Find_orthologs_using_a_uniprot_accessionuniprot_accessions00 P41148 2011-10-14 11:44:54.736 BST Just one uniprot Accession 2011-10-14 11:44:52.201 BST orthologSpecie00 Chose in which specie you want to find the orthologs. i.e human, mouse, rabbit, yeast 2011-10-03 14:50:41.33 BST human 2011-10-03 14:50:47.800 BST mappedProteinsuniprotuniprot.accession_filter0uniprot.entry_type10uniprot.organism10net.sf.taverna.t2.activitiesbiomart-activity1.3net.sf.taverna.t2.activities.biomart.BiomartActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeBiomart_datasets_for_the_Ensembl_Genes_mart_servicespecies1datasetName11net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFind_Orthologs_for_proteins_in_EnsemblorthologSpecie0proteinId0ensemblDataset0idReference0orthologId11net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeEBI_PICR__find_cross_references_for_protein_accessionsonlyActive0searchDatabases1taxonId0Protein_accessions0mapping_table00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeonlyActive_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity false net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesearchDatabases_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity SWISSPROT,TREMBL net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSplit_string_into_string_list_by_regular_expressionstring0regex0split11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity string 0 'text/plain' java.lang.String true regex 0 'text/plain' java.lang.String true split 1 l('text/plain') 1 workflow org.embl.ebi.escience.scuflworkers.java.SplitByRegex net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeregex_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity , net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeselectSecondColumnstring0mappedProtein00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity string 0 'text/plain' java.lang.String true mappedProtein 0 0 workflow org.embl.ebi.escience.scuflworkers.java.SplitByRegex UserNameHere 2011-10-14 13:04:58.700 BST net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetTxIdtx_Name0Result00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity http://xml.nig.ac.jp/wsdl/TxSearch.wsdl getTxId net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_Stringseperator0stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' java.lang.String true concatenated 0 'text/plain' 0 workflow org.embl.ebi.escience.scuflworkers.java.StringListMerge net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeseperator_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_2stringlist1seperator0concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' java.lang.String true concatenated 0 'text/plain' 0 workflow org.embl.ebi.escience.scuflworkers.java.StringListMerge net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeseperator_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeRemove_String_Duplicatesstringlist1strippedlist11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity stringlist 1 l('text/plain') java.lang.String true strippedlist 1 l('text/plain') 1 workflow org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeRemove_String_Duplicates_2stringlist1strippedlist11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity stringlist 1 l('text/plain') java.lang.String true strippedlist 1 l('text/plain') 1 workflow org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeBeanshellnewline00net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity newline 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSplit_string_into_string_list_by_regular_expression_2regex0string0split11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity string 0 'text/plain' java.lang.String true regex 0 'text/plain' java.lang.String true split 1 l('text/plain') 1 workflow org.embl.ebi.escience.scuflworkers.java.SplitByRegex net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_3seperator0stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity stringlist 1 l('text/plain') java.lang.String true seperator 0 'text/plain' java.lang.String true concatenated 0 'text/plain' 0 workflow org.embl.ebi.escience.scuflworkers.java.StringListMerge net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeseperator_value_2value00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity , net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeString_List_Unionlists2union11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity lists 2 l('text/plain') java.lang.String true union 1 1 workflow org.embl.ebi.escience.scuflworkers.java.StringSetUnion UserNameHere 2011-10-14 12:38:56.459 BST net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeuniprotuniprot.accession_filteruniprot_accessionsBiomart_datasets_for_the_Ensembl_Genes_mart_servicespeciesuniprotuniprot.organismFind_Orthologs_for_proteins_in_EnsemblorthologSpecieorthologSpecieFind_Orthologs_for_proteins_in_EnsemblproteinIduniprot_accessionsFind_Orthologs_for_proteins_in_EnsemblensemblDatasetMerge_String_List_to_a_StringconcatenatedFind_Orthologs_for_proteins_in_EnsemblidReferenceMerge_String_List_to_a_String_2concatenatedEBI_PICR__find_cross_references_for_protein_accessionsonlyActiveonlyActive_valuevalueEBI_PICR__find_cross_references_for_protein_accessionssearchDatabasesSplit_string_into_string_list_by_regular_expressionsplitEBI_PICR__find_cross_references_for_protein_accessionstaxonIdgetTxIdResultEBI_PICR__find_cross_references_for_protein_accessionsProtein_accessionsRemove_String_DuplicatesstrippedlistSplit_string_into_string_list_by_regular_expressionstringsearchDatabases_valuevalueSplit_string_into_string_list_by_regular_expressionregexregex_valuevalueselectSecondColumnstringSplit_string_into_string_list_by_regular_expression_2splitgetTxIdtx_NameorthologSpecieMerge_String_List_to_a_Stringseperatorseperator_valuevalueMerge_String_List_to_a_StringstringlistBiomart_datasets_for_the_Ensembl_Genes_mart_servicedatasetNameMerge_String_List_to_a_String_2stringlistuniprotuniprot.entry_typeMerge_String_List_to_a_String_2seperatorseperator_value_1valueRemove_String_DuplicatesstringlistFind_Orthologs_for_proteins_in_EnsemblorthologIdRemove_String_Duplicates_2stringlistEBI_PICR__find_cross_references_for_protein_accessionsmapping_tableSplit_string_into_string_list_by_regular_expression_2regexBeanshellnewlineSplit_string_into_string_list_by_regular_expression_2stringRemove_String_Duplicates_2strippedlistMerge_String_List_to_a_String_3seperatorseperator_value_2valueMerge_String_List_to_a_String_3stringlistString_List_UnionunionString_List_UnionlistsselectSecondColumnmappedProteinmappedProteinsMerge_String_List_to_a_String_3concatenated Rafael C. Jimenez 2011-10-03 15:45:49.570 BST 813a7290-bd84-4218-8cc2-439e7e9d4f92 2011-10-14 11:32:51.387 BST a00992e3-3573-486f-b00d-6b0e862291fa 2011-10-13 18:55:02.708 BST 41b67ef0-a193-4648-a698-693adebb1425 2011-10-14 11:56:44.701 BST 99cb5843-e577-4901-a31b-d4d0a4dfa2eb 2011-10-14 10:09:30.296 BST 5459549a-6095-454d-a5ba-ac3a2950e0bb 2011-10-14 11:38:05.805 BST bee73def-a169-4a95-8507-f4b37b92fe1c 2011-10-13 18:56:44.465 BST 49b8a7b8-07e0-4c9a-8d89-3d1468c0694e 2011-10-03 14:51:51.223 BST e6e1ba0a-fe53-46a5-a83e-8a1b17b02136 2011-10-14 12:49:40.335 BST b47eb806-d23e-4ef4-b318-f25881d9512b 2011-10-03 14:59:01.725 BST 25f96687-bd80-4a37-8dfd-6a0881319d53 2011-10-14 13:05:41.344 BST dce04d8e-2b19-491c-83df-42a6d77acfa9 2011-10-03 14:54:59.858 BST ec49ce49-3ed7-4969-a5f4-88019b1f9a06 2011-10-13 18:49:13.40 BST b3cfa6ea-bf5a-4e28-bed3-01e79cd9b058 2011-10-03 15:39:59.979 BST c5bbab6c-e045-4b84-9efe-e221c7fb22dd 2011-10-03 15:32:30.803 BST 53dbfc39-a64f-498e-928b-9e9ad982d097 2011-09-30 14:13:25.117 BST 6e7be16b-2ae6-4155-873a-5e800de57cb1 2011-10-14 11:45:24.440 BST 6107c6f7-3900-4fa6-aab3-e358710da18e 2011-10-14 12:53:10.635 BST d7a9f451-489e-4880-b29b-ee3e02a57b5a 2011-10-14 11:10:35.850 BST 6263840a-107c-4257-a30e-cf59f9a1b172 2011-10-14 12:46:40.305 BST 4be4596f-edb1-41a3-9fe5-c80e9b157b56 2011-10-14 11:54:50.662 BST bb213e3f-36aa-44d8-96de-942fb05513ea 2011-10-14 11:52:32.266 BST 730d9127-69cc-4346-8430-44ed10816cd9 2011-10-14 12:03:19.405 BST 4e7bf2df-a775-4790-8f5f-04afb910be44 2011-10-03 14:57:04.45 BST 93a09e0a-2b2f-4f81-8760-676e5f82deeb 2011-10-14 12:39:44.279 BST 82af1bdb-851e-4052-89c4-c6da63ab7c17 2011-09-30 14:14:35.733 BST af90bb69-2f0f-4a27-b023-0aa7ad4be619 2011-10-03 15:27:26.229 BST ed1c3647-7564-46af-93cb-e7a8da5ddaf7 2011-10-14 12:01:08.374 BST Find orthologs based on ensembl information using as input/output uniprot accession 2011-10-14 13:02:43.30 BST Find orthologs using a uniprot accession 2011-10-14 12:52:58.160 BST 7638a94a-7d5f-4b57-9bba-0b9164cfeabc 2011-10-14 12:16:08.439 BST f8f36fff-fcbd-4885-b6ad-a011cd2f1d89 2011-10-14 10:08:24.752 BST 2967ec5a-ec71-407c-8514-9dfd768a763d 2011-10-14 11:41:45.17 BST 5181e427-fc18-4961-ae6f-90a894e4ced3 2011-10-03 15:43:18.158 BST 86f958fb-e911-41e0-bd58-2d866ec65b04 2011-10-14 12:23:10.902 BST 030f63b0-015d-4172-b5ac-a4d8cea43b19 2011-10-03 15:48:57.220 BST Biomart_datasets_for_the_Ensembl_Genes_mart_servicespecies11 Felis catus 2011-10-03 10:02:05.19 BST Filter datasets by specie. To query all the species query by "all" or leave the input value empty. 2011-10-03 10:03:49.0 BST datasetAssembly Assembly 2011-10-03 10:09:26.524 BST CAT 2011-10-03 10:09:18.100 BST datasetDate Latest update 2011-10-03 10:09:43.789 BST 2011-09-07 22:11:36 2011-10-03 10:09:33.685 BST datasetName fcatus_gene_ensembl 2011-10-03 10:08:47.379 BST Dataset Name 2011-10-03 10:08:53.686 BST datasetSpecie Specie 2011-10-03 10:09:00.653 BST Felis catus 2011-10-03 10:09:09.487 BST GetDatasetsFromBiomartEnsemblGenesspecies1datasetAssembly11datasetDate11datasetName11datasetSpecie11net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity species 1 text/plain java.lang.String true datasetName 1 1 datasetSpecie 1 1 datasetDate 1 1 datasetAssembly 1 1 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGetDatasetsFromBiomartEnsemblGenesspeciesspeciesdatasetAssemblyGetDatasetsFromBiomartEnsemblGenesdatasetAssemblydatasetDateGetDatasetsFromBiomartEnsemblGenesdatasetDatedatasetNameGetDatasetsFromBiomartEnsemblGenesdatasetNamedatasetSpecieGetDatasetsFromBiomartEnsemblGenesdatasetSpecie 53dbfc39-a64f-498e-928b-9e9ad982d097 2011-09-30 14:13:25.117 BST feca51ca-2fc4-4c18-b3e6-2ae48ed1a2d6 2011-09-30 14:43:22.980 BST 525bbe5c-d7b5-44c6-9041-2fcd3b8dc654 2011-09-30 16:53:00.998 BST be14ab0b-02c3-4a7a-a0e4-4073a4545ee9 2011-09-30 16:47:00.330 BST 4be9a13f-d297-426c-b04f-9df179615ae7 2011-10-03 10:13:55.744 BST 1f3d2cd5-8527-4b3f-b1e3-fea7195fd66c 2011-09-30 14:40:00.796 BST 755a3386-8dfe-48d1-8e94-a9cb8433fc29 2011-10-03 10:16:55.420 BST 107e9aad-2222-4790-9cfd-2c0749e1fb80 2011-10-03 10:04:42.581 BST ded39eef-7bd3-43a5-906d-efcf73810102 2011-09-30 16:50:11.65 BST Rafael C. Jimenez 2011-10-03 10:06:13.480 BST Retrieve Biomart datasets for the Ensembl Genes mart service (one dataset per specie). 2011-10-03 10:16:39.57 BST 14b94ccd-ea82-4b5e-926d-097d7ab9a8d0 2011-10-03 10:09:49.9 BST a4171ee3-7d9f-49d8-95df-fc60102eca69 2011-09-30 16:55:16.325 BST Biomart datasets for the Ensembl Genes mart service 2011-10-03 10:16:54.116 BST 82af1bdb-851e-4052-89c4-c6da63ab7c17 2011-09-30 14:14:35.733 BST d5f166fb-735d-4175-9434-762845a565ca 2011-09-30 16:41:35.302 BST Find_Orthologs_for_proteins_in_EnsemblensemblDataset00 Ensembl dataset name corresponding to the specie for protein ID. Look for Ensembl dataset names in http://www.biomart.org/biomart/martservice?type=datasets&mart=ensembl 2011-10-03 13:06:09.903 BST cfamiliaris_gene_ensembl 2011-10-03 13:06:23.607 BST idReference00 The reference database for the protein ID. Three options: ensembl, swissprot or trembl 2011-10-03 13:04:15.144 BST swissprot 2011-10-03 13:04:20.293 BST proteinId00 Protein identifier 2011-10-03 13:05:26.714 BST P41148 2011-10-03 13:05:39.355 BST orthologSpecie00 human 2011-10-03 13:29:26.745 BST Chose in which specie you want to find the orthologs. i.e human, mouse, rabbit, yeast 2011-10-03 13:29:14.521 BST esemblIdsummaryorthologIdhomologDnhomologDshomologPercIdhomologSubtypeorthologyTypehomologPercIdR1findOrthologsensemblDataset0idReference0proteinId0orthologSpecie0esemblId11summary11orthologId11homologDn11homologDs11homologPercId11homologSubtype11orthologyType11homologPercIdR111net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity proteinId 0 text/plain java.lang.String true ensemblDataset 0 text/plain java.lang.String true idReference 0 text/plain java.lang.String true orthologSpecie 0 text/plain java.lang.String true esemblId 1 1 orthologId 1 1 summary 1 1 orthologyType 1 1 homologSubtype 1 1 homologPercId 1 1 homologDs 1 1 homologDn 1 1 homologPercIdR1 1 1 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokefindOrthologsensemblDatasetensemblDatasetfindOrthologsidReferenceidReferencefindOrthologsproteinIdproteinIdfindOrthologsorthologSpecieorthologSpecieesemblIdfindOrthologsesemblIdsummaryfindOrthologssummaryorthologIdfindOrthologsorthologIdhomologDnfindOrthologshomologDnhomologDsfindOrthologshomologDshomologPercIdfindOrthologshomologPercIdhomologSubtypefindOrthologshomologSubtypeorthologyTypefindOrthologsorthologyTypehomologPercIdR1findOrthologshomologPercIdR1 3303f135-a627-4085-8a44-da3f8ed0f485 2011-10-03 13:32:01.546 BST Find Orthologs for proteins in Ensembl 2011-10-03 14:30:11.23 BST 81fa4e31-b146-4477-95d4-d4cfc3c13105 2011-10-03 12:29:26.247 BST 6bee3311-a925-4b2a-97a5-739467310114 2011-10-03 12:09:51.33 BST 5b3c44be-aeb6-4f38-8848-09d55591423b 2011-10-03 12:36:48.913 BST 5ebb6474-9b08-4a1f-86d9-876346e36f4e 2011-10-03 14:27:18.513 BST 2103da72-c278-4324-aac1-0cb116ce5a5e 2011-10-03 12:09:06.260 BST 41a01363-62ac-4836-9506-3d117133d0c0 2011-10-03 14:15:59.762 BST 35e8c2eb-1a1e-4850-8214-c252477b9402 2011-10-03 12:03:23.564 BST 8cc9a4bc-cf28-4006-b4f9-06df4bc1e359 2011-10-03 12:31:50.682 BST 301a1e5a-6dce-4f0f-8143-550f6f3a4e9e 2011-10-03 14:30:21.548 BST af4aa296-86e1-4370-bb37-26ed804fb755 2011-10-03 12:33:45.480 BST 2473d45e-7ecb-4a55-80db-5cd3e4b82da0 2011-10-03 13:35:45.810 BST 90d274ae-df5a-43aa-a839-4a97136cbf55 2011-10-03 14:04:40.257 BST 2e8f54ca-fd12-4fc9-9e82-64c1f20d6cf5 2011-10-03 13:40:55.63 BST 2f40c23b-aedd-49a1-9277-961586218a52 2011-10-03 13:30:36.691 BST f423ddfb-f8d1-4666-be18-253e30043b51 2011-10-03 14:15:01.845 BST daa115ca-e51a-4cc7-87c4-e69c096696e3 2011-10-03 14:20:31.564 BST 93712525-a7ed-4d2b-99f2-339241325f90 2011-10-03 14:21:39.955 BST 2ef536dd-cdb1-4fa3-8cf5-8212a61997a0 2011-10-03 12:06:16.676 BST d9aaeab1-bfa9-470d-b67f-f343a0b4d7e1 2011-10-03 12:38:52.231 BST 4d6ffc53-ae22-4031-b0b8-5b095e417fb6 2011-10-03 12:07:30.808 BST 2a7e3b86-c22b-4537-b16e-61bbbf174035 2011-10-03 14:18:44.289 BST 9cb3364c-ecac-4ace-a582-a7ff0dff6bfe 2011-10-03 14:13:53.920 BST 8bf93ec1-2839-4379-94f7-ff9fd368420f 2011-10-03 14:56:55.940 BST 29ead42b-22c8-43d2-a9b4-9b7cd9e6d3de 2011-10-03 12:31:11.58 BST Rafael C. Jimenez 2011-10-03 14:28:07.644 BST 9fdcc050-19d3-4e03-b760-253653d655a9 2011-10-03 13:06:36.75 BST 74053ed6-b21e-4526-a1fa-7c82c4826e4a 2011-10-03 13:58:02.384 BST 1bd93725-0340-421b-9112-e0c8fa6ffaca 2011-10-03 13:40:06.240 BST Find Orthologs for proteins in Ensembl using biomart. 2011-10-03 14:30:04.502 BST EBI_PICR__find_cross_references_for_protein_accessionsProtein_accessions00 Input a list (comma-separated values) of protein accessions 2011-05-29 13:03:08.70 BST ENSP00000307786,ENSP00000369497 2011-05-29 13:01:48.270 BST searchDatabases11 SWISSPROT 2011-05-18 08:48:33.320 BST Which databases do you want the cross-references for? You can add more than one. You can get a list of databases available in PICR using the method "getMappedDatabaseNames" from the same PICR service or looking at this document http://www.ebi.ac.uk/Tools/picr/WSDLDocumentation.do 2011-05-18 08:48:28.762 BST onlyActive00 Do you just want accession that are active (no-deprecated)? … write down "true" or "false". If you do not specify this parameter the workflow will not work. 2011-05-18 08:47:24.674 BST true 2011-05-18 08:47:28.100 BST taxonId00 Create a new value and leave it empty if you do not want to filter by specie. Chose a Taxa Id if you want to limit by specie … http://www.uniprot.org/taxonomy/?query=* 2011-05-18 08:47:05.919 BST 9606 2011-05-18 08:47:10.722 BST mapping_tablegetUPIForAccessionparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity http://www.ebi.ac.uk/Tools/picr/service?wsdl getUPIForAccession net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetUPIForAccession_inputsearchDatabases1onlyActive0taxonId0accession0output00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity accession 0 'text/plain' false ac_version 0 'text/plain' false searchDatabases 1 l('text/plain') false taxonId 0 'text/plain' false onlyActive 0 'text/plain' false output 0 'text/xml' 0 <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getUPIForAccession" name="parameters" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}getUPIForAccession"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="accession" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}&gt;getUPIForAccession&gt;accession" /><s:basetype optional="false" unbounded="false" typename="string" name="ac_version" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}&gt;getUPIForAccession&gt;ac_version" /><s:arraytype optional="false" unbounded="true" wrapped="false" typename="string" name="searchDatabases" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}&gt;getUPIForAccession&gt;searchDatabases"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="" qname="{http://www.w3.org/2001/XMLSchema}string" /></s:elementtype></s:arraytype><s:basetype optional="false" unbounded="false" typename="string" name="taxonId" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}&gt;getUPIForAccession&gt;taxonId" /><s:basetype optional="false" unbounded="false" typename="boolean" name="onlyActive" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}&gt;getUPIForAccession&gt;onlyActive" /></s:elements></s:complextype></s:extensions> net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetUPIForAccession_outputinput0getUPIForAccessionReturn11net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity input 0 'text/xml' java.lang.String false getUPIForAccessionReturn 1 l('text/xml') 1 <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getUPIForAccessionResponse" name="parameters" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}getUPIForAccessionResponse"><s:elements><s:arraytype optional="false" unbounded="true" wrapped="false" typename="UPEntry" name="getUPIForAccessionReturn" qname="{http://www.ebi.ac.uk/picr/AccessionMappingService}&gt;getUPIForAccessionResponse&gt;getUPIForAccessionReturn"><s:elementtype><s:complextype optional="false" unbounded="false" typename="UPEntry" name="" qname="{http://model.picr.ebi.ac.uk}UPEntry"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="CRC64" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;CRC64" /><s:basetype optional="false" unbounded="false" typename="string" name="UPI" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;UPI" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="CrossReference" name="identicalCrossReferences" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;identicalCrossReferences"><s:elementtype><s:complextype optional="false" unbounded="false" typename="CrossReference" name="" qname="{http://model.picr.ebi.ac.uk}CrossReference"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="accession" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;accession" /><s:basetype optional="false" unbounded="false" typename="string" name="accessionVersion" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;accessionVersion" /><s:basetype optional="false" unbounded="false" typename="string" name="databaseDescription" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;databaseDescription" /><s:basetype optional="false" unbounded="false" typename="string" name="databaseName" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;databaseName" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="dateAdded" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;dateAdded" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="dateDeleted" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;dateDeleted" /><s:basetype optional="false" unbounded="false" typename="boolean" name="deleted" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;deleted" /><s:basetype optional="false" unbounded="false" typename="string" name="gi" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;gi" /><s:basetype optional="false" unbounded="false" typename="string" name="taxonId" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;taxonId" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="CrossReference" name="logicalCrossReferences" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;logicalCrossReferences"><s:elementtype><s:complextype id="{http://model.picr.ebi.ac.uk}CrossReference" optional="false" unbounded="false" typename="CrossReference" name="" /></s:elementtype></s:arraytype><s:basetype optional="false" unbounded="false" typename="string" name="sequence" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;sequence" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="timestamp" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;timestamp" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions> net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetUPIForAccession_getUPIForAccessionReturninput0identicalCrossReferences11net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity input 0 'text/xml' java.lang.String false CRC64 0 'text/plain' 0 UPI 0 'text/plain' 0 identicalCrossReferences 1 l('text/xml') 1 logicalCrossReferences 1 l('text/xml') 1 sequence 0 'text/plain' 0 timestamp 0 'text/plain' 0 <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="UPEntry" name="" qname="{http://model.picr.ebi.ac.uk}UPEntry"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="CRC64" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;CRC64" /><s:basetype optional="false" unbounded="false" typename="string" name="UPI" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;UPI" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="CrossReference" name="identicalCrossReferences" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;identicalCrossReferences"><s:elementtype><s:complextype optional="false" unbounded="false" typename="CrossReference" name="" qname="{http://model.picr.ebi.ac.uk}CrossReference"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="accession" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;accession" /><s:basetype optional="false" unbounded="false" typename="string" name="accessionVersion" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;accessionVersion" /><s:basetype optional="false" unbounded="false" typename="string" name="databaseDescription" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;databaseDescription" /><s:basetype optional="false" unbounded="false" typename="string" name="databaseName" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;databaseName" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="dateAdded" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;dateAdded" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="dateDeleted" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;dateDeleted" /><s:basetype optional="false" unbounded="false" typename="boolean" name="deleted" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;deleted" /><s:basetype optional="false" unbounded="false" typename="string" name="gi" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;gi" /><s:basetype optional="false" unbounded="false" typename="string" name="taxonId" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;taxonId" /></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="CrossReference" name="logicalCrossReferences" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;logicalCrossReferences"><s:elementtype><s:complextype id="{http://model.picr.ebi.ac.uk}CrossReference" optional="false" unbounded="false" typename="CrossReference" name="" /></s:elementtype></s:arraytype><s:basetype optional="false" unbounded="false" typename="string" name="sequence" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;sequence" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="timestamp" qname="{http://model.picr.ebi.ac.uk}UPEntry&gt;timestamp" /></s:elements></s:complextype></s:extensions> net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetUPIForAccessionReturn_identicalCrossReferencesinput0accession00databaseName00taxonId00accessionVersion00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity input 0 'text/xml' java.lang.String false accession 0 'text/plain' 0 accessionVersion 0 'text/plain' 0 databaseDescription 0 'text/plain' 0 databaseName 0 'text/plain' 0 dateAdded 0 'text/plain' 0 dateDeleted 0 'text/plain' 0 deleted 0 'text/plain' 0 gi 0 'text/plain' 0 taxonId 0 'text/plain' 0 <s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="CrossReference" name="" qname="{http://model.picr.ebi.ac.uk}CrossReference"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="accession" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;accession" /><s:basetype optional="false" unbounded="false" typename="string" name="accessionVersion" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;accessionVersion" /><s:basetype optional="false" unbounded="false" typename="string" name="databaseDescription" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;databaseDescription" /><s:basetype optional="false" unbounded="false" typename="string" name="databaseName" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;databaseName" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="dateAdded" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;dateAdded" /><s:basetype optional="false" unbounded="false" typename="dateTime" name="dateDeleted" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;dateDeleted" /><s:basetype optional="false" unbounded="false" typename="boolean" name="deleted" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;deleted" /><s:basetype optional="false" unbounded="false" typename="string" name="gi" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;gi" /><s:basetype optional="false" unbounded="false" typename="string" name="taxonId" qname="{http://model.picr.ebi.ac.uk}CrossReference&gt;taxonId" /></s:elements></s:complextype></s:extensions> net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokebuild_mapping_tablecrossReferenceAccs3databaseNames3accessionVersions3taxonIds3originalAccs1results00net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity originalAccs 1 text/plain java.lang.String true crossReferenceAccs 3 text/plain java.lang.String true databaseNames 3 text/plain java.lang.String true taxonIds 3 text/plain java.lang.String true accessionVersions 3 text/plain java.lang.String true results 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokesplit_stringregex0string0split11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity string 0 'text/plain' java.lang.String true regex 0 'text/plain' java.lang.String true split 1 1 workflow org.embl.ebi.escience.scuflworkers.java.SplitByRegex UserNameHere 2011-05-29 12:57:38.562 BST net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeregex_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity , net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetUPIForAccessionparametersgetUPIForAccession_inputoutputgetUPIForAccession_inputsearchDatabasessearchDatabasesgetUPIForAccession_inputonlyActiveonlyActivegetUPIForAccession_inputtaxonIdtaxonIdgetUPIForAccession_inputaccessionsplit_stringsplitgetUPIForAccession_outputinputgetUPIForAccessionparametersgetUPIForAccession_getUPIForAccessionReturninputgetUPIForAccession_outputgetUPIForAccessionReturngetUPIForAccessionReturn_identicalCrossReferencesinputgetUPIForAccession_getUPIForAccessionReturnidenticalCrossReferencesbuild_mapping_tablecrossReferenceAccsgetUPIForAccessionReturn_identicalCrossReferencesaccessionbuild_mapping_tabledatabaseNamesgetUPIForAccessionReturn_identicalCrossReferencesdatabaseNamebuild_mapping_tableaccessionVersionsgetUPIForAccessionReturn_identicalCrossReferencesaccessionVersionbuild_mapping_tabletaxonIdsgetUPIForAccessionReturn_identicalCrossReferencestaxonIdbuild_mapping_tableoriginalAccssplit_stringsplitsplit_stringregexregex_valuevaluesplit_stringstringProtein_accessionsmapping_tablebuild_mapping_tableresults e67869cb-4fa8-41c0-bfc9-f0d1b9b70818 2011-05-18 09:20:14.32 BST 1da59d84-2695-447b-9191-d0d5098060e0 2011-05-29 12:58:30.517 BST b958fe71-cd1e-4dab-9442-ea1c0ce7bd0f 2011-05-29 02:59:01.82 BST 9696674a-29d4-4a7c-b9b7-f994380a5ada 2011-05-29 02:57:55.703 BST Rafael C Jimenez 2011-05-18 08:46:20.213 BST 205fea89-5fc4-4541-8c11-781b0110fd5f 2011-05-18 07:37:33.205 BST Find cross-references (based on 100% sequence identity) for protein accessions from more than 95 distinct databases. For instance input a list of IPI accessions and find cross-references for Swissprot and Ensembl. Mappings can be limited by source database, taxonomic ID and activity status. 2011-05-18 08:13:45.883 BST 3b3375da-905f-4f29-93b5-cd9241de9b3f 2011-05-18 07:52:21.846 BST c7604164-c633-479c-af37-210ac6c8b3ea 2011-05-18 08:16:28.999 BST da8428f6-e0ee-4b6c-90fd-1c1d9c2b994f 2011-05-29 13:05:38.686 BST fb13dc79-dca6-4250-973d-3275d986381d 2011-05-29 03:00:42.756 BST EBI PICR, find cross-references for protein accessions 2011-05-18 08:15:33.230 BST 99f35bd2-b018-4695-b0a0-b83873ac4204 2011-05-18 07:50:43.983 BST f365598f-84e9-41c5-9dac-a3d75ee5a43b 2011-05-29 12:15:12.114 BST 35ef885d-1373-4d40-8597-ba5b07cbda78 2011-05-18 08:52:43.442 BST f49baecc-e9e5-4240-aca0-47c73016c58e 2011-05-18 07:48:20.20 BST a1fe0cfe-6945-4b8d-b392-0d93b75129b9 2011-05-18 08:24:35.315 BST 81d2c585-f3df-4f49-8609-42facc48b85d 2011-05-18 09:28:12.188 BST 7aa06da4-2bc5-41b2-b05c-4320cbb21523 2011-05-18 09:00:46.670 BST e6dd081b-ea4b-468f-b11e-d38a97396793 2011-05-18 09:24:17.357 BST 761f8082-d028-496d-bb1c-d9690f8fb31c 2011-05-18 07:34:02.337 BST 2ce11204-18ee-4628-834a-b84fb8d3ce3c 2011-05-29 12:17:37.169 BST a58a95fb-b6db-4d1c-811e-2ad5f3eb1aca 2011-05-18 09:15:08.902 BST 21af884e-458f-4234-ba8b-a462ffb45f0b 2011-05-18 09:17:43.558 BST 699353f1-5474-42fb-92c1-f2a1488142bb 2011-05-29 13:03:21.697 BST 41be1c5e-d834-45f7-9b3c-d464dae04c54 2011-05-29 12:59:44.276 BST 755870c4-e673-4bc5-88d1-ce6b5354dbb5 2011-05-18 07:38:21.962 BST 8699f6be-f587-44d2-8c86-c0e74e5232c9 2011-05-18 08:49:52.753 BST 8ebb0413-76fc-4a12-b74a-dd70c4097f69 2011-05-18 09:16:13.262 BST