna.scuflworkers.io.TextFileWriter workflow java.lang.String true outputFile 0 'text/plain' java.lang.String true filecontents 0 'text/plain' 0 outputFile 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_Nucleotide_GBSeq_XMLid0outputText00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity net.sourceforge.taverna.scuflworkers.ncbi.NucleotideGBSeqWorker workflow java.lang.String true id 0 'text/plain' 0 outputText 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeExtraction_of_infoxml_resultGet_Nucleotide_GBSeq_XMLoutputTextWrite_Text_FileoutputFilefasta_file_pathWrite_Text_FilefilecontentsExtraction_of_infofastas_outGet_Nucleotide_GBSeq_XMLididfile_outputWrite_Text_FileoutputFile 6beeaaf5-900a-438a-8791-76184cbcb463 2011-03-24 19:03:54.809 GMT The workflow uses the gi id to retrieve a xml format of the genbank entry. Using a beanscript, the workflow then parses the required data for the creation of the protein fasta file. 2010-03-18 23:56:41.809 GMT Extract proteins using a gi - output as fasta file 2010-03-18 23:55:22.983 GMT nclteamc 2010-03-18 23:54:52.375 GMT Untitledworkflow4SearchTerm00 2011-03-28 17:43:19.351 BST uniprot_recordparsed_dataEmbl_Acc text/plain 2011-03-28 17:43:19.351 BST fieldNamevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity Alltext net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeparse_uniprotfile_direct_data0report00output00net.sf.taverna.t2.activitiessoaplab-activity1.2net.sf.taverna.t2.activities.soaplab.SoaplabActivity http://phoebus.cs.man.ac.uk:1977/axis/services/seq_analysis.parse_uniprot 0 1.0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeUniprot_searchfieldname0searchterm0result00report00net.sf.taverna.t2.activitiessoaplab-activity1.2net.sf.taverna.t2.activities.soaplab.SoaplabActivity http://phoebus.cs.man.ac.uk:1977/axis/services/uniprotsequence.uniprot 0 1.0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeparse_embl_idinput0output00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true input 0 'text/plain' 0 output 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeparse_uniprotfile_direct_dataUniprot_searchresultUniprot_searchfieldnamefieldNamevalueUniprot_searchsearchtermSearchTermparse_embl_idinputparse_uniprotoutputuniprot_recordUniprot_searchresultparsed_dataparse_uniprotoutputEmbl_Accparse_embl_idoutput 2011-03-28 17:43:19.515 BST 2011-03-28 17:43:19.515 BST 733461a4-348d-4198-b6ba-899bbf28ba64 2011-03-28 17:43:19.611 BST Untitled workflow #4 2011-03-28 17:43:19.515 BST Workflow3JobID00StatusgetJobStateparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://blast.ncl.ac.uk:8080/TavernaBlastService/services/blast?wsdl getJobState net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetJobState_inputjobId0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getJobState" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}getJobState"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="jobId" qname="getJobState&gt;jobId" /></s:elements></s:complextype></s:extensions> false jobId 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetJobState_outputinput0return00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getJobStateResponse" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}getJobStateResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="return" qname="getJobStateResponse&gt;return" /></s:elements></s:complextype></s:extensions> java.lang.String false input 0 'text/xml' 0 return 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetJobStateparametersgetJobState_inputoutputgetJobState_inputjobIdJobIDgetJobState_outputinputgetJobStateparametersStatusgetJobState_outputreturn d5767d0c-5a85-4f35-a4fc-8ef5e5bbf60c 2011-03-18 12:22:47.500 GMT 4e01e2d8-674e-4af5-8df0-317b9ecaa9f2 2011-03-16 19:37:52.588 GMT c73c43fa-0789-480d-99c8-8207a12fdbaf 2011-03-16 17:37:44.858 GMT EBI_OLS_TermInfoOntology_Id00 text/plain 2011-03-30 10:54:12.634 BST Ontology term identifier to retrive information about. For example: GO:0008150. 2011-03-30 10:54:12.634 BST Ontology_term text/xml 2011-03-30 10:54:12.634 BST text/plain 2011-03-30 10:54:12.634 BST getTermMetadataparameters0attachmentList11parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://www.ebi.ac.uk/ontology-lookup/OntologyQuery.wsdl getTermMetadata net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInput_parameterstermId0ontologyName0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getTermMetadata" name="parameters" qname="{http://www.ebi.ac.uk/ontology-lookup/OntologyQuery}getTermMetadata"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="termId" qname="{http://www.ebi.ac.uk/ontology-lookup/OntologyQuery}&gt;getTermMetadata&gt;termId" /><s:basetype optional="false" unbounded="false" typename="string" name="ontologyName" qname="{http://www.ebi.ac.uk/ontology-lookup/OntologyQuery}&gt;getTermMetadata&gt;ontologyName" /></s:elements></s:complextype></s:extensions> java.lang.String true termId 0 'text/plain' java.lang.String true ontologyName 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeUnwrap_resultinput0getTermMetadataReturn00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getTermMetadataResponse" name="parameters" qname="{http://www.ebi.ac.uk/ontology-lookup/OntologyQuery}getTermMetadataResponse"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="false" typename="Map" name="getTermMetadataReturn" qname="{http://www.ebi.ac.uk/ontology-lookup/OntologyQuery}&gt;getTermMetadataResponse&gt;getTermMetadataReturn"><s:elementtype><s:complextype optional="false" unbounded="false" typename="mapItem" name="" qname="{http://xml.apache.org/xml-soap}mapItem"><s:elements><s:basetype optional="false" unbounded="false" typename="anyType" name="key" qname="{http://xml.apache.org/xml-soap}mapItem&gt;key" /><s:basetype optional="false" unbounded="false" typename="anyType" name="value" qname="{http://xml.apache.org/xml-soap}mapItem&gt;value" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions> java.lang.String true input 0 'text/xml' 0 getTermMetadataReturn 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGOvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity GO net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetTermMetadataparametersInput_parametersoutputInput_parameterstermIdOntology_IdInput_parametersontologyNameGOvalueUnwrap_resultinputgetTermMetadataparametersOntology_termUnwrap_resultgetTermMetadataReturn 4eaf1d8b-b3dc-478f-8337-bc4213714abb 2011-03-30 10:54:12.741 BST Hamish McWilliam 2011-03-30 10:54:12.659 BST EBI_OLS_TermInfo 2011-03-30 10:54:12.659 BST Get details of an ontology term given its identifer. This workflow uses the EBI's Ontology Lookup Service (OLS) to get the details of the ontology term. The OLS suports a wide range of biological and bioinformatic ontologies. See http://www.ebi.ac.uk/ontology-lookup/ for more information. 2011-03-30 10:54:12.659 BST 672f9ccb-befa-40ea-ad98-ed1905681a36 2011-03-30 10:59:32.867 BST 95e54190-f04b-4903-b7b1-11f40bb672de 2011-03-30 11:01:12.1 BST 5991ef38-c361-422d-82ab-5c100a76112c 2011-03-30 10:55:35.943 BST GO_Data_from_GO_IDparsed_uniprot00 File location of the parsed Uniprot results 2011-03-30 16:11:49.141 BST File location of the parsed Uniprot results. To generate this file, see http://www.myexperiment.org/workflows/26.html 2011-03-30 16:14:06.340 BST GO_Resultsget_identifiers_from_uniprot_2_2parsed_uniprot0identifier_name0out111net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true parsed_uniprot 0 text/plain java.lang.String true identifier_name 0 text/plain 1 out1 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeEBI_OLS_TermInfoOntology_Id0Ontology_term00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGO_deXMLerin10out100net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true in1 0 text/plain 0 out1 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGOvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity GO net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_Stringgo_defs1go_ids1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true go_defs 1 l('text/plain') java.lang.String true seperator 0 'text/plain' java.lang.String true go_ids 1 text/plain 0 concatenated 0 UserNameHere 2011-03-30 16:27:49.467 BST UserNameHere 2011-03-30 16:25:55.280 BST UserNameHere 2011-03-30 16:29:15.546 BST net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_identifiers_from_uniprot_2_2parsed_uniprotparsed_uniprotget_identifiers_from_uniprot_2_2identifier_nameGOvalueEBI_OLS_TermInfoOntology_Idget_identifiers_from_uniprot_2_2out1GO_deXMLerin1EBI_OLS_TermInfoOntology_termMerge_String_List_to_a_Stringgo_defsGO_deXMLerout1Merge_String_List_to_a_Stringgo_idsget_identifiers_from_uniprot_2_2out1GO_ResultsMerge_String_List_to_a_Stringconcatenated 416a5592-70f9-4c5f-af15-397bd21af3cb 2011-03-28 19:15:54.482 BST a129e83f-4d68-4d84-bb21-b7b2c29cdab9 2011-03-30 12:01:49.842 BST 7ae7f0a1-1f28-48e1-8c41-7c6da1587e3d 2011-03-28 16:34:34.815 BST a7da9321-f578-410e-93b3-2115c326a8d4 2011-03-30 16:15:18.613 BST c88315af-4ce4-43fb-b48d-45cc0e9424b2 2011-03-28 18:57:59.270 BST fb843096-2675-4579-9a51-05f43e15ba79 2011-03-28 17:54:29.330 BST f5c68892-7c8c-4bba-96cf-6e4094272de2 2011-03-28 18:51:46.105 BST 33afbd5c-d9a6-4e58-a255-ac744742875a 2011-03-28 18:38:03.893 BST 4ed40fd8-b13c-4aa2-8977-329988763674 2011-03-28 17:56:58.784 BST 6ad18fe7-29cc-4cd2-ad50-6b2b62c7be8c 2011-03-30 16:23:46.939 BST b4078147-9bbb-45c3-a045-dc6090bf95bb 2011-03-30 11:01:16.668 BST 11d4d655-87f9-4a31-88f1-eef56a3a03ee 2011-03-28 16:58:53.309 BST 2011-03-28 16:28:59.317 BST 2011-03-28 16:28:59.317 BST fda20a14-917b-454a-a88e-4d4cf58e24c6 2011-03-28 18:34:50.789 BST GO Data from GO ID 2011-03-30 16:15:03.966 BST 21781546-1ad8-4dea-81d0-6780a7ec9e66 2011-03-30 16:35:51.793 BST 73ae7c45-6300-40e1-86c2-5da602996ff8 2011-03-30 10:59:35.473 BST acd0a40b-a688-473f-8618-1bdbd2046096 2011-03-28 16:33:17.871 BST Untitled workflow #14 2011-03-28 16:28:59.317 BST d7ce24f5-f65b-4b2b-8500-6d35cf027d1c 2011-03-28 19:02:12.80 BST e276142b-824b-4fca-94b4-5a7402085b73 2011-03-30 10:59:54.93 BST 9e103ba0-8dce-4f23-a7f4-165bd80a8f93 2011-03-30 10:56:21.121 BST 9fedbdd2-dde5-4b08-ab50-80991ea7c41c 2011-03-28 18:55:56.909 BST ff900e9f-7b8d-43fc-be47-cc638b4266d4 2011-03-28 19:00:51.178 BST 2011-03-30 16:14:48.557 BST 2011-03-30 16:15:18.518 BST 473b328e-5f9a-4db9-b31a-c868afc8da4c 2011-03-30 10:55:52.642 BST 5f08104a-de65-423f-b532-dc7eb89c28ce 2011-03-28 16:39:56.913 BST 0523fd65-210c-421c-a12d-86216a61de19 2011-03-30 16:14:43.704 BST 7f7920cf-259e-4947-8a28-bbd0bf0d5de4 2011-03-28 18:59:44.143 BST 3117ba0d-f09f-4956-ad74-7761dbf998d9 2011-03-28 19:18:13.311 BST 19dbb793-e604-4c3c-82a6-e2fe1be4d084 2011-03-29 11:06:03.489 BST ef9de97c-ca76-479e-b933-d396f043e138 2011-03-28 16:39:02.585 BST Threshold_BLAST_resultsblast_file00 File : D:\Workflows\Ours\blast_results.txt 2011-03-28 11:41:26.692 BST Add file location of tab-delimited BLAST results to be thresholded 2011-03-28 11:41:06.278 BST File : D:\Workflows\Ours\blast_results 2011-03-28 11:41:21.424 BST thresholdIdentity00 90.00 2011-03-28 11:42:20.533 BST The amount of identity that two proteins must have to be included in the thresholded results 2011-03-28 11:41:50.694 BST thresholdedBlastResultsthreshold_BLAST_resultsblast_file0thresholdIdentity0out100net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true blast_file 0 text/plain java.lang.String true thresholdIdentity 0 text/plain 0 out1 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokethreshold_BLAST_resultsblast_fileblast_filethreshold_BLAST_resultsthresholdIdentitythresholdIdentitythresholdedBlastResultsthreshold_BLAST_resultsout1 59b138d5-5cb4-4a34-a8cb-f4dfd035ef8b 2011-03-28 11:42:41.787 BST Thresholds tab-delimited BLAST results to a certain percent identity. 2011-04-01 12:04:20.645 BST 90be7e33-afc5-4ecb-82bf-712e2a39bc8d 2011-03-28 11:45:51.374 BST Threshold BLAST results 2011-04-01 12:03:56.350 BST 770542e1-6648-4a17-9d31-b4db57f8e21f 2011-04-01 12:04:30.841 BST bd3db62e-7772-4c70-b67b-4a264023adbf 2011-03-28 11:44:34.517 BST Workflow40Entry_Id00Domain00getEntry_output_entryValuesgetEntryparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://www.ebi.ac.uk/ebisearch/service.ebi?wsdl getEntry net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetEntry_inputentry0fields1domain0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getEntry" name="parameters" qname="{http://www.ebi.ac.uk/EBISearchService}getEntry"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="domain" qname="{http://www.ebi.ac.uk/EBISearchService}&gt;getEntry&gt;domain" /><s:basetype optional="false" unbounded="false" typename="string" name="entry" qname="{http://www.ebi.ac.uk/EBISearchService}&gt;getEntry&gt;entry" /><s:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfString" name="fields" qname="{http://www.ebi.ac.uk/EBISearchService}&gt;getEntry&gt;fields"><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:extensions> false domain 0 'text/plain' false entry 0 'text/plain' false fields 1 l('text/plain') 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetEntry_outputinput0entryValues11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getEntryResponse" name="parameters" qname="{http://www.ebi.ac.uk/EBISearchService}getEntryResponse"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfString" name="entryValues" qname="{http://www.ebi.ac.uk/EBISearchService}&gt;getEntryResponse&gt;entryValues"><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:extensions> java.lang.String false input 0 'text/xml' 1 entryValues 1 l('text/plain') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokelistFieldsparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://www.ebi.ac.uk/ebisearch/service.ebi?wsdl listFields net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokelistFields_inputdomain0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="listFields" name="parameters" qname="{http://www.ebi.ac.uk/EBISearchService}listFields"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="domain" qname="{http://www.ebi.ac.uk/EBISearchService}&gt;listFields&gt;domain" /></s:elements></s:complextype></s:extensions> false domain 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokelistFields_outputinput0arrayOfFieldNames11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="listFieldsResponse" name="parameters" qname="{http://www.ebi.ac.uk/EBISearchService}listFieldsResponse"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfString" name="arrayOfFieldNames" qname="{http://www.ebi.ac.uk/EBISearchService}&gt;listFieldsResponse&gt;arrayOfFieldNames"><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:extensions> java.lang.String false input 0 'text/xml' 1 arrayOfFieldNames 1 l('text/plain') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeConcatenate_two_stringsstring10string20output00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringConcat workflow java.lang.String true string1 0 'text/plain' java.lang.String true string2 0 'text/plain' 0 output 0 UserNameHere 2011-03-30 16:39:34.159 BST net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetEntryparametersgetEntry_inputoutputgetEntry_inputentryEntry_IdgetEntry_inputfieldslistFields_outputarrayOfFieldNamesgetEntry_inputdomainDomaingetEntry_outputinputgetEntryparameterslistFieldsparameterslistFields_inputoutputlistFields_inputdomainDomainlistFields_outputinputlistFieldsparametersConcatenate_two_stringsstring1listFields_outputarrayOfFieldNamesConcatenate_two_stringsstring2getEntry_outputentryValuesgetEntry_output_entryValuesConcatenate_two_stringsoutput 28d4438b-5326-4ec1-9c46-1ee3b08cb23b 2011-03-28 19:08:29.809 BST 5d320077-d00d-48c4-ad88-009a51fd10a1 2011-03-28 18:25:30.628 BST a8e6c66a-2319-47dd-9b2b-cf4642a180be 2011-03-28 19:07:07.123 BST fac4bed3-abac-4864-8df7-8c97c5d9faba 2011-03-28 18:22:17.369 BST 4db4c4e5-4f28-448c-8ab8-ab579454d6ee 2011-03-28 18:27:54.841 BST 4cc17549-3f52-4a93-adb4-52746c2e31a3 2011-03-28 19:12:01.629 BST 3cc20f68-58e9-4f62-ac8b-4f78e3814906 2011-03-28 18:55:42.38 BST 0ff56878-b4d2-4b72-b768-ecfa14497393 2011-03-28 18:57:50.617 BST 6dc968df-61ce-43fe-b497-5701fa930ff4 2011-03-30 16:39:39.780 BST 6d71ee52-0f98-499a-b48d-ea6586d334b9 2011-03-28 19:11:45.502 BST NCBIGitoKeggPathwaysUniprot_ids00 215422388 2011-03-25 18:07:46.275 GMT imports gi numbers to be used by the workflow to create the pathways 2010-03-19 03:48:31.724 GMT text/plain 2010-03-15 17:26:56.908 GMT 2010-03-15 17:26:56.908 GMT imports gi numbers to be used by the workflow to create the pathways Tried this one and it worked 2011-03-25 18:07:56.507 GMT KEGGID kegg ids 2010-03-19 03:50:43.170 GMT text/plain 2010-03-15 17:26:56.908 GMT pathway_by_genes pathway ids 2010-03-19 03:51:34.611 GMT text/plain 2010-03-15 17:26:56.908 GMT pathway_descriptions text/plain 2010-03-15 17:26:56.908 GMT pathway ids and corresponding pathways descriptions 2010-03-19 03:51:25.813 GMT kegg_descriptions Kegg Ids and corresponding Kegg descriptions 2010-03-19 03:50:34.309 GMT URL corresponding url to the pathway id 2010-03-19 03:52:02.52 GMT image corresponding image to the pathway id 2010-03-19 03:52:25.108 GMT merge_pathwaysstringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokemerge_pathways_2stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokemerge_descriptionsstringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringListMerge workflow java.lang.String true stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' 0 concatenated 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeRemove_duplicate_pathwaysstringlist1strippedlist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates workflow java.lang.String true stringlist 1 l('text/plain') 1 strippedlist 1 l('text/plain') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokebtitstring0return00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://soap.genome.jp/KEGG.wsdl btit net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokebtit1string0return00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://soap.genome.jp/KEGG.wsdl btit net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokebconvstring0return00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://soap.genome.jp/KEGG.wsdl bconv net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeremove_Nullsinput0output00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true input 0 'text/plain' 0 output 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_gene_idsinput0output00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true input 0 'text/plain' 0 output 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeremove_nulls_2input0output00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true input 0 'text/plain' 0 output 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeadd_uniprot_to_stringinput0output00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true input 0 'text/plain' 0 output 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_image_from_URLurl0image00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.WebImageFetcher workflow java.lang.String true url 0 'text/x-taverna-web-url' java.lang.String true base 0 'text/x-taverna-web-url' 0 image 0 'image/*' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecolor_pathway_by_objects_2pathway_id0bg_color_list1fg_color_list1object_id_list1attachmentList11return00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://soap.genome.jp/KEGG.wsdl color_pathway_by_objects net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokesplit_by_regex_2regex0string0split11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.SplitByRegex workflow java.lang.String true string 0 'text/plain' java.lang.String true regex 0 'text/plain' 1 split 1 l('text/plain') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeregex_2value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity \n net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokesplit_by_regexregex0string0split11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.SplitByRegex workflow java.lang.String true string 0 'text/plain' java.lang.String true regex 0 'text/plain' 1 split 1 l('text/plain') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeregexvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity \n net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_pathways_by_genesgenes_id_list1attachmentList11return11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://soap.genome.jp/KEGG.wsdl get_pathways_by_genes net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 0 0 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokepinkvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity pink net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokepurplevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity purple net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFlatten_Listinputlist2outputlist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.FlattenList workflow [B true inputlist 2 l(l('')) 1 outputlist 1 l('') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFlatten_List_3inputlist2outputlist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity org.embl.ebi.escience.scuflworkers.java.FlattenList workflow [B true inputlist 2 l(l('')) 1 outputlist 1 l('') net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokemerge_pathwaysstringlistget_pathways_by_genesreturnmerge_pathways_2stringlistRemove_duplicate_pathwaysstrippedlistmerge_descriptionsstringlistbtitreturnRemove_duplicate_pathwaysstringlistmerge_pathwaysconcatenatedbtitstringextract_gene_idsoutputbtit1stringmerge_pathwaysconcatenatedbconvstringadd_uniprot_to_stringoutputremove_Nullsinputmerge_descriptionsconcatenatedextract_gene_idsinputFlatten_Listoutputlistremove_nulls_2inputmerge_pathways_2concatenatedadd_uniprot_to_stringinputUniprot_idsGet_image_from_URLurlcolor_pathway_by_objects_2returncolor_pathway_by_objects_2pathway_idsplit_by_regex_2splitcolor_pathway_by_objects_2bg_color_listpinkvaluecolor_pathway_by_objects_2fg_color_listpurplevaluecolor_pathway_by_objects_2object_id_listFlatten_List_3outputlistsplit_by_regex_2regexregex_2valuesplit_by_regex_2stringremove_nulls_2outputsplit_by_regexregexregexvaluesplit_by_regexstringextract_gene_idsoutputget_pathways_by_genesgenes_id_listsplit_by_regexsplitFlatten_ListinputlistbconvreturnFlatten_List_3inputlistsplit_by_regexsplitKEGGIDextract_gene_idsoutputpathway_by_genesremove_nulls_2outputpathway_descriptionsbtit1returnkegg_descriptionsremove_NullsoutputURLcolor_pathway_by_objects_2returnimageGet_image_from_URLimage 1495f977-2aeb-4ca7-a79d-e9aa9472af27 2011-03-25 18:08:37.965 GMT b9b894bb-350e-47f2-81ba-e076e9f50608 2011-03-31 13:57:42.749 BST d456be95-e8be-419b-a86e-fa54751ae1b0 2011-03-31 14:50:44.6 BST a110afdb-d845-4164-8b6a-49f76cfb514d 2011-03-31 11:19:46.601 BST 17596066-d978-42f2-a5a1-3082300be8ea 2011-03-31 11:14:43.208 BST aeba0128-e6e4-4246-8da0-b816c51b62cc 2011-03-31 11:57:51.849 BST c2ab2676-5a31-4889-9913-0601a8f0e238 2011-03-31 13:58:25.963 BST NCBI Gi to Kegg Pathways 2010-03-15 17:26:56.962 GMT f38c6560-baaa-400e-be8a-b02171e13db0 2011-03-31 15:02:01.586 BST This workflow gets a series of information relating to a list of KEGG genes supplied to it. It also removes any null values from a list of strings. 2010-03-15 17:26:56.962 GMT "This workflow gets a series of information relating to a list of KEGG genes supplied to it. It also removes any null values from a list of strings." 2010-03-19 03:47:03.582 GMT 89621269-d95c-45f4-b969-0bce9cccd125 2011-03-31 11:19:29.823 BST 358042ee-ccdc-43f4-8301-5e7448bfbd53 2011-03-25 11:49:22.194 GMT 31e58e2c-47a8-4ed4-a7ab-c6b8d1d67149 2011-03-31 14:42:16.155 BST 3542735a-febb-4b90-af1d-7571fa36d73e 2011-03-28 12:03:17.584 BST Paul Fisher 2010-03-15 17:26:56.962 GMT nclteamc and Paul Fisher 2010-03-19 03:46:54.347 GMT d5d0df3b-2ac7-4a8d-85ce-223e0ff17132 2011-03-25 17:57:31.266 GMT Workflow8subjectURL00queryURL00JobIDOutputBlastReportFinalStatusaquireSubjectFileparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://blast.ncl.ac.uk:8080/TavernaBlastService/services/blast?wsdl aquireInputFile net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSubjectUrlInputurl0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="aquireInputFile" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}aquireInputFile"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="url" qname="aquireInputFile&gt;url" /></s:elements></s:complextype></s:extensions> false url 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesubjectFileIDinput0return00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="aquireInputFileResponse" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}aquireInputFileResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="return" qname="aquireInputFileResponse&gt;return" /></s:elements></s:complextype></s:extensions> java.lang.String false input 0 'text/xml' 0 return 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeaquireQueryFileparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://blast.ncl.ac.uk:8080/TavernaBlastService/services/blast?wsdl aquireInputFile net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeQueryUrlInputurl0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="aquireInputFile" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}aquireInputFile"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="url" qname="aquireInputFile&gt;url" /></s:elements></s:complextype></s:extensions> false url 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokequeryFileIDinput0return00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="aquireInputFileResponse" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}aquireInputFileResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="return" qname="aquireInputFileResponse&gt;return" /></s:elements></s:complextype></s:extensions> java.lang.String false input 0 'text/xml' 0 return 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesubmitBlastPJobparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://blast.ncl.ac.uk:8080/TavernaBlastService/services/blast?wsdl submitBlastPJob net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesubmitBlastPJob_inputsubjectFileId0queryFileId0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="submitBlastPJob" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}submitBlastPJob"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="subjectFileId" qname="submitBlastPJob&gt;subjectFileId" /><s:basetype optional="true" unbounded="false" typename="string" name="queryFileId" qname="submitBlastPJob&gt;queryFileId" /></s:elements></s:complextype></s:extensions> false subjectFileId 0 'text/plain' false queryFileId 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeJobIDinput0return00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="submitBlastPJobResponse" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}submitBlastPJobResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="return" qname="submitBlastPJobResponse&gt;return" /></s:elements></s:complextype></s:extensions> java.lang.String false input 0 'text/xml' 0 return 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeAwaitJobCompletionJobID0Status00net.sf.taverna.t2.activitiesdataflow-activity1.2net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop <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 = "" + ! Status.equals("COMPLETED"); if ("true".matches(loop)) { Thread.sleep(10000); }</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>Status</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> true net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetBlastReportparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity http://blast.ncl.ac.uk:8080/TavernaBlastService/services/blast?wsdl getBlastReport net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetBlastReport_inputjobId0output00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getBlastReport" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}getBlastReport"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="jobId" qname="getBlastReport&gt;jobId" /></s:elements></s:complextype></s:extensions> false jobId 0 'text/plain' 0 output 0 'text/xml' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetBlastReport_outputinput0return00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getBlastReportResponse" name="parameters" qname="{http://cxf.blast.csc8308.ncl.ac.uk/}getBlastReportResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="return" qname="getBlastReportResponse&gt;return" /></s:elements></s:complextype></s:extensions> java.lang.String false input 0 'text/xml' 0 return 0 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeaquireSubjectFileparametersSubjectUrlInputoutputSubjectUrlInputurlsubjectURLsubjectFileIDinputaquireSubjectFileparametersaquireQueryFileparametersQueryUrlInputoutputQueryUrlInputurlqueryURLqueryFileIDinputaquireQueryFileparameterssubmitBlastPJobparameterssubmitBlastPJob_inputoutputsubmitBlastPJob_inputsubjectFileIdsubjectFileIDreturnsubmitBlastPJob_inputqueryFileIdqueryFileIDreturnJobIDinputsubmitBlastPJobparametersAwaitJobCompletionJobIDJobIDreturngetBlastReportparametersgetBlastReport_inputoutputgetBlastReport_inputjobIdJobIDreturngetBlastReport_outputinputgetBlastReportparametersJobIDOutputJobIDreturnBlastReportgetBlastReport_outputreturnFinalStatusAwaitJobCompletionStatus e0a458bb-2f5c-43e7-b582-745c970a1966 2011-03-16 17:41:03.200 GMT f5981737-10a0-4fc4-9672-3130a03656ab 2011-03-16 17:40:41.255 GMT a2f6d3f7-262b-47b5-9fd1-e191935a19a9 2011-03-16 17:07:31.320 GMT 14b5dde3-dfd6-4c04-b254-78c13051998a 2011-03-16 19:38:23.32 GMT 5ce9aec8-494f-45dd-a978-3d7156430652 2011-03-16 14:42:27.305 GMT 66e94c9e-a25e-4df1-bcf9-988548430342 2011-03-16 14:29:06.933 GMT 63f00396-c32e-4320-a732-6c682f2464fb 2011-03-16 19:07:15.429 GMT 3b70d4ae-354f-477e-a277-41712da51770 2011-03-16 17:31:43.390 GMT ec74ad83-bc35-4801-9f1a-5895a07707a4 2011-03-16 17:11:23.916 GMT 71ce1c05-e453-4cab-b2e1-ee49bb4534dc 2011-03-16 14:28:03.443 GMT 00226a02-118c-419e-96df-2dd8869cbfa0 2011-03-16 16:51:12.261 GMT 573e2324-2806-494a-8127-37eda623cd97 2011-03-18 11:45:08.987 GMT e9287f94-ee6e-483b-8c8b-5284afc5213e 2011-03-16 15:34:27.528 GMT 78ba349d-a426-46bb-b842-57cad76582ef 2011-03-18 12:22:51.796 GMT 660f7075-7cd0-4c7c-8240-5ef305e3d081 2011-03-16 17:39:20.697 GMT 4d26090f-0bef-4024-ba16-8a69f3690998 2011-03-16 22:52:59.767 GMT cd88505f-a3f1-4bde-af4a-aa287edf5642 2011-03-16 17:04:35.157 GMT Workflow36thresholded_blast00gi_numbersextract_embl_from_blastunique_identifiers0out100net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity workflow java.lang.String true unique_identifiers 0 text/plain 0 out1 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_embl_from_blastunique_identifiersthresholded_blastgi_numbersextract_embl_from_blastout1 9da54ff9-666e-4b37-9b51-4253ce2aa4e3 2011-03-28 14:15:58.425 BST c2d1d84b-5fe7-44f7-8623-be156fdb7022 2011-03-28 14:24:09.153 BST 7fc42d35-5cce-471c-97da-98bbef355bc5 2011-03-28 14:11:24.932 BST a02d4f7b-c8cf-4d4b-928c-ba1a261b55d2 2011-03-28 16:44:55.235 BST 947351f6-7bd1-4045-a085-20ac5321adb9 2011-03-28 16:45:50.692 BST df44d724-29e3-4388-9ad7-c91b3c155448 2011-03-28 14:23:43.718 BST 1ae5ea65-68cb-47b1-9f19-dd02451f0981 2011-03-28 14:10:13.533 BST 97ca9486-2650-4c74-8fed-55434ecfcb5f 2011-03-28 14:22:49.653 BST 17305750-742e-4a5e-8e90-5c2428445012 2011-03-28 16:57:30.14 BST 685f9123-2cda-440d-bddc-56c89ff31a2a 2011-03-28 14:19:20.984 BST cf58c3d7-d887-4d76-ae34-88c1c8db722e 2011-03-28 14:20:09.898 BST fc421123-fbb0-4793-9d33-6144808b1a63 2011-03-28 16:46:55.748 BST e07c0f89-8abe-4fba-9c4b-09969b7c5e8c 2011-03-28 14:08:00.146 BST 2ee1bf16-50b0-43d9-a017-33d197bdced9 2011-03-28 16:48:23.946 BST 031fa9b7-183c-499a-b269-f3b8faf12752 2011-03-28 14:06:55.834 BST bdc2723f-dc2c-48e1-ac6c-8cacd3da705d 2011-03-28 14:17:17.190 BST d59fa6cd-cf4d-4c4e-969b-2aaa6e715cb0 2011-03-28 14:17:58.13 BST b0f93f0d-7821-4056-a53f-07961afb4264 2011-03-28 16:56:29.848 BST 7ecb3fae-7fa0-4a8e-9be2-0249d0d93c85 2011-03-28 14:06:16.349 BST 8d2027c6-c223-4e1c-a388-a9a76d1fe9a1 2011-03-28 16:47:49.242 BST ab1440e1-4318-4124-adc4-2288c3bc6101 2011-03-28 14:14:35.23 BST 3aab4589-ed9a-47f1-9bd1-286581af7f22 2011-03-28 14:12:25.862 BST 84eb7e30-96bb-4aaf-bf80-449579424f0b 2011-03-28 14:13:10.264 BST fed9062a-2a7d-4f65-bd56-6192178619f4 2011-03-28 14:21:28.705 BST 61754d49-84e4-465f-bb1b-14932249c169 2011-03-28 16:43:03.711 BST