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workflow
java.lang.String
true
Sequences
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text/plain
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result
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSeqs_FetchSequences_or_IDsSeqs_FetchDBT_coffeeSequencesT_coffeeemailMuscleSequencesMuscleemailClustalW2SequencesClustalW2Email_addressemmasprotein_sequenceemmaosformat_outseqemmasequence_direct_dataMAFFTsClustalW2_MLsClustalW2_MLrClustalW2_NJinClustalW2_NJrMuscle_MLsMuscle_MLrMuscle_NJinMuscle_NJremma_MLsemma_MLremma_NJinemma_NJrTcoffee_MLsTcoffee_MLrTcoffee_NJinTcoffee_NJrMAFFT_MLsMAFFT_MLrMAFFT_NJinMAFFT_NJrSeqs_DescriptionsSequencesseqsot1emmalnCW_NJ1CW_NJ2CW_ML2CW_ML1W2_ML2W2_ML1W2_NJ2W2_NJ1T_ML2T_ML1T_NJ1T_NJ2mmMu_NJ2Mu_NJ1Mu_ML2Mu_ML1MA_NJ1MA_NJ2MA_ML2MA_ML1W2-OW2-alnW2-njW2-tTC_alnTC_dndMAFFT_outdesc
85d979ab-092b-4dfc-a48e-558a87bb6b19
2010-08-31 10:06:58.819 CEST
AZ
2010-08-31 10:06:30.509 CEST
This workflow performs a generic protein sequence analysis. In order to do that a novel protein sequence enters into the software along with a list of known protein identifiers chosen by the biologist to perform a homology search, followed by a multiple sequence alignment and finally a phylogenetic analysis.
2009-08-27 11:14:39.57 CEST
This workflow performs a generic protein sequence analysis. A multiple sequence alignment and finally a phylogenetic analysis.
2009-08-27 11:32:00.348 CEST
2010-08-31 10:02:11.462 CEST
This workflow performs "parallel" generic protein sequence analysis. In order to do that a list of known protein identifiers chosen by the biologist enters into the software to perform different multiple sequence alignments and finally phylogenetic analysis.
2010-08-31 10:06:19.728 CEST
M_Fetch_e-T_phylo_boot
2009-08-27 11:14:39.57 CEST
2009-08-27 11:31:38.256 CEST
M_Super_aln_boot_phylo
2010-08-31 10:05:56.112 CEST
2009-08-27 11:14:39.57 CEST
Workflow10in00r00outreeoutogsgs2gs3gs4getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResultsinput0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sformat0sprotein0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fneighbor\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fneighborrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
run
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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fneighbor}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_3datafile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fneighbor}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="datafile_direct_data" qname="appInputs>datafile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="datafile_url" qname="appInputs>datafile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="matrixtype" qname="appInputs>matrixtype" /><s:basetype optional="true" unbounded="false" typename="string" name="treetype" qname="appInputs>treetype" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="jumble" qname="appInputs>jumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="replicates" qname="appInputs>replicates" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /></s:elements></s:complextype></s:extensions>
false
datafile_direct_data
0
'text/plain'
false
datafile_url
0
'text/plain'
false
matrixtype
0
'text/plain'
false
treetype
0
'text/plain'
false
outgrno
0
'text/plain'
false
jumble
0
'text/plain'
false
seed
0
'text/plain'
false
replicates
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
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.InvokegetResults_4jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getResults
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.InvokegetStatus_4jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fprotdist\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fprotdistrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
run
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.InvokeBeanshell_5inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_4input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fprotdist}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2_4sequence0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fprotdist}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="string" name="aacateg" qname="appInputs>aacateg" /><s:basetype optional="true" unbounded="false" typename="string" name="whichcode" qname="appInputs>whichcode" /><s:basetype optional="true" unbounded="false" typename="float" name="ease" qname="appInputs>ease" /><s:basetype optional="true" unbounded="false" typename="float" name="ttratio" qname="appInputs>ttratio" /><s:basetype optional="true" unbounded="false" typename="string" name="basefreq" qname="appInputs>basefreq" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
method
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
aacateg
0
'text/plain'
false
whichcode
0
'text/plain'
false
ease
0
'text/plain'
false
ttratio
0
'text/plain'
false
basefreq
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
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.Invoke2_sequence_2direct_data0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
msf
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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdgetStatusjobIdrun_fseqbootrunBeanshellinputsBeanshell_2inputsgetResults_appResultsinputrun_2sequencerun_2reps2_sequencedirect_data2_sequencesformat2_sequencesproteinrun_fconsenserungetResults_2jobIdgetStatus_2jobIdBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprintgetResults_3jobIdgetStatus_3jobIdrun_fneighborrunBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_3datafile_direct_datarun_2_3troutrun_2_3treeprintgetResults_4jobIdgetStatus_4jobIdrun_fprotdistrunBeanshell_5inputsBeanshell_2_4inputsgetResults_appResults_4inputrun_2_4sequence2_sequence_2direct_data2_sequence_2sformatoutreeoutogsgs2gs3gs4
2578df4a-7e1d-4bda-a143-561759da9e2c
2010-08-31 10:06:59.26 CEST
Workflow1s00r0012ddsaoutoutreegsgs3getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getResults
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.Invokerun_fpromlrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
run
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.Invokerun2sequence0treeprint0trout0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fproml}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="boolean" name="lengths" qname="appInputs>lengths" /><s:basetype optional="true" unbounded="false" typename="string" name="model" qname="appInputs>model" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ngammacat" qname="appInputs>ngammacat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ninvarcat" qname="appInputs>ninvarcat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarfrac" qname="appInputs>invarfrac" /><s:basetype optional="true" unbounded="false" typename="long" name="nhmmcategories" qname="appInputs>nhmmcategories" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmrates" qname="appInputs>hmmrates" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmprobabilities" qname="appInputs>hmmprobabilities" /><s:basetype optional="true" unbounded="false" typename="boolean" name="adjsite" qname="appInputs>adjsite" /><s:basetype optional="true" unbounded="false" typename="float" name="lambda" qname="appInputs>lambda" /><s:basetype optional="true" unbounded="false" typename="long" name="njumble" qname="appInputs>njumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="global" qname="appInputs>global" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="rough" qname="appInputs>rough" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="hypstate" qname="appInputs>hypstate" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
lengths
0
'text/plain'
false
model
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
ngammacat
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
ninvarcat
0
'text/plain'
false
invarfrac
0
'text/plain'
false
nhmmcategories
0
'text/plain'
false
hmmrates
0
'text/plain'
false
hmmprobabilities
0
'text/plain'
false
adjsite
0
'text/plain'
false
lambda
0
'text/plain'
false
njumble
0
'text/plain'
false
seed
0
'text/plain'
false
global
0
'text/plain'
false
outgrno
0
'text/plain'
false
rough
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
hypstate
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.Invokerun2_sequencesformat0sprotein0direct_data0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.InvokegetResults_appResultsinput0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fproml}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fproml\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0seqtype0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sprotein0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.Invokesprotein_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
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.Invokeseqtype_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
p
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdrun_fpromlrunrun2sequencerun2treeprintrun2troutrun2_sequencesformatrun2_sequencesproteinrun2_sequencedirect_datagetResults_appResultsinputgetStatus_2jobIdBeanshellinputsBeanshell_2inputsgetResults_2jobIdgetStatusjobIdrun_fseqbootrunBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2sequencerun_2seqtyperun_2reps2_sequencedirect_data2_sequencesprotein2_sequencesformatrun_fconsenserungetResults_3jobIdgetStatus_3jobIdBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprint12ddsaoutoutreegsgs3
bf7aabaa-53f5-447e-a570-db45a8c61159
2010-08-31 10:06:59.394 CEST
EBI_dbfetch_fetchBatchID_list11
List of entry identifers from a specific database.
2009-08-27 11:12:31.107 CEST
text/plain
2009-08-27 11:12:31.107 CEST
DB00
text/plain
2009-08-27 11:12:31.107 CEST
2009-08-27 11:12:31.107 CEST
SequencesFormat_list_for_dbfetchseperator0stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
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.InvokefetchBatchdb0ids0format0style0fetchBatchReturn00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSDbfetch.wsdl
fetchBatch
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.InvokeFormat_list_for_dbfetch_seperator_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
,
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.InvokefetchBatch_format_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
fasta
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.InvokefetchBatch_style_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
raw
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.InvokeFormat_list_for_dbfetchseperatorFormat_list_for_dbfetchstringlistfetchBatchdbfetchBatchidsfetchBatchformatfetchBatchstyleSequences
From a list of sequence entry identifiers and a database name, fetch the sequences in fasta format using EBI's WSDbfetch service (see http://www.ebi.ac.uk/Tools/webservices/wsdl/WSDbfetch.wsdl).
2009-08-27 11:12:31.131 CEST
2009-08-27 11:12:31.131 CEST
473b723c-52a0-423b-974c-7f4fe82e8b38
2010-08-31 10:06:59.693 CEST
EBI_dbfetch_fetchBatch
2009-08-27 11:12:31.131 CEST
EBI_ClustalW2Sequences00
Sequences to align (fasta format recommended).
2009-08-27 11:12:31.223 CEST
text/plain
2009-08-27 11:12:31.223 CEST
Email_address00
text/plain
2009-08-27 11:12:31.223 CEST
User e-mail address.
2009-08-27 11:12:31.223 CEST
ClustalW_alignmentClustalW_guide_treeJob_IDClustalW_outputstatusUnpack_alignment_resultbytes0string00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
workflow
[B
true
bytes
0
'application/octet-stream'
0
string
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.InvokerunClustalW2content0params0attachmentList11jobid00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
runClustalW2
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.InvokeUnpack_output_resultbytes0string00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
workflow
[B
true
bytes
0
'application/octet-stream'
0
string
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.InvokeGet_alignment_resulttype0jobid0result00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
poll
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.InvokeUnpack_guide_tree_resultbytes0string00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
workflow
[B
true
bytes
0
'application/octet-stream'
0
string
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.InvokeInput_datatype0content0output00net.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="data" name="" qname="{http://www.ebi.ac.uk/WSClustalW2}data"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="type" qname="data>type" /><s:basetype optional="false" unbounded="false" typename="string" name="content" qname="data>content" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
type
0
'text/plain'
java.lang.String
true
content
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.InvokeContent_listWSArrayofData1output00net.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:arraytype optional="false" unbounded="false" wrapped="false" typename="WSArrayofData" name="content" qname="{http://www.ebi.ac.uk/WSClustalW2}WSArrayofData"><s:elementtype><s:complextype optional="false" unbounded="false" typename="data" name="" qname="{http://www.ebi.ac.uk/WSClustalW2}data"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="type" qname="data>type" /><s:basetype optional="false" unbounded="false" typename="string" name="content" qname="data>content" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:extensions>
java.lang.String
true
WSArrayofData
1
l('text/xml')
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.InvokeGet_guide_tree_resulttype0jobid0result00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
poll
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_output_resulttype0jobid0result00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
poll
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.InvokeJob_paramsemail0async0output00net.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="inputParams" name="params" qname="{http://www.ebi.ac.uk/WSClustalW2}inputParams"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="alignment" qname="inputParams>alignment" /><s:basetype optional="false" unbounded="false" typename="string" name="output" qname="inputParams>output" /><s:basetype optional="false" unbounded="false" typename="boolean" name="tossgaps" qname="inputParams>tossgaps" /><s:basetype optional="false" unbounded="false" typename="int" name="ktup" qname="inputParams>ktup" /><s:basetype optional="false" unbounded="false" typename="int" name="window" qname="inputParams>window" /><s:basetype optional="false" unbounded="false" typename="int" name="gapopen" qname="inputParams>gapopen" /><s:basetype optional="false" unbounded="false" typename="boolean" name="endgaps" qname="inputParams>endgaps" /><s:basetype optional="false" unbounded="false" typename="float" name="gapext" qname="inputParams>gapext" /><s:basetype optional="false" unbounded="false" typename="int" name="gapdist" qname="inputParams>gapdist" /><s:basetype optional="false" unbounded="false" typename="int" name="topdiags" qname="inputParams>topdiags" /><s:basetype optional="false" unbounded="false" typename="int" name="pairgap" qname="inputParams>pairgap" /><s:basetype optional="false" unbounded="false" typename="string" name="outputtree" qname="inputParams>outputtree" /><s:basetype optional="false" unbounded="false" typename="string" name="matrix" qname="inputParams>matrix" /><s:basetype optional="false" unbounded="false" typename="string" name="cpu" qname="inputParams>cpu" /><s:basetype optional="false" unbounded="false" typename="boolean" name="kimura" qname="inputParams>kimura" /><s:basetype optional="false" unbounded="false" typename="boolean" name="tree" qname="inputParams>tree" /><s:basetype optional="false" unbounded="false" typename="boolean" name="align" qname="inputParams>align" /><s:basetype optional="false" unbounded="false" typename="boolean" name="quicktree" qname="inputParams>quicktree" /><s:basetype optional="false" unbounded="false" typename="string" name="score" qname="inputParams>score" /><s:basetype optional="false" unbounded="false" typename="string" name="iteration" qname="inputParams>iteration" /><s:basetype optional="false" unbounded="false" typename="string" name="clustering" qname="inputParams>clustering" /><s:basetype optional="false" unbounded="false" typename="int" name="numiter" qname="inputParams>numiter" /><s:basetype optional="false" unbounded="false" typename="string" name="outorder" qname="inputParams>outorder" /><s:basetype optional="false" unbounded="false" typename="string" name="email" qname="inputParams>email" /><s:basetype optional="false" unbounded="false" typename="boolean" name="async" qname="inputParams>async" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
alignment
0
'text/plain'
java.lang.String
true
output
0
'text/plain'
java.lang.String
true
tossgaps
0
'text/plain'
java.lang.String
true
ktup
0
'text/plain'
java.lang.String
true
window
0
'text/plain'
java.lang.String
true
gapopen
0
'text/plain'
java.lang.String
true
endgaps
0
'text/plain'
java.lang.String
true
gapext
0
'text/plain'
java.lang.String
true
gapdist
0
'text/plain'
java.lang.String
true
topdiags
0
'text/plain'
java.lang.String
true
pairgap
0
'text/plain'
java.lang.String
true
outputtree
0
'text/plain'
java.lang.String
true
matrix
0
'text/plain'
java.lang.String
true
cpu
0
'text/plain'
java.lang.String
true
kimura
0
'text/plain'
java.lang.String
true
tree
0
'text/plain'
java.lang.String
true
align
0
'text/plain'
java.lang.String
true
quicktree
0
'text/plain'
java.lang.String
true
score
0
'text/plain'
java.lang.String
true
iteration
0
'text/plain'
java.lang.String
true
clustering
0
'text/plain'
java.lang.String
true
numiter
0
'text/plain'
java.lang.String
true
outorder
0
'text/plain'
java.lang.String
true
email
0
'text/plain'
java.lang.String
true
async
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.InvokeGet_alignment_result_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
toolaln
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_data_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
sequence
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_guide_tree_result_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
tooldnd
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_output_result_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
tooloutput
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.InvokeJob_params_async_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokecheckStatusjobid0status00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
checkStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>0.8</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("RUNNING");</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.InvokeUnpack_alignment_resultbytesrunClustalW2contentrunClustalW2paramsUnpack_output_resultbytesGet_alignment_resulttypeGet_alignment_resultjobidUnpack_guide_tree_resultbytesInput_datatypeInput_datacontentContent_listWSArrayofDataGet_guide_tree_resulttypeGet_guide_tree_resultjobidGet_output_resulttypeGet_output_resultjobidJob_paramsemailJob_paramsasynccheckStatusjobidClustalW_alignmentClustalW_guide_treeJob_IDClustalW_outputstatus
Perform a ClustalW multiple sequence alignment using the EBI’s WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2). The set of sequences to align are the input, the other parameters for the search (see Job_params) are allowed to default.
2009-08-27 11:12:31.245 CEST
a73a8a48-d332-44f1-8e21-6d5daf220d52
2010-08-31 10:06:59.751 CEST
EBI_ClustalW2
2009-08-27 11:12:31.245 CEST
2009-08-27 11:12:31.245 CEST
Workflow6s00sarunparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/services/soap/mafft?wsdl
run
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.InvokegetStatusparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/services/soap/mafft?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + parameters.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soap.jdispatcher.ebi.ac.uk\"><status>RUNNING</status></ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>parameters</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.InvokegetResultparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/services/soap/mafft?wsdl
getResult
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.Invokerun_inputparameters0email0output00net.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="run" name="parameters" qname="{http://soap.jdispatcher.ebi.ac.uk}run"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="email" qname=">run>email" /><s:basetype optional="true" unbounded="false" typename="string" name="title" qname=">run>title" /><s:complextype optional="false" unbounded="false" typename="InputParameters" name="parameters" qname=">run>parameters"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="format" qname="InputParameters>format" /><s:basetype optional="true" unbounded="false" typename="string" name="matrix" qname="InputParameters>matrix" /><s:basetype optional="true" unbounded="false" typename="float" name="gapopen" qname="InputParameters>gapopen" /><s:basetype optional="true" unbounded="false" typename="float" name="gapext" qname="InputParameters>gapext" /><s:basetype optional="true" unbounded="false" typename="string" name="order" qname="InputParameters>order" /><s:basetype optional="true" unbounded="false" typename="int" name="nbtree" qname="InputParameters>nbtree" /><s:basetype optional="true" unbounded="false" typename="int" name="maxiterate" qname="InputParameters>maxiterate" /><s:basetype optional="true" unbounded="false" typename="string" name="ffts" qname="InputParameters>ffts" /><s:basetype optional="true" unbounded="false" typename="string" name="sequence" qname="InputParameters>sequence" /></s:elements></s:complextype></s:elements></s:complextype></s:extensions>
false
email
0
'text/plain'
false
title
0
'text/plain'
false
parameters
0
'text/xml'
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.Invokerun_input_2sequence0format0maxiterate0nbtree0output00net.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="InputParameters" name="parameters" qname=">run>parameters"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="format" qname="InputParameters>format" /><s:basetype optional="true" unbounded="false" typename="string" name="matrix" qname="InputParameters>matrix" /><s:basetype optional="true" unbounded="false" typename="float" name="gapopen" qname="InputParameters>gapopen" /><s:basetype optional="true" unbounded="false" typename="float" name="gapext" qname="InputParameters>gapext" /><s:basetype optional="true" unbounded="false" typename="string" name="order" qname="InputParameters>order" /><s:basetype optional="true" unbounded="false" typename="int" name="nbtree" qname="InputParameters>nbtree" /><s:basetype optional="true" unbounded="false" typename="int" name="maxiterate" qname="InputParameters>maxiterate" /><s:basetype optional="true" unbounded="false" typename="string" name="ffts" qname="InputParameters>ffts" /><s:basetype optional="true" unbounded="false" typename="string" name="sequence" qname="InputParameters>sequence" /></s:elements></s:complextype></s:extensions>
false
format
0
'text/plain'
false
matrix
0
'text/plain'
false
gapopen
0
'text/plain'
false
gapext
0
'text/plain'
false
order
0
'text/plain'
false
nbtree
0
'text/plain'
false
maxiterate
0
'text/plain'
false
ffts
0
'text/plain'
false
sequence
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.Invokeemail_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
achille.zappa@istge.it
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.InvokegetResult_outputinput0output00net.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="getResultResponse" name="parameters" qname="{http://soap.jdispatcher.ebi.ac.uk}getResultResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="base64Binary" name="output" qname=">getResultResponse>output" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
output
0
'application/octet-stream'
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.InvokegetStatus_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="getStatus" name="parameters" qname="{http://soap.jdispatcher.ebi.ac.uk}getStatus"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="jobId" qname=">getStatus>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.InvokegetResult_inputjobId0type0output00net.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="getResult" name="parameters" qname="{http://soap.jdispatcher.ebi.ac.uk}getResult"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="jobId" qname=">getResult>jobId" /><s:basetype optional="false" unbounded="false" typename="string" name="type" qname=">getResult>type" /><s:arraytype optional="true" unbounded="false" wrapped="false" typename="wsRawOutputParameters" name="parameters" qname=">getResult>parameters"><s:elementtype><s:complextype optional="false" unbounded="false" typename="wsRawOutputParameter" name="" qname="{http://soap.jdispatcher.ebi.ac.uk}wsRawOutputParameter"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="name" qname="wsRawOutputParameter>name" /><s:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfString" name="value" qname="wsRawOutputParameter>value"><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:elementtype></s:arraytype></s:elements></s:complextype></s:extensions>
false
jobId
0
'text/plain'
false
type
0
'text/plain'
false
parameters
1
'text/xml'
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.Invokerun_outputinput0jobId00net.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="runResponse" name="parameters" qname="{http://soap.jdispatcher.ebi.ac.uk}runResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="jobId" qname=">runResponse>jobId" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
jobId
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.Invoketype_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
out
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.Invokeformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustalw
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.Invokemaxiterate_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
100
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.Invokenbtree_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
100
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.InvokerunparametersgetStatusparametersgetResultparametersrun_inputparametersrun_inputemailrun_input_2sequencerun_input_2formatrun_input_2maxiteraterun_input_2nbtreegetResult_outputinputgetStatus_inputjobIdgetResult_inputjobIdgetResult_inputtyperun_outputinputsa
5cd78155-0b38-427e-a76c-a49b6f9620c1
2010-08-31 10:07:02.835 CEST
Workflow1s00r0012ddsaoutoutreegsgs3getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getResults
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.Invokerun_fpromlrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
run
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.Invokerun2sequence0treeprint0trout0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fproml}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="boolean" name="lengths" qname="appInputs>lengths" /><s:basetype optional="true" unbounded="false" typename="string" name="model" qname="appInputs>model" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ngammacat" qname="appInputs>ngammacat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ninvarcat" qname="appInputs>ninvarcat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarfrac" qname="appInputs>invarfrac" /><s:basetype optional="true" unbounded="false" typename="long" name="nhmmcategories" qname="appInputs>nhmmcategories" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmrates" qname="appInputs>hmmrates" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmprobabilities" qname="appInputs>hmmprobabilities" /><s:basetype optional="true" unbounded="false" typename="boolean" name="adjsite" qname="appInputs>adjsite" /><s:basetype optional="true" unbounded="false" typename="float" name="lambda" qname="appInputs>lambda" /><s:basetype optional="true" unbounded="false" typename="long" name="njumble" qname="appInputs>njumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="global" qname="appInputs>global" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="rough" qname="appInputs>rough" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="hypstate" qname="appInputs>hypstate" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
lengths
0
'text/plain'
false
model
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
ngammacat
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
ninvarcat
0
'text/plain'
false
invarfrac
0
'text/plain'
false
nhmmcategories
0
'text/plain'
false
hmmrates
0
'text/plain'
false
hmmprobabilities
0
'text/plain'
false
adjsite
0
'text/plain'
false
lambda
0
'text/plain'
false
njumble
0
'text/plain'
false
seed
0
'text/plain'
false
global
0
'text/plain'
false
outgrno
0
'text/plain'
false
rough
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
hypstate
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.Invokerun2_sequencesformat0sprotein0direct_data0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.InvokegetResults_appResultsinput0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fproml}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fproml\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0seqtype0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sprotein0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.Invokesprotein_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
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.Invokeseqtype_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
p
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdrun_fpromlrunrun2sequencerun2treeprintrun2troutrun2_sequencesformatrun2_sequencesproteinrun2_sequencedirect_datagetResults_appResultsinputgetStatus_2jobIdBeanshellinputsBeanshell_2inputsgetResults_2jobIdgetStatusjobIdrun_fseqbootrunBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2sequencerun_2seqtyperun_2reps2_sequencedirect_data2_sequencesprotein2_sequencesformatrun_fconsenserungetResults_3jobIdgetStatus_3jobIdBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprint12ddsaoutoutreegsgs3
e1bf796e-bd03-4652-9731-0b570a67925a
2010-08-31 10:07:02.960 CEST
Workflow10in00r00outreeoutogsgs2gs3gs4getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResultsinput0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sformat0sprotein0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fneighbor\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fneighborrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
run
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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fneighbor}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_3datafile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fneighbor}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="datafile_direct_data" qname="appInputs>datafile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="datafile_url" qname="appInputs>datafile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="matrixtype" qname="appInputs>matrixtype" /><s:basetype optional="true" unbounded="false" typename="string" name="treetype" qname="appInputs>treetype" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="jumble" qname="appInputs>jumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="replicates" qname="appInputs>replicates" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /></s:elements></s:complextype></s:extensions>
false
datafile_direct_data
0
'text/plain'
false
datafile_url
0
'text/plain'
false
matrixtype
0
'text/plain'
false
treetype
0
'text/plain'
false
outgrno
0
'text/plain'
false
jumble
0
'text/plain'
false
seed
0
'text/plain'
false
replicates
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
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.InvokegetResults_4jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getResults
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.InvokegetStatus_4jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fprotdist\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fprotdistrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
run
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.InvokeBeanshell_5inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_4input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fprotdist}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2_4sequence0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fprotdist}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="string" name="aacateg" qname="appInputs>aacateg" /><s:basetype optional="true" unbounded="false" typename="string" name="whichcode" qname="appInputs>whichcode" /><s:basetype optional="true" unbounded="false" typename="float" name="ease" qname="appInputs>ease" /><s:basetype optional="true" unbounded="false" typename="float" name="ttratio" qname="appInputs>ttratio" /><s:basetype optional="true" unbounded="false" typename="string" name="basefreq" qname="appInputs>basefreq" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
method
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
aacateg
0
'text/plain'
false
whichcode
0
'text/plain'
false
ease
0
'text/plain'
false
ttratio
0
'text/plain'
false
basefreq
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
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.Invoke2_sequence_2direct_data0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdgetStatusjobIdrun_fseqbootrunBeanshellinputsBeanshell_2inputsgetResults_appResultsinputrun_2sequencerun_2reps2_sequencedirect_data2_sequencesformat2_sequencesproteinrun_fconsenserungetResults_2jobIdgetStatus_2jobIdBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprintgetResults_3jobIdgetStatus_3jobIdrun_fneighborrunBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_3datafile_direct_datarun_2_3troutrun_2_3treeprintgetResults_4jobIdgetStatus_4jobIdrun_fprotdistrunBeanshell_5inputsBeanshell_2_4inputsgetResults_appResults_4inputrun_2_4sequence2_sequence_2direct_data2_sequence_2sformatoutreeoutogsgs2gs3gs4
c102f007-f888-4f57-a0ea-d7c8cc5b7a11
2010-08-31 10:07:03.250 CEST
Sequences_or_IDsSequences_or_IDs00
Either an actual sequence or an entry identifer in database:identifier format (e.g. uniprot:wap_rat).
2009-08-27 11:12:31.99 CEST
text/plain
2009-08-27 11:12:31.98 CEST
DB00
2009-08-27 11:12:31.99 CEST
text/plain
2009-08-27 11:12:31.99 CEST
sequencesNested_Workflow1DB0ID_list1Sequences00net.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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeNested_Workflow1DBNested_Workflow1ID_listsequences
73cb9faa-d847-41fc-846c-0d37cb06ca4f
2010-08-31 10:07:03.585 CEST
Given a sequence or sequence entry identifer (e.g. uniprot:wap_rat), return the sequence in fasta format.
If a sequence identifier, in database:identifier format, is input the EBI's WSDbfetch web service (see http://www.ebi.ac.uk/Tools/webservices/services/dbfetch) is used to retrive the sequence in fasta format. Otherwise the input is assumed to be a sequence and if passed through the Soaplab EMBOSS seqret service to force the sequence into fasta format.
2009-08-27 11:12:31.139 CEST
Sequences_or_IDs
2009-08-27 11:12:31.139 CEST
2009-08-27 11:12:31.139 CEST
EBI_ClustalW_alignment_treeSequences00
Input set of sequences to be aligned.
2009-08-27 11:12:31.215 CEST
text/plain
2009-08-27 11:12:31.215 CEST
Email_address00
User e-mail address.
2009-08-27 11:12:31.215 CEST
text/plain
2009-08-27 11:12:31.215 CEST
ClustalW2_alignmentClustalW2_phylip_treeClustalW2_outputClustalW2_nj_trees1s2ClustalW2_alignmentEmail_address0Sequences0ClustalW_alignment00ClustalW_output00Job_ID00ClustalW_guide_tree00status00net.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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeClustalW2_phylogenetic_treeSequence_alignment0Email_address0ClustalW_phylip_tree00ClustalW_output00ClustalW_nj_tree00Job_ID00status00net.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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeClustalW2_alignmentEmail_addressClustalW2_alignmentSequencesClustalW2_phylogenetic_treeSequence_alignmentClustalW2_phylogenetic_treeEmail_addressClustalW2_alignmentClustalW2_phylip_treeClustalW2_outputClustalW2_nj_trees1s2
Given a set of sequences perform an multiple sequence alignment and from the multiple alignment derive a phylogenetic tree. The popular ClustalW program (see http://www.clustal.org/), as implemented in the EBI's WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2) is used to perform both tasks.
2009-08-27 11:12:31.278 CEST
1f7a1741-9f06-402c-8949-665826ae5e0b
2010-08-31 10:07:03.607 CEST
2009-08-27 11:12:31.278 CEST
EBI_ClustalW_alignment_tree
2009-08-27 11:12:31.278 CEST
EBI_ClustalW2_phylogentic_treeSequence_alignment00
A sequence alignment in an appropriate format (e.g. fasta, clustalw or MSF).
2009-08-27 11:12:31.254 CEST
text/plain
2009-08-27 11:12:31.254 CEST
Email_address00
User's e-mail address.
2009-08-27 11:12:31.254 CEST
text/plain
2009-08-27 11:12:31.254 CEST
Job_IDClustalW_outputClustalW_phylip_treeClustalW_nj_treestatusGet_outputjobid0type0attachmentList11result00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
poll
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokerunClustalW2params0content0attachmentList11jobid00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
runClustalW2
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
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java.lang.String
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type
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java.lang.String
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content
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output
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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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeContents_listWSArrayofData1output00net.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:arraytype optional="false" unbounded="false" wrapped="false" typename="WSArrayofData" name="content" qname="{http://www.ebi.ac.uk/WSClustalW2}WSArrayofData"><s:elementtype><s:complextype optional="false" unbounded="false" typename="data" name="" qname="{http://www.ebi.ac.uk/WSClustalW2}data"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="type" qname="data>type" /><s:basetype optional="false" unbounded="false" typename="string" name="content" qname="data>content" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:extensions>
java.lang.String
true
WSArrayofData
1
l('text/xml')
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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeJob_paramsoutputtree0kimura0async0email0tree0clustering0output00net.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="inputParams" name="params" qname="{http://www.ebi.ac.uk/WSClustalW2}inputParams"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="alignment" qname="inputParams>alignment" /><s:basetype optional="false" unbounded="false" typename="string" name="output" qname="inputParams>output" /><s:basetype optional="false" unbounded="false" typename="boolean" name="tossgaps" qname="inputParams>tossgaps" /><s:basetype optional="false" unbounded="false" typename="int" name="ktup" qname="inputParams>ktup" /><s:basetype optional="false" unbounded="false" typename="int" name="window" qname="inputParams>window" /><s:basetype optional="false" unbounded="false" typename="int" name="gapopen" qname="inputParams>gapopen" /><s:basetype optional="false" unbounded="false" typename="boolean" name="endgaps" qname="inputParams>endgaps" /><s:basetype optional="false" unbounded="false" typename="float" name="gapext" qname="inputParams>gapext" /><s:basetype optional="false" unbounded="false" typename="int" name="gapdist" qname="inputParams>gapdist" /><s:basetype optional="false" unbounded="false" typename="int" name="topdiags" qname="inputParams>topdiags" /><s:basetype optional="false" unbounded="false" typename="int" name="pairgap" qname="inputParams>pairgap" /><s:basetype optional="false" unbounded="false" typename="string" name="outputtree" qname="inputParams>outputtree" /><s:basetype optional="false" unbounded="false" typename="string" name="matrix" qname="inputParams>matrix" /><s:basetype optional="false" unbounded="false" typename="string" name="cpu" qname="inputParams>cpu" /><s:basetype optional="false" unbounded="false" typename="boolean" name="kimura" qname="inputParams>kimura" /><s:basetype optional="false" unbounded="false" typename="boolean" name="tree" qname="inputParams>tree" /><s:basetype optional="false" unbounded="false" typename="boolean" name="align" qname="inputParams>align" /><s:basetype optional="false" unbounded="false" typename="boolean" name="quicktree" qname="inputParams>quicktree" /><s:basetype optional="false" unbounded="false" typename="string" name="score" qname="inputParams>score" /><s:basetype optional="false" unbounded="false" typename="string" name="iteration" qname="inputParams>iteration" /><s:basetype optional="false" unbounded="false" typename="string" name="clustering" qname="inputParams>clustering" /><s:basetype optional="false" unbounded="false" typename="int" name="numiter" qname="inputParams>numiter" /><s:basetype optional="false" unbounded="false" typename="string" name="outorder" qname="inputParams>outorder" /><s:basetype optional="false" unbounded="false" typename="string" name="email" qname="inputParams>email" /><s:basetype optional="false" unbounded="false" typename="boolean" name="async" qname="inputParams>async" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
alignment
0
'text/plain'
java.lang.String
true
output
0
'text/plain'
java.lang.String
true
tossgaps
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'text/plain'
java.lang.String
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ktup
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java.lang.String
true
window
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java.lang.String
true
gapopen
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java.lang.String
true
endgaps
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java.lang.String
true
gapext
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java.lang.String
true
gapdist
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java.lang.String
true
topdiags
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pairgap
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outputtree
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matrix
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cpu
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kimura
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tree
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align
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quicktree
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score
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email
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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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_phylip_tree_resulttype0jobid0result00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
poll
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
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http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
poll
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
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tooloutput
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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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInput_data_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
sequence
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
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nj
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1
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeJob_params_kimura_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
1
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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
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1
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1
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nj
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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
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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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_phylip_tree_result_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
toolph
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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_nj_tree_result_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
toolnj
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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokecheckStatusjobid0status00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSClustalW2.wsdl
checkStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>0.8</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("RUNNING");</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.InvokeGet_outputjobidGet_outputtypeUnpack_nj_treebytesUnpack_phylip_treebytesrunClustalW2paramsrunClustalW2contentUnpack_outputbytesInput_datacontentInput_datatypeContents_listWSArrayofDataJob_paramsoutputtreeJob_paramskimuraJob_paramsasyncJob_paramsemailJob_paramstreeJob_paramsclusteringGet_phylip_tree_resulttypeGet_phylip_tree_resultjobidGet_nj_tree_resultjobidGet_nj_tree_resulttypecheckStatusjobidJob_IDClustalW_outputClustalW_phylip_treeClustalW_nj_treestatus
EBI_ClustalW2_phylogentic_tree
2009-08-27 11:12:31.277 CEST
Create a Neighbor-joining phylogenetic tree, with Kimura distance corrections, from a sequence alignment using the EBI's WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2).
2009-08-27 11:12:31.277 CEST
2ccd3305-63f8-4e09-8ad6-ced6a366e661
2010-08-31 10:07:03.636 CEST
2009-08-27 11:12:31.277 CEST
Workflow10in00r00outreeoutogsgs2gs3gs4getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResultsinput0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sformat0sprotein0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fneighbor\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fneighborrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
run
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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fneighbor}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_3datafile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fneighbor}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="datafile_direct_data" qname="appInputs>datafile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="datafile_url" qname="appInputs>datafile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="matrixtype" qname="appInputs>matrixtype" /><s:basetype optional="true" unbounded="false" typename="string" name="treetype" qname="appInputs>treetype" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="jumble" qname="appInputs>jumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="replicates" qname="appInputs>replicates" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /></s:elements></s:complextype></s:extensions>
false
datafile_direct_data
0
'text/plain'
false
datafile_url
0
'text/plain'
false
matrixtype
0
'text/plain'
false
treetype
0
'text/plain'
false
outgrno
0
'text/plain'
false
jumble
0
'text/plain'
false
seed
0
'text/plain'
false
replicates
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
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.InvokegetResults_4jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getResults
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.InvokegetStatus_4jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fprotdist\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fprotdistrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
run
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.InvokeBeanshell_5inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_4input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fprotdist}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2_4sequence0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fprotdist}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="string" name="aacateg" qname="appInputs>aacateg" /><s:basetype optional="true" unbounded="false" typename="string" name="whichcode" qname="appInputs>whichcode" /><s:basetype optional="true" unbounded="false" typename="float" name="ease" qname="appInputs>ease" /><s:basetype optional="true" unbounded="false" typename="float" name="ttratio" qname="appInputs>ttratio" /><s:basetype optional="true" unbounded="false" typename="string" name="basefreq" qname="appInputs>basefreq" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
method
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
aacateg
0
'text/plain'
false
whichcode
0
'text/plain'
false
ease
0
'text/plain'
false
ttratio
0
'text/plain'
false
basefreq
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
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.Invoke2_sequence_2direct_data0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdgetStatusjobIdrun_fseqbootrunBeanshellinputsBeanshell_2inputsgetResults_appResultsinputrun_2sequencerun_2reps2_sequencedirect_data2_sequencesformat2_sequencesproteinrun_fconsenserungetResults_2jobIdgetStatus_2jobIdBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprintgetResults_3jobIdgetStatus_3jobIdrun_fneighborrunBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_3datafile_direct_datarun_2_3troutrun_2_3treeprintgetResults_4jobIdgetStatus_4jobIdrun_fprotdistrunBeanshell_5inputsBeanshell_2_4inputsgetResults_appResults_4inputrun_2_4sequence2_sequence_2direct_data2_sequence_2sformatoutreeoutogsgs2gs3gs4
681bbeee-0a38-403e-992c-ce28ea3a477d
2010-08-31 10:07:03.824 CEST
Workflow10in00r00outreeoutogsgs2gs3gs4getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResultsinput0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sformat0sprotein0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fneighbor\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fneighborrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
run
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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fneighbor}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_3datafile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fneighbor}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="datafile_direct_data" qname="appInputs>datafile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="datafile_url" qname="appInputs>datafile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="matrixtype" qname="appInputs>matrixtype" /><s:basetype optional="true" unbounded="false" typename="string" name="treetype" qname="appInputs>treetype" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="jumble" qname="appInputs>jumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="replicates" qname="appInputs>replicates" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /></s:elements></s:complextype></s:extensions>
false
datafile_direct_data
0
'text/plain'
false
datafile_url
0
'text/plain'
false
matrixtype
0
'text/plain'
false
treetype
0
'text/plain'
false
outgrno
0
'text/plain'
false
jumble
0
'text/plain'
false
seed
0
'text/plain'
false
replicates
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
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.InvokegetResults_4jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getResults
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.InvokegetStatus_4jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fprotdist\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fprotdistrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
run
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.InvokeBeanshell_5inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_4input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fprotdist}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2_4sequence0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fprotdist}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="string" name="aacateg" qname="appInputs>aacateg" /><s:basetype optional="true" unbounded="false" typename="string" name="whichcode" qname="appInputs>whichcode" /><s:basetype optional="true" unbounded="false" typename="float" name="ease" qname="appInputs>ease" /><s:basetype optional="true" unbounded="false" typename="float" name="ttratio" qname="appInputs>ttratio" /><s:basetype optional="true" unbounded="false" typename="string" name="basefreq" qname="appInputs>basefreq" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
method
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
aacateg
0
'text/plain'
false
whichcode
0
'text/plain'
false
ease
0
'text/plain'
false
ttratio
0
'text/plain'
false
basefreq
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
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.Invoke2_sequence_2direct_data0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
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d96e8ab3-c13b-4f56-badd-2eb1553566eb
2010-08-31 10:07:04.155 CEST
EBI_TCoffeeSequences00
2009-08-27 11:12:31.157 CEST
text/plain
2009-08-27 11:12:31.157 CEST
email00
2009-08-27 11:12:31.157 CEST
text/plain
2009-08-27 11:12:31.157 CEST
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runTCoffee
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poll
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poll
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WSArrayofData
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email
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java.lang.String
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async
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alignment
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topdiags
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pairgap
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ktup
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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.InvokecheckStatusjobid0status00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSTCoffee.wsdl
checkStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>0.8</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("RUNNING");</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.InvokeUnpack_dndbytesUnpack_alignmentbytesrunTCoffeeparamsrunTCoffeecontentUnpack_alnbytesGet_dndjobidGet_dndtypeGet_alignmentjobidGet_alignmenttypeContents_listWSArrayofDataGet_alnjobidGet_alntypeInput_datacontentInput_datatypeJob_paramsasyncJob_paramsemailcheckStatusjobidTCoffee_job_IDTCoffee_alignmentTCoffee_alnTCoffee_dndstatus
3417d9f4-13b1-42fc-88eb-8529ddac2c7a
2010-08-31 10:07:04.485 CEST
EBI_TCoffee
2009-08-27 11:12:31.183 CEST
2009-08-27 11:12:31.183 CEST
Perform a multiple sequence alignment using T-Coffee (see http://www.tcoffee.org/). The EBI's WSToffee web service (see http://www.ebi.ac.uk/Tools/webservices/services/tcoffee) ise used.
2009-08-27 11:12:31.183 CEST
Workflow1s00r0012ddsaoutoutreegsgs3getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getResults
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.Invokerun_fpromlrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
run
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.Invokerun2sequence0treeprint0trout0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fproml}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="boolean" name="lengths" qname="appInputs>lengths" /><s:basetype optional="true" unbounded="false" typename="string" name="model" qname="appInputs>model" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ngammacat" qname="appInputs>ngammacat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ninvarcat" qname="appInputs>ninvarcat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarfrac" qname="appInputs>invarfrac" /><s:basetype optional="true" unbounded="false" typename="long" name="nhmmcategories" qname="appInputs>nhmmcategories" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmrates" qname="appInputs>hmmrates" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmprobabilities" qname="appInputs>hmmprobabilities" /><s:basetype optional="true" unbounded="false" typename="boolean" name="adjsite" qname="appInputs>adjsite" /><s:basetype optional="true" unbounded="false" typename="float" name="lambda" qname="appInputs>lambda" /><s:basetype optional="true" unbounded="false" typename="long" name="njumble" qname="appInputs>njumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="global" qname="appInputs>global" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="rough" qname="appInputs>rough" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="hypstate" qname="appInputs>hypstate" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
lengths
0
'text/plain'
false
model
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
ngammacat
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
ninvarcat
0
'text/plain'
false
invarfrac
0
'text/plain'
false
nhmmcategories
0
'text/plain'
false
hmmrates
0
'text/plain'
false
hmmprobabilities
0
'text/plain'
false
adjsite
0
'text/plain'
false
lambda
0
'text/plain'
false
njumble
0
'text/plain'
false
seed
0
'text/plain'
false
global
0
'text/plain'
false
outgrno
0
'text/plain'
false
rough
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
hypstate
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.Invokerun2_sequencesformat0sprotein0direct_data0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.InvokegetResults_appResultsinput0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fproml}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fproml\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0seqtype0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sprotein0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.Invokesprotein_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
msf
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.Invokeseqtype_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
p
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdrun_fpromlrunrun2sequencerun2treeprintrun2troutrun2_sequencesformatrun2_sequencesproteinrun2_sequencedirect_datagetResults_appResultsinputgetStatus_2jobIdBeanshellinputsBeanshell_2inputsgetResults_2jobIdgetStatusjobIdrun_fseqbootrunBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2sequencerun_2seqtyperun_2reps2_sequencedirect_data2_sequencesprotein2_sequencesformatrun_fconsenserungetResults_3jobIdgetStatus_3jobIdBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprint12ddsaoutoutreegsgs3
8d5e9d99-e68c-4029-b652-bb3bd8383a92
2010-08-31 10:07:04.638 CEST
Workflow1s00r0012ddsaoutoutreegsgs3getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getResults
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.Invokerun_fpromlrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
run
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.Invokerun2sequence0treeprint0trout0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fproml}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="boolean" name="lengths" qname="appInputs>lengths" /><s:basetype optional="true" unbounded="false" typename="string" name="model" qname="appInputs>model" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ngammacat" qname="appInputs>ngammacat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ninvarcat" qname="appInputs>ninvarcat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarfrac" qname="appInputs>invarfrac" /><s:basetype optional="true" unbounded="false" typename="long" name="nhmmcategories" qname="appInputs>nhmmcategories" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmrates" qname="appInputs>hmmrates" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmprobabilities" qname="appInputs>hmmprobabilities" /><s:basetype optional="true" unbounded="false" typename="boolean" name="adjsite" qname="appInputs>adjsite" /><s:basetype optional="true" unbounded="false" typename="float" name="lambda" qname="appInputs>lambda" /><s:basetype optional="true" unbounded="false" typename="long" name="njumble" qname="appInputs>njumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="global" qname="appInputs>global" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="rough" qname="appInputs>rough" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="hypstate" qname="appInputs>hypstate" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
lengths
0
'text/plain'
false
model
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
ngammacat
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
ninvarcat
0
'text/plain'
false
invarfrac
0
'text/plain'
false
nhmmcategories
0
'text/plain'
false
hmmrates
0
'text/plain'
false
hmmprobabilities
0
'text/plain'
false
adjsite
0
'text/plain'
false
lambda
0
'text/plain'
false
njumble
0
'text/plain'
false
seed
0
'text/plain'
false
global
0
'text/plain'
false
outgrno
0
'text/plain'
false
rough
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
hypstate
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.Invokerun2_sequencesformat0sprotein0direct_data0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.InvokegetResults_appResultsinput0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fproml}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fproml\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0seqtype0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sprotein0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.Invokesprotein_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
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.Invokeseqtype_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
p
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdrun_fpromlrunrun2sequencerun2treeprintrun2troutrun2_sequencesformatrun2_sequencesproteinrun2_sequencedirect_datagetResults_appResultsinputgetStatus_2jobIdBeanshellinputsBeanshell_2inputsgetResults_2jobIdgetStatusjobIdrun_fseqbootrunBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2sequencerun_2seqtyperun_2reps2_sequencedirect_data2_sequencesprotein2_sequencesformatrun_fconsenserungetResults_3jobIdgetStatus_3jobIdBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprint12ddsaoutoutreegsgs3
69951c93-ce46-4b6f-9037-0610836126fe
2010-08-31 10:07:04.925 CEST
Workflow1s00r0012ddsaoutoutreegsgs3getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getResults
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.Invokerun_fpromlrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
run
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.Invokerun2sequence0treeprint0trout0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fproml}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="boolean" name="lengths" qname="appInputs>lengths" /><s:basetype optional="true" unbounded="false" typename="string" name="model" qname="appInputs>model" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ngammacat" qname="appInputs>ngammacat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="long" name="ninvarcat" qname="appInputs>ninvarcat" /><s:basetype optional="true" unbounded="false" typename="float" name="invarfrac" qname="appInputs>invarfrac" /><s:basetype optional="true" unbounded="false" typename="long" name="nhmmcategories" qname="appInputs>nhmmcategories" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmrates" qname="appInputs>hmmrates" /><s:basetype optional="true" unbounded="false" typename="string" name="hmmprobabilities" qname="appInputs>hmmprobabilities" /><s:basetype optional="true" unbounded="false" typename="boolean" name="adjsite" qname="appInputs>adjsite" /><s:basetype optional="true" unbounded="false" typename="float" name="lambda" qname="appInputs>lambda" /><s:basetype optional="true" unbounded="false" typename="long" name="njumble" qname="appInputs>njumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="global" qname="appInputs>global" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="rough" qname="appInputs>rough" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="hypstate" qname="appInputs>hypstate" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
lengths
0
'text/plain'
false
model
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
ngammacat
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
ninvarcat
0
'text/plain'
false
invarfrac
0
'text/plain'
false
nhmmcategories
0
'text/plain'
false
hmmrates
0
'text/plain'
false
hmmprobabilities
0
'text/plain'
false
adjsite
0
'text/plain'
false
lambda
0
'text/plain'
false
njumble
0
'text/plain'
false
seed
0
'text/plain'
false
global
0
'text/plain'
false
outgrno
0
'text/plain'
false
rough
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
hypstate
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.Invokerun2_sequencesformat0sprotein0direct_data0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.InvokegetResults_appResultsinput0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fproml}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fproml?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fproml\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0seqtype0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sprotein0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.Invokesprotein_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
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.Invokeseqtype_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
p
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.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.InvokegetResultsjobIdrun_fpromlrunrun2sequencerun2treeprintrun2troutrun2_sequencesformatrun2_sequencesproteinrun2_sequencedirect_datagetResults_appResultsinputgetStatus_2jobIdBeanshellinputsBeanshell_2inputsgetResults_2jobIdgetStatusjobIdrun_fseqbootrunBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2sequencerun_2seqtyperun_2reps2_sequencedirect_data2_sequencesprotein2_sequencesformatrun_fconsenserungetResults_3jobIdgetStatus_3jobIdBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprint12ddsaoutoutreegsgs3
21087202-cd42-473e-943e-e2fd41c8233f
2010-08-31 10:07:05.211 CEST
MY_ebi_muscle_plotSequences00
2009-08-27 11:12:31.189 CEST
text/plain
2009-08-27 11:12:31.189 CEST
email00
2009-08-27 11:12:31.189 CEST
text/plain
2009-08-27 11:12:31.189 CEST
MUSCLE_job_IDMUSCLE_alignmentstatusGet_alignmentjobid0type0output00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSMuscle.wsdl
poll
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.InvokeUnpack_alignmentbytes0string00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
workflow
[B
true
bytes
0
'application/octet-stream'
0
string
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.InvokerunMusclecontent0params0attachmentList11jobid00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSMuscle.wsdl
runMuscle
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.InvokeContents_listWSArrayofData1output00net.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:arraytype optional="false" unbounded="false" wrapped="false" typename="WSArrayofData" name="content" qname="{http://www.ebi.ac.uk/WSMuscle}WSArrayofData"><s:elementtype><s:complextype optional="false" unbounded="false" typename="data" name="" qname="{http://www.ebi.ac.uk/WSMuscle}data"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="type" qname="data>type" /><s:basetype optional="false" unbounded="false" typename="string" name="content" qname="data>content" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:extensions>
java.lang.String
true
WSArrayofData
1
l('text/xml')
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.InvokeJob_paramsemail0outputtree0async0maxiters0output0output00net.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="inputParams" name="params" qname="{http://www.ebi.ac.uk/WSMuscle}inputParams"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="output" qname="inputParams>output" /><s:basetype optional="false" unbounded="false" typename="string" name="outputtree" qname="inputParams>outputtree" /><s:basetype optional="false" unbounded="false" typename="int" name="maxiters" qname="inputParams>maxiters" /><s:basetype optional="false" unbounded="false" typename="boolean" name="diags" qname="inputParams>diags" /><s:basetype optional="false" unbounded="false" typename="string" name="email" qname="inputParams>email" /><s:basetype optional="false" unbounded="false" typename="boolean" name="async" qname="inputParams>async" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
output
0
'text/plain'
java.lang.String
true
outputtree
0
'text/plain'
java.lang.String
true
maxiters
0
'text/plain'
java.lang.String
true
diags
0
'text/plain'
java.lang.String
true
email
0
'text/plain'
java.lang.String
true
async
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.InvokeInput_datacontent0type0output00net.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="data" name="" qname="{http://www.ebi.ac.uk/WSMuscle}data"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="type" qname="data>type" /><s:basetype optional="false" unbounded="false" typename="string" name="content" qname="data>content" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
type
0
'text/plain'
java.lang.String
true
content
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.InvokeGet_alignment_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
tooloutput
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.InvokeJob_params_output_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
msf
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.InvokeJob_params_outputtree_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
tree2
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.InvokeJob_params_maxiters_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
3
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.InvokeJob_params_async_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInput_data_type_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
sequence
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.InvokecheckStatusjobid0status00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/Tools/webservices/wsdl/WSMuscle.wsdl
checkStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>0.8</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("RUNNING");</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.InvokeGet_alignmentjobidGet_alignmenttypeUnpack_alignmentbytesrunMusclecontentrunMuscleparamsContents_listWSArrayofDataJob_paramsemailJob_paramsoutputtreeJob_paramsasyncJob_paramsmaxitersJob_paramsoutputInput_datacontentInput_datatypecheckStatusjobidMUSCLE_job_IDMUSCLE_alignmentstatus
62cfab14-060f-4265-96a4-ee9d461d6289
2010-08-31 10:07:05.497 CEST
Perform a multiple sequence alignment using the MUSCLE tool (see http://www.drive5.com/muscle/). The EBI's WSMuscle web service (see http://www.ebi.ac.uk/Tools/webservices/services/muscle) is used.
2009-08-27 11:12:31.202 CEST
MY_ebi_muscle_plot
2009-08-27 11:12:31.202 CEST
2009-08-27 11:12:31.202 CEST
Workflow10in00r00outreeoutogsgs2gs3gs4getResultsjobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getResults
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.InvokegetStatusjobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fseqboot\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fseqbootrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fseqboot?wsdl
run
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.InvokeBeanshellinputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResultsinput0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fseqboot}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2sequence0reps0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fseqboot}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="test" qname="appInputs>test" /><s:basetype optional="true" unbounded="false" typename="boolean" name="regular" qname="appInputs>regular" /><s:basetype optional="true" unbounded="false" typename="float" name="fracsample" qname="appInputs>fracsample" /><s:basetype optional="true" unbounded="false" typename="string" name="rewriteformat" qname="appInputs>rewriteformat" /><s:basetype optional="true" unbounded="false" typename="string" name="seqtype" qname="appInputs>seqtype" /><s:basetype optional="true" unbounded="false" typename="long" name="blocksize" qname="appInputs>blocksize" /><s:basetype optional="true" unbounded="false" typename="long" name="reps" qname="appInputs>reps" /><s:basetype optional="true" unbounded="false" typename="string" name="justweights" qname="appInputs>justweights" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="dotdiff" qname="appInputs>dotdiff" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
test
0
'text/plain'
false
regular
0
'text/plain'
false
fracsample
0
'text/plain'
false
rewriteformat
0
'text/plain'
false
seqtype
0
'text/plain'
false
blocksize
0
'text/plain'
false
reps
0
'text/plain'
false
justweights
0
'text/plain'
false
seed
0
'text/plain'
false
printdata
0
'text/plain'
false
dotdiff
0
'text/plain'
false
progress
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.Invoke2_sequencedirect_data0sformat0sprotein0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invokerun_fconsenserun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
run
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.InvokegetResults_2jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getResults
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.InvokegetStatus_2jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_consensus.fconsense?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fconsense\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.InvokeBeanshell_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_2inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_2input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fconsense}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_2intreefile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fconsense}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_direct_data" qname="appInputs>intreefile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="intreefile_url" qname="appInputs>intreefile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="float" name="mlfrac" qname="appInputs>mlfrac" /><s:basetype optional="true" unbounded="false" typename="boolean" name="root" qname="appInputs>root" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /><s:basetype optional="true" unbounded="false" typename="boolean" name="prntsets" qname="appInputs>prntsets" /></s:elements></s:complextype></s:extensions>
false
intreefile_direct_data
0
'text/plain'
false
intreefile_url
0
'text/plain'
false
method
0
'text/plain'
false
mlfrac
0
'text/plain'
false
root
0
'text/plain'
false
outgrno
0
'text/plain'
false
trout
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
0
'text/plain'
false
prntsets
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.InvokegetResults_3jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getResults
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.InvokegetStatus_3jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fneighbor\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fneighborrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_distance_matrix.fneighbor?wsdl
run
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.InvokeBeanshell_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_3inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_3input0outtreefile00outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fneighbor}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile" qname="appResults>outtreefile" /><s:basetype optional="true" unbounded="false" typename="string" name="outtreefile_url" qname="appResults>outtreefile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
0
'text/plain'
0
outtreefile
0
'text/plain'
0
outtreefile_url
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.Invokerun_2_3datafile_direct_data0trout0treeprint0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fneighbor}run"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="datafile_direct_data" qname="appInputs>datafile_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="datafile_url" qname="appInputs>datafile_url" /><s:basetype optional="true" unbounded="false" typename="string" name="matrixtype" qname="appInputs>matrixtype" /><s:basetype optional="true" unbounded="false" typename="string" name="treetype" qname="appInputs>treetype" /><s:basetype optional="true" unbounded="false" typename="long" name="outgrno" qname="appInputs>outgrno" /><s:basetype optional="true" unbounded="false" typename="boolean" name="jumble" qname="appInputs>jumble" /><s:basetype optional="true" unbounded="false" typename="long" name="seed" qname="appInputs>seed" /><s:basetype optional="true" unbounded="false" typename="boolean" name="replicates" qname="appInputs>replicates" /><s:basetype optional="true" unbounded="false" typename="boolean" name="trout" qname="appInputs>trout" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /><s:basetype optional="true" unbounded="false" typename="boolean" name="treeprint" qname="appInputs>treeprint" /></s:elements></s:complextype></s:extensions>
false
datafile_direct_data
0
'text/plain'
false
datafile_url
0
'text/plain'
false
matrixtype
0
'text/plain'
false
treetype
0
'text/plain'
false
outgrno
0
'text/plain'
false
jumble
0
'text/plain'
false
seed
0
'text/plain'
false
replicates
0
'text/plain'
false
trout
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
0
'text/plain'
false
treeprint
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.InvokegetResults_4jobId0appResults00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getResults
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.InvokegetStatus_4jobId0jobStatus00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
getStatus
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.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.1</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 = "" + jobStatus.equals("<ns2:getStatusResponse xmlns:ns2=\"http://soaplab.org/typedws\" xmlns:ns3=\"http://ebi.ac.uk/fprotdist\">RUNNING</ns2:getStatusResponse>");
if ("true".matches(loop)) {
Thread.sleep(0);
}</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>jobStatus</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.Invokerun_fprotdistrun0runResponse00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://www.ebi.ac.uk/soaplab/typed/services/phylogeny_molecular_sequence.fprotdist?wsdl
run
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.InvokeBeanshell_5inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokeBeanshell_2_4inputs0result00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
inputs
0
text/plain
0
result
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.InvokegetResults_appResults_4input0outfile00net.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="getResultsResponse" name="appResults" qname="{http://ebi.ac.uk/fprotdist}getResultsResponse"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="report" qname="appResults>report" /><s:basetype optional="true" unbounded="false" typename="long" name="detailed_status" qname="appResults>detailed_status" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile" qname="appResults>outfile" /><s:basetype optional="true" unbounded="false" typename="string" name="outfile_url" qname="appResults>outfile_url" /></s:elements></s:complextype></s:extensions>
java.lang.String
false
input
0
'text/xml'
0
report
0
'text/plain'
0
detailed_status
0
'text/plain'
0
outfile
0
'text/plain'
0
outfile_url
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.Invokerun_2_4sequence0output00net.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="run" name="run" qname="{http://ebi.ac.uk/fprotdist}run"><s:elements><s:complextype optional="false" unbounded="false" typename="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="long" name="ncategories" qname="appInputs>ncategories" /><s:basetype optional="true" unbounded="false" typename="string" name="rate" qname="appInputs>rate" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_direct_data" qname="appInputs>categories_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="categories_url" qname="appInputs>categories_url" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_direct_data" qname="appInputs>weights_direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="weights_url" qname="appInputs>weights_url" /><s:basetype optional="true" unbounded="false" typename="string" name="method" qname="appInputs>method" /><s:basetype optional="true" unbounded="false" typename="string" name="gamma" qname="appInputs>gamma" /><s:basetype optional="true" unbounded="false" typename="float" name="gammacoefficient" qname="appInputs>gammacoefficient" /><s:basetype optional="true" unbounded="false" typename="float" name="invarcoefficient" qname="appInputs>invarcoefficient" /><s:basetype optional="true" unbounded="false" typename="string" name="aacateg" qname="appInputs>aacateg" /><s:basetype optional="true" unbounded="false" typename="string" name="whichcode" qname="appInputs>whichcode" /><s:basetype optional="true" unbounded="false" typename="float" name="ease" qname="appInputs>ease" /><s:basetype optional="true" unbounded="false" typename="float" name="ttratio" qname="appInputs>ttratio" /><s:basetype optional="true" unbounded="false" typename="string" name="basefreq" qname="appInputs>basefreq" /><s:basetype optional="true" unbounded="false" typename="boolean" name="printdata" qname="appInputs>printdata" /><s:basetype optional="true" unbounded="false" typename="boolean" name="progress" qname="appInputs>progress" /></s:elements></s:complextype></s:extensions>
false
sequence
0
'text/xml'
false
ncategories
0
'text/plain'
false
rate
0
'text/plain'
false
categories_direct_data
0
'text/plain'
false
categories_url
0
'text/plain'
false
weights_direct_data
0
'text/plain'
false
weights_url
0
'text/plain'
false
method
0
'text/plain'
false
gamma
0
'text/plain'
false
gammacoefficient
0
'text/plain'
false
invarcoefficient
0
'text/plain'
false
aacateg
0
'text/plain'
false
whichcode
0
'text/plain'
false
ease
0
'text/plain'
false
ttratio
0
'text/plain'
false
basefreq
0
'text/plain'
false
printdata
0
'text/plain'
false
progress
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.Invoke2_sequence_2direct_data0sformat0output00net.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="sequenceInput" name="sequence" qname="appInputs>sequence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="direct_data" qname="sequenceInput>direct_data" /><s:basetype optional="true" unbounded="false" typename="string" name="usa" qname="sequenceInput>usa" /><s:basetype optional="true" unbounded="false" typename="string" name="sformat" qname="sequenceInput>sformat" /><s:basetype optional="true" unbounded="false" typename="long" name="sbegin" qname="sequenceInput>sbegin" /><s:basetype optional="true" unbounded="false" typename="long" name="send" qname="sequenceInput>send" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sprotein" qname="sequenceInput>sprotein" /><s:basetype optional="true" unbounded="false" typename="boolean" name="snucleotide" qname="sequenceInput>snucleotide" /><s:basetype optional="true" unbounded="false" typename="boolean" name="sreverse" qname="sequenceInput>sreverse" /><s:basetype optional="true" unbounded="false" typename="boolean" name="slower" qname="sequenceInput>slower" /><s:basetype optional="true" unbounded="false" typename="boolean" name="supper" qname="sequenceInput>supper" /></s:elements></s:complextype></s:extensions>
false
direct_data
0
'text/plain'
false
usa
0
'text/plain'
false
sformat
0
'text/plain'
false
sbegin
0
'text/plain'
false
send
0
'text/plain'
false
sprotein
0
'text/plain'
false
snucleotide
0
'text/plain'
false
sreverse
0
'text/plain'
false
slower
0
'text/plain'
false
supper
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.Invoketrout_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invoketreeprint_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
clustal
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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokesprotein_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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.Invokesformat_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
phylip
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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketrout_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketreeprint_value_1value00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
true
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
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0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetResultsjobIdgetStatusjobIdrun_fseqbootrunBeanshellinputsBeanshell_2inputsgetResults_appResultsinputrun_2sequencerun_2reps2_sequencedirect_data2_sequencesformat2_sequencesproteinrun_fconsenserungetResults_2jobIdgetStatus_2jobIdBeanshell_3inputsBeanshell_2_2inputsgetResults_appResults_2inputrun_2_2intreefile_direct_datarun_2_2troutrun_2_2treeprintgetResults_3jobIdgetStatus_3jobIdrun_fneighborrunBeanshell_4inputsBeanshell_2_3inputsgetResults_appResults_3inputrun_2_3datafile_direct_datarun_2_3troutrun_2_3treeprintgetResults_4jobIdgetStatus_4jobIdrun_fprotdistrunBeanshell_5inputsBeanshell_2_4inputsgetResults_appResults_4inputrun_2_4sequence2_sequence_2direct_data2_sequence_2sformatoutreeoutogsgs2gs3gs4
4a6f475f-d695-4570-a92b-e10eec2a40a4
2010-08-31 10:07:08.560 CEST