Partitioning_environTreeFile00 (((((sp1:1,sp2:1)L15:1,(sp3:1,sp4:1)L16:1)L7:1,((sp5:1,sp6:1)L17:1,(sp7:1,sp8:1)L18:1)L8:1)L3:1,(((sp9:1,sp10:1)L19:1,(sp11:1,sp12:1)L20:1)L9:1,((sp13:1,sp14:1)L21:1,(sp15:1,sp16:1)L22:1)L10:1)L4:1)L1:1,((((sp17:1,sp18:1)L23:1,(sp19:1,sp20:1)L24:1)L11:1,((sp21:1,sp22:1)L25:1,(sp23:1,sp24:1)L26:1)L12:1)L5:1,(((sp25:1,sp26:1)L27:1,(sp27:1,sp28:1)L28:1)L13:1,((sp29:1,sp30:1)L29:1,(sp31:1,sp32:1)L30:1)L14:1)L6:1)L2:1)L0:1; 2013-05-07 08:22:39.918 UTC phylogenetic infernece in newick format of the sequences ( or clusters of sequences ) present in the different samples. Internal label are overwritten by the service. 2013-05-07 08:24:01.214 UTC SampleFile00 clump1 1 sp1 clump1 1 sp2 clump1 1 sp3 clump1 1 sp4 clump1 1 sp5 clump1 1 sp6 clump1 1 sp7 clump1 1 sp8 clump2a 1 sp1 clump2a 1 sp2 clump2a 1 sp3 clump2a 1 sp4 clump2a 2 sp9 clump2a 2 sp10 clump2a 2 sp11 clump2a 2 sp12 clump2b 1 sp1 clump2b 1 sp2 clump2b 1 sp3 clump2b 1 sp4 clump2b 2 sp17 clump2b 2 sp18 clump2b 2 sp19 clump2b 2 sp20 clump4 1 sp1 clump4 1 sp2 clump4 1 sp9 clump4 1 sp10 clump4 2 sp17 clump4 2 sp18 clump4 2 sp25 clump4 2 sp26 even 1 sp1 even 1 sp5 even 1 sp9 even 1 sp13 even 1 sp17 even 1 sp21 even 1 sp25 even 1 sp29 random 1 sp2 random 2 sp5 random 1 sp12 random 4 sp14 random 2 sp15 random 3 sp17 random 1 sp22 random 2 sp24 2013-05-07 08:24:52.860 UTC a samplefile that show the where the leaf of the tree are found in the different sample and how many time. It follows phylocom file input standard. text file with tree columns ( space or tab). First column sample name, second number of times the sequence found, the third the name of the sequence. 2013-05-07 08:26:08.574 UTC SampleGroupingFile00 The file define how sample should be grouped. Text file in two columns ( space or tab). a line for each sample, first column the name of the sample, second the name of the group or state of the categorical variable. 2013-05-07 08:27:58.246 UTC even c random q clump2a a clump2b a clump4 a clump1 a 2013-05-07 08:26:44.514 UTC randomization00 1000 2013-04-11 11:01:10.921 UTC insert an integer to define number of randomization to perform to estimate significance of the difference found across groups. Good rule of the thumb randomization = nlog(n) where n is the number of sequences. 2013-05-07 08:29:40.598 UTC qparamHill00 float larger than zero, define the diversity index to be used following Hill parametrization. 1 is shannon index 2013-04-11 11:02:20.737 UTC 1 2013-04-11 11:02:16.426 UTC outputPrefix00 Prefix for all outputfiles 2013-04-11 11:03:23.959 UTC myDiversity 2013-04-11 11:03:07.610 UTC xmloutputType00 Type of xml summary output type: two possible standard are used nexml and phyloxml. T At the moment phyloxml is fully supported while nexml have some possible error 2013-04-11 11:04:52.583 UTC phyloxml 2013-04-11 11:05:01.158 UTC JobID integer that identify the job on the farm. Use it with the service centre to find out bug or crash of the job 2013-05-07 09:02:18.812 UTC OutputPath Link to folder with all details of estimation 2013-05-07 08:57:16.686 UTC URL 2013-05-07 08:57:59.620 UTC StandardOuput URL of the HTML file of summary 2013-05-07 08:57:48.151 UTC URL 2013-05-07 08:57:54.927 UTC Call_Retrieve_PhyloHArgument0Name0JobID11Output_Path11Stadardouput22net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeUpload_treeInputBody0File_name0REST_Service_redirection00net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeUpload_sampleInputBody0File_name0REST_Service_redirection00net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeUpload_sample_groupingInputBody0File_name0REST_Service_redirection00net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFormInput2PhyloHgroup0sample0tree0Nrandomization0qparamHill0XMLoutputType0output_prefix0output00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity tree 0 'text/plain' java.lang.String true sample 0 'text/plain' java.lang.String true group 0 text/plain java.lang.String true Nrandomization 0 text/plain java.lang.String true qparamHill 0 text/plain java.lang.String true output_prefix 0 text/plain java.lang.String true XMLoutputType 0 text/plain java.lang.String true output 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2013-04-11 11:34:07.948 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeServiceNamevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity PhyloH net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFile_name_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity group net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFile_name_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity sample net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFile_name_value_2value00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity tree net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInteractiondestination0net.sf.taverna.t2.activitiesinteraction-activity1.0.0net.sf.taverna.t2.activities.interaction.InteractionActivity destination 0 text/plain java.lang.String false http://www.mygrid.org.uk/taverna/internal/biovel/open_url.html LocallyPresentedHtml true net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeCall_Retrieve_PhyloHArgumentFormInput2PhyloHoutputCall_Retrieve_PhyloHNameServiceNamevalueUpload_treeInputBodyTreeFileUpload_treeFile_nameFile_name_value_2valueUpload_sampleInputBodySampleFileUpload_sampleFile_nameFile_name_value_1valueUpload_sample_groupingInputBodySampleGroupingFileUpload_sample_groupingFile_nameFile_name_valuevalueFormInput2PhyloHgroupUpload_sample_groupingREST_Service_redirectionFormInput2PhyloHsampleUpload_sampleREST_Service_redirectionFormInput2PhyloHtreeUpload_treeREST_Service_redirectionFormInput2PhyloHNrandomizationrandomizationFormInput2PhyloHqparamHillqparamHillFormInput2PhyloHXMLoutputTypexmloutputTypeFormInput2PhyloHoutput_prefixoutputPrefixInteractiondestinationCall_Retrieve_PhyloHStadardouputJobIDCall_Retrieve_PhyloHJobIDOutputPathCall_Retrieve_PhyloHOutput_PathStandardOuputCall_Retrieve_PhyloHStadardouput Partitioning environmental sequencing data using categorical and phylogenetic information using PhyloH . The WF need a tree in newick format, a samplefile that show the where the leaf of the tree are found in the different sample and how many time, and a grouping file where the different sample are grouped using a categorical variable. The WF gives back a tabular and graphical representation of an entropy based partitioning of the information present in the sequence across the groupings, and a graphical and tabular representation of the contribution of each branch of the tree to the differentiation across groups of sample. Further as side results the WF gives the tree annotated with the per branch contribution to the differentiation across groups of sample in nexml or phyloxml format and all files necessary to produce ex.novo the annotated tree on itol, giving the possibility to the user to add taxonomic information. 2013-05-07 08:19:04.918 UTC a17eb654-0171-4df2-ac36-4acc339384db 2013-04-26 18:33:51.919 UTC 7b6d374e-216b-4670-a68e-70afa004f63a 2013-04-26 19:47:07.79 UTC b0dc1429-1970-4494-9f8c-f6d0be299c8a 2013-04-11 11:34:13.925 UTC Partitioning environmental sequencing data using categorical and phylogenetic information using PhyloH 2013-05-07 08:12:14.626 UTC 96567df7-67fb-41eb-86a5-eae0224dc36b 2013-04-11 11:19:54.223 UTC saverio vicario giacinto Donvito alfonso monaco 2013-05-07 08:11:03.170 UTC 7fab7e35-85cf-4e21-bc13-995be24761e2 2013-05-07 08:30:14.602 UTC 97fad68f-684e-43ba-b39c-8716ade2e1ad 2013-05-07 08:19:06.317 UTC c41c6bc4-33ac-40f5-bd8b-93047b8dc1a9 2013-04-11 11:07:14.583 UTC 09241519-d83d-4b4e-944c-e25e5b4bb307 2013-05-07 09:02:29.484 UTC Workflow1File_name00InputBody00REST_Service_responseBodyREST_Service_statusREST_Service_redirectionREST_Servicefile_name0inputBody0responseBody00status00redirection00net.sf.taverna.t2.activitiesrest-activity1.4net.sf.taverna.t2.activities.rest.RESTActivity PUT http://testjst.ba.infn.it/openacces/{file_name} application/xml application/xml String false true false false true file_name java.lang.String net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeREST_Servicefile_nameFile_nameREST_ServiceinputBodyInputBodyREST_Service_responseBodyREST_ServiceresponseBodyREST_Service_statusREST_ServicestatusREST_Service_redirectionREST_Serviceredirection 580e799c-bc6e-42d7-a347-e10430e1af0a 2012-05-05 05:36:11.643 UTC 517fa4a1-06ee-4bd7-980e-5f63e13c2fb2 2012-05-04 08:52:59.585 UTC acb3452e-6be0-4669-9e84-22808ff471cc 2012-05-03 15:46:36.879 UTC 99b23eb4-ca64-4f27-b08c-bdf3864724e5 2012-05-05 05:33:41.165 UTC 24d62224-217d-46d0-a08a-06b0d60caec4 2012-05-02 07:59:24.107 UTC ce6b1735-eb91-4d53-8e9b-ff43089857cd 2012-05-02 12:54:46.975 UTC 8513ae60-119a-414f-915e-bca0bb7a7734 2012-05-05 05:31:39.298 UTC d6bd51d4-54a3-4e41-ab79-ee29ecca40cf 2012-05-03 15:34:45.183 UTC 74b3d010-9e53-4df0-8513-43a9a1c30c86 2012-05-10 07:29:59.107 UTC 8d4c37f0-a10b-465e-81aa-1c09938a3473 2012-05-01 08:37:47.922 UTC d56f22a8-96c1-4eb6-bf76-15cda0725ed8 2012-05-07 11:24:02.593 UTC 2ee8114d-7999-4833-ba39-97ddb6ff067c 2012-05-03 15:43:09.120 UTC b418f0df-28b8-497e-ac5d-a4b478911bd0 2012-05-01 08:36:38.8 UTC d1b49247-0c82-443c-acb1-bab1044296f4 2012-04-30 14:42:33.401 UTC d5aa2bb0-c984-456c-9ec2-df78463f1914 2012-05-01 08:39:00.787 UTC aff47fd7-0af5-47c0-afc2-a6f5ab27b564 2012-04-30 14:16:40.142 UTC 90744424-a1a0-4107-b358-5e931c677e4a 2012-05-01 08:35:44.460 UTC 49621bfe-01ef-4491-9a3e-d65911feb2a6 2012-05-24 16:26:53.940 UTC 0ad720e2-8bbd-4aed-96f5-756381173980 2012-04-24 12:19:06.97 UTC 288673db-e11c-4f6a-be9c-57b0c212979d 2012-04-30 14:48:27.139 UTC 5d1ef777-4da0-4af7-abc1-938cbd13b687 2012-05-05 05:39:03.774 UTC ffce4883-3f94-487f-9c25-e2e7bcdeb244 2012-05-06 19:42:14.223 UTC Workflow14Name00Argument00StatusOutput_PathStadardouputJobIDREST_Servicename0arguments0responseBody00net.sf.taverna.t2.activitiesrest-activity1.4net.sf.taverna.t2.activities.rest.RESTActivity GET http://alicegrid17.ba.infn.it:8080/INFN.Grid.FrontEnd/services/QueryJob/InsertJobs?NAME={name}&arguments={arguments} application/xml application/xml String false false false false true arguments java.lang.String name java.lang.String net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeXPath_Servicexml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.4net.sf.taverna.t2.activities.xpath.XPathActivity <?xml version="1.0" encoding="UTF-8"?> <Job><Name>blast</Name><Flag>7772590c-d7ab-4b76-98b9-aa293c6c34fe</Flag><JobsID><JobId>454118</JobId></JobsID></Job> /Job/JobsID/JobId net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeRetrivingJobJobID0Status00Output00StandardOutput11net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.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>1.3</version></raven><class>net.sf.taverna.t2.activities.beanshell.BeanshellActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean xmlns=""> <inputs> <net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> <name>Status</name> <depth>0</depth> <translatedElementType>java.lang.String</translatedElementType> <allowsLiteralValues>true</allowsLiteralValues> </net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean> </inputs> <outputs> <net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> <name>loop</name> <depth>0</depth> <granularDepth>0</granularDepth> </net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean> </outputs> <classLoaderSharing>workflow</classLoaderSharing> <localDependencies /> <artifactDependencies /> <script>loop = "" + ! Status.equals("done"); if ("true".matches(loop)) { Thread.sleep(2000); }</script> <dependencies /> </net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean></configBean><annotations /></activity> true net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeREST_ServicenameNameREST_ServiceargumentsArgumentXPath_Servicexml_textREST_ServiceresponseBodyRetrivingJobJobIDXPath_ServicenodelistStatusRetrivingJobStatusOutput_PathRetrivingJobOutputStadardouputRetrivingJobStandardOutputJobIDXPath_Servicenodelist dcf6d338-d587-4aa3-9541-b54bc9799d93 2012-05-03 13:14:12.544 UTC 857db6d7-3775-4738-bf94-5c6a78c1fb8b 2011-11-30 16:00:08.58 UTC bcc60618-7449-4965-b39d-d0d6d90ec7db 2011-11-30 15:49:46.56 UTC 36001f84-a643-4173-80ee-118a0ceaecbc 2011-11-30 17:10:08.264 UTC 5f07e956-6857-4261-ae1e-1ab5ba32ab08 2011-11-30 16:07:05.176 UTC 0b2a7cd3-3853-434d-b462-4a2d7796ea7d 2011-11-30 15:48:49.960 UTC 576ddacc-c8be-437b-afb7-6dfe3059fb77 2012-05-03 13:12:35.270 UTC 8b01e940-a672-4444-aa4c-ae78e228e67d 2012-04-02 15:51:30.599 UTC c10777b3-6ac8-4d90-826e-bf0a7325e9ee 2012-04-02 15:49:23.545 UTC 15c52e11-e32b-46b2-857c-89226396dc45 2011-11-30 15:41:58.998 UTC 28f1caea-d426-4ba2-8cef-3fc9263e63b1 2012-04-30 16:08:07.938 UTC 0db568c0-c7de-4f44-972f-969fd3006341 2012-12-19 14:19:10.457 UTC bda5ff28-ff17-4ff2-9191-13acd55b73f3 2011-11-30 17:07:35.484 UTC eb0a0648-1196-4215-b698-acb8729bf045 2011-11-30 15:47:24.13 UTC 97c8a203-1938-4e3f-90f3-87694c3a795a 2011-11-30 15:59:45.57 UTC be8cd221-9345-4c91-9fb4-b413978b0a6a 2011-11-30 16:05:00.470 UTC 4a4f70b1-39fd-439c-9d78-9a8a03bca8ef 2013-04-26 19:44:40.183 UTC a65689de-3539-4833-9e3e-c32aa9237d39 2011-11-30 15:52:17.202 UTC 2bb836b5-2738-4f3f-864d-5a77e76bdd1f 2011-11-30 17:09:13.282 UTC 14b1b68a-998f-45f6-832f-ac4f26dcac21 2012-04-05 09:40:59.398 UTC a2b6b247-c946-4883-8d6d-469ea6573f93 2011-11-30 15:51:07.192 UTC 4cc9395d-b178-451b-aef7-a34678d0d490 2011-11-30 15:51:55.76 UTC b19f4286-6433-4018-9f4b-1f1befc8469a 2012-05-03 07:48:58.308 UTC 3b87511d-904e-4ec7-950d-2c9a6ea35734 2013-01-30 16:13:23.473 UTC 6f3b0def-88bb-46b3-926c-34a82e94e0cf 2013-01-30 16:21:00.780 UTC e2682dca-1389-49ad-a886-491fa918d268 2011-11-30 15:54:01.684 UTC 9ea02975-9bbf-4aee-b585-ee92896d3d88 2012-05-03 15:25:26.968 UTC 8a70d234-45be-42bd-8bff-039af9b1c962 2011-11-30 16:26:18.954 UTC 7ccedf13-5087-4f13-b18e-8b1a4571827e 2013-01-30 16:18:54.540 UTC d08292d1-2a71-4fcd-9284-ccd17b9ee96c 2013-04-26 19:45:48.479 UTC 3aba8bc3-36ee-473d-a504-288a1f9998df 2011-11-30 16:07:49.591 UTC 25d638c9-672c-498e-913b-4bceb4230f8e 2011-11-30 17:10:59.924 UTC b9cf606e-166f-471c-b51e-d2f517526ad1 2011-11-30 17:00:56.590 UTC 4afab38a-1fec-43b4-8a32-83eaa59e8b8d 2011-11-30 15:53:41.975 UTC 3c9f8d96-0c37-4a18-8214-289acc1482fb 2011-11-30 16:02:25.713 UTC cc88bcaf-e8df-454d-982f-dc59ff7868f0 2013-04-26 18:33:21.418 UTC 10707355-ef1c-40d5-b452-6c9d0218e405 2012-04-05 09:28:04.523 UTC Workflow36JobID00StatusOutputStandardOutputREST_Service_2JobID0responseBody00net.sf.taverna.t2.activitiesrest-activity1.4net.sf.taverna.t2.activities.rest.RESTActivity GET http://alicegrid17.ba.infn.it:8080/INFN.Grid.FrontEnd/services/QueryJob/SelectJob?IdJob={JobID} application/xml application/xml String false false false false true JobID java.lang.String net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeXPath_Service_2xml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.4net.sf.taverna.t2.activities.xpath.XPathActivity <?xml version="1.0" encoding="UTF-8"?> <Jobs><Job><Arguments>http://webtest.ba.infn.it/vicario/FinalFusariumDB_2.nex 5700.fa 10589.fbsse se selknlk noiho niooih r </Arguments><Comment>interactive</Comment><CPUs>7</CPUs><Flag>2dbbd030-2803-43c0-a21d-369a21e17f2b</Flag><Id>349177</Id><LastCheck>2011-11-18 12:54:01.0</LastCheck><Name>MyBlasts</Name><Output/><Provenance/><Status>free</Status></Job></Jobs> /Jobs/Job/Status net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_Stringstringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.4net.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-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeXPath_Service_2_2xml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.4net.sf.taverna.t2.activities.xpath.XPathActivity <?xml version="1.0" encoding="UTF-8"?> <Jobs><Job><Arguments>http://webtest.ba.infn.it/vicario/FinalFusariumDB_2.nex 5700.fa 10589.fbsse se selknlk noiho niooih r </Arguments><Comment>interactive</Comment><CPUs>7</CPUs><Flag>2dbbd030-2803-43c0-a21d-369a21e17f2b</Flag><Id>349177</Id><LastCheck>2011-11-18 12:54:01.0</LastCheck><Name>MyBlasts</Name><Output/><Provenance/><Status>free</Status></Job></Jobs> /Jobs/Job/Output net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_2stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.4net.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-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeXPath_Service_2_2_2xml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.4net.sf.taverna.t2.activities.xpath.XPathActivity <?xml version="1.0" encoding="UTF-8"?> <Jobs><Job><Arguments>http://testjst.ba.infn.it/giacintoAraneaeNuc.fas 1,2,5 2e-10</Arguments><Comment>interactive</Comment><CPUs>1</CPUs><Flag>46d409fa-c716-4e69-8e2d-0286a2ddd11c</Flag><Id>454291</Id><LastCheck>2012-04-30 11:53:07.0</LastCheck><Name>ProfileFrameFinder</Name><Output/><Provenance/><StadardOutput> </StadardOutput><Status>2104118383</Status></Job></Jobs> /Jobs/Job/StadardOutput net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeREST_Service_2JobIDJobIDXPath_Service_2xml_textREST_Service_2responseBodyMerge_String_List_to_a_StringstringlistXPath_Service_2nodelistXPath_Service_2_2xml_textREST_Service_2responseBodyMerge_String_List_to_a_String_2stringlistXPath_Service_2_2nodelistXPath_Service_2_2_2xml_textREST_Service_2responseBodyStatusMerge_String_List_to_a_StringconcatenatedOutputMerge_String_List_to_a_String_2concatenatedStandardOutputXPath_Service_2_2_2nodelist d55f213c-926c-42e9-8661-b736e95873aa 2011-11-30 16:18:57.829 UTC b011ecbe-b67a-4fdb-b2cf-52a24af8b64c 2012-05-03 13:12:30.78 UTC 7463afe8-60dd-41ae-8777-bcbed7096d16 2012-05-03 07:47:09.188 UTC cbc11548-e4ff-4019-8b24-e791c3461b38 2012-12-19 14:19:03.712 UTC 5aef3e63-9bb3-4905-9214-52026f781425 2011-11-30 16:10:33.343 UTC a86eb045-aff2-46b1-ad28-5aaa0ca632c8 2011-11-30 17:07:17.999 UTC cdf36b60-31c3-441b-85ad-e8b0d3ede120 2011-11-30 16:25:32.213 UTC 6b0f9027-e279-4192-a48c-e7ebf0221d4b 2012-04-02 15:50:57.934 UTC b0bac118-23c2-4a39-8623-ca8608fef0a8 2012-04-30 16:07:36.554 UTC