Kegg_pathway_diagramsgene_ids11 3945 2010-03-13 08:12:45.624 GMT A list of KEGG gene ids 2010-03-13 08:12:41.71 GMT Species00 The three letter species code used by KEGG 2010-03-13 08:05:59.216 GMT The three letter species code 2010-03-13 08:05:45.460 GMT KEGG 2010-03-13 08:05:23.807 GMT eco 2010-03-13 08:06:06.679 GMT attachmentlistKeggPathwayIDs path:hsa00010 2010-03-13 08:15:43.143 GMT A list of the pathways found. 2010-03-13 08:15:37.559 GMT attachmentlist2KeggImage A list of pathway images in png format. If no pathway is found in which all the specified genes are involved, the list will be empty. 2010-03-13 08:13:52.343 GMT keggimageurl The URLs of the images produced for the KeggImage output 2010-03-13 08:14:19.106 GMT The URLs of the images produced for the KeggImage output. 2010-03-13 08:14:48.935 GMT http://soap.genome.jp/tmp/mark_pathway_www_api.126846700018802/hsa00010.png 2010-03-13 08:14:44.67 GMT keggGeneNames hsa:5236 2010-03-13 08:17:09.171 GMT A list of the gene ids, that was given as input with the species code concatenated. 2010-03-13 08:17:01.144 GMT get_pathways_by_genesgenes_id_list1attachmentList11return11net.sf.taverna.t2.activitieswsdl-activity1.0.1net.sf.taverna.t2.activities.wsdl.WSDLActivity http://soap.genome.jp/KEGG.wsdl get_pathways_by_genes net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokemark_pathway_by_objectsobject_id_list1pathway_id0attachmentList11return00net.sf.taverna.t2.activitieswsdl-activity1.0.1net.sf.taverna.t2.activities.wsdl.WSDLActivity http://soap.genome.jp/KEGG.wsdl mark_pathway_by_objects net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_Image_From_URLurl0image00net.sf.taverna.t2.activitieslocalworker-activity1.0net.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-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeWorkflow89part10part20string00net.sf.taverna.t2.activitiesdataflow-activity1.0.1net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_pathways_by_genesgenes_id_listWorkflow89stringmark_pathway_by_objectsobject_id_listget_pathways_by_genesreturnmark_pathway_by_objectspathway_idget_pathways_by_genesreturnGet_Image_From_URLurlmark_pathway_by_objectsreturnWorkflow89part1SpeciesWorkflow89part2gene_idsattachmentlistget_pathways_by_genesattachmentListKeggPathwayIDsget_pathways_by_genesreturnattachmentlist2mark_pathway_by_objectsattachmentListKeggImageGet_Image_From_URLimagekeggimageurlmark_pathway_by_objectsreturnkeggGeneNamesWorkflow89string Find pathways in which all the genes in the list are involved. For each pathway draw the pathway diagram. 2010-03-13 07:59:28.240 GMT Jannetta Steyn 2010-03-12 18:39:29.404 GMT Kegg pathway diagrams 2010-03-12 18:40:11.636 GMT for each protein draw a diagram of the Kegg pathway that its protein is involved in and where available visualise the structures 2010-03-12 18:39:23.38 GMT Workflow89part100part200stringConcatenate_two_stringsstring10string20output00net.sf.taverna.t2.activitieslocalworker-activity1.0net.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 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeConcatenate_two_strings_2string10string20output00net.sf.taverna.t2.activitieslocalworker-activity1.0net.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 'text/plain' net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokestring2_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.0net.sf.taverna.t2.activities.stringconstant.StringConstantActivity : net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.0net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeConcatenate_two_stringsstring1part1Concatenate_two_stringsstring2string2_valuevalueConcatenate_two_strings_2string1Concatenate_two_stringsoutputConcatenate_two_strings_2string2part2stringConcatenate_two_strings_2output