Multi_parameter_sensitivity_analysis__MPSA__with_PMCparamXmlList
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2011-06-28 16:03:22.345 CEST
ecdfPlotList
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paramRankingXmlList
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2011-06-28 16:03:22.345 CEST
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k1, k3
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<sbml xmlns="http://www.sbml.org/sbml/level2" level="2" version="1"> <model id="Enzymatic_reaction" name="Enzymatic reaction"> <listOfUnitDefinitions> <unitDefinition id="substance"> <listOfUnits> <unit kind="item" multiplier="1" offset="0"/> </listOfUnits> </unitDefinition> </listOfUnitDefinitions> <listOfCompartments> <compartment id="c" name="Solution" size="1"/> </listOfCompartments> <listOfSpecies> <species id="s" name="Substrate" compartment="c" initialAmount="12"/> <species id="e" name="Enzyme" compartment="c" initialAmount="10"/> <species id="es" name="ES-complex" compartment="c" initialAmount="0"/> <species id="p" name="Product" compartment="c" initialAmount="0"/> </listOfSpecies> <listOfParameters> <parameter id="k1" value="0.184"/> <parameter id="k2" value="0.016"/> <parameter id="k3" value="0.211"/> </listOfParameters> <listOfReactions> <reaction id="r1" name="ES-complex association" reversible="false"> <listOfReactants> <speciesReference species="s"/> <speciesReference species="e"/> </listOfReactants> <listOfProducts> <speciesReference species="es"/> </listOfProducts> <kineticLaw> <math xmlns="http://www.w3.org/1998/Math/MathML"> <apply> <times/> <ci> k1 </ci> <ci> s </ci> <ci> e </ci> </apply> </math> </kineticLaw> </reaction> <reaction id="r2" name="ES-complex dissociation" reversible="false"> <listOfReactants> <speciesReference species="es"/> </listOfReactants> <listOfProducts> <speciesReference species="s"/> <speciesReference species="e"/> </listOfProducts> <kineticLaw> <math xmlns="http://www.w3.org/1998/Math/MathML"> <apply> <times/> <ci> k2 </ci> <ci> es </ci> </apply> </math> </kineticLaw> </reaction> <reaction id="r3" name="Product creation" reversible="false"> <listOfReactants> <speciesReference species="es"/> </listOfReactants> <listOfProducts> <speciesReference species="p"/> <speciesReference species="e"/> </listOfProducts> <kineticLaw> <math xmlns="http://www.w3.org/1998/Math/MathML"> <apply> <times/> <ci> k3 </ci> <ci> es </ci> </apply> </math> </kineticLaw> </reaction> </listOfReactions> </model> </sbml>
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LHS
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uniform
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R{"r1"}=? [ F (p >= 0.5 * 12) ]
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http://bioputer.mimuw.edu.pl/tav4sb/models/enzyme.rew
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesetParamsRangeparamXmlListsetParamsRangemultiplierClassifySamplessampleListClassifySamplessampleErrorListClassifySamplesmethodSelectParametersparamNameCsvSelectParametersmodelXmlCalculateSensitivityunacceptableSampleXmlListCalculateSensitivityparamXmlListCalculateSensitivityacceptableSampleXmlListCalculateSensitivityifGeneratePlotsGenerateSamplesscaleGenerateSamplesnrGenerateSamplesparamListXmlGenerateSamplesmethodGenerateSamplesdistributionGenerateSamplesrangeMultiplierCalculateSamplesError_PMCsampleXmlListCalculateSamplesError_PMCpropertiesCalculateSamplesError_PMCmodelXmlCalculateSamplesError_PMCrewardsgetRewardsfileurlparamXmlListecdfPlotListparamRankingXmlListsampleErrorListsampleXmlListsampleErrorThreshold
Multi-parameter sensitivity analysis (MPSA) with PMC
2011-06-28 18:15:47.312 CEST
c2716972-289f-4298-b901-49bf0d414d94
2011-06-28 17:53:16.308 CEST
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2011-06-28 16:05:37.125 CEST
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2011-06-28 17:13:08.98 CEST
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2011-06-28 18:51:55.281 CEST
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2011-06-28 18:24:14.671 CEST
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2011-06-28 17:56:10.730 CEST
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2011-07-01 12:04:14.662 CEST
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2011-06-28 18:15:49.315 CEST
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2011-06-29 12:15:53.650 CEST
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2011-06-28 17:58:30.666 CEST
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2011-06-29 12:15:35.667 CEST
ec2546c5-6279-46a6-8cb7-2306cf8e6cbe
2011-06-28 18:21:23.973 CEST
Mikołaj Rybiński
2011-06-28 16:03:23.833 CEST
4b65b249-5181-4d61-ad0b-eb95b13d9524
2011-06-30 11:40:27.764 CEST
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2011-06-28 17:55:43.630 CEST
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2011-06-30 11:37:22.889 CEST
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2011-06-28 16:04:22.894 CEST
7a50253f-3bf7-4db6-9267-d1197fa14fd1
2011-06-28 18:25:37.80 CEST
Multi-parameter sensitivity analysis (MPSA)
2011-06-28 16:03:23.833 CEST
2011-06-28 16:03:23.833 CEST
357b0856-eb96-4839-9262-779464ab7e33
2011-06-28 16:06:00.562 CEST
sbml2PrismWebservicesbmlModel00
String with the SBML model compatible with Level 2 Version 1 of the SBML specification. Attention: it has to be a 'stochastic' version of the model, i.e. with initial amounts not initial concentrations.
2011-06-28 16:16:49.321 CEST
text/plain
2011-06-28 16:16:49.321 CEST
maxAmount00
Optional upper bound for amount of each species (to ensure a finite state space). By default translator uses an upper bound of 100. ATTENTION: for that case you should provide input value with empty string.
2011-06-28 16:16:49.321 CEST
text/plain
2011-06-28 16:16:49.321 CEST
prismModel
text/plain
2011-06-28 16:16:49.321 CEST
warnings
text/plain
2011-06-28 16:16:49.321 CEST
error
text/plain
2011-06-28 16:16:49.321 CEST
sbml2Prismsbml2PrismParams0attachmentList11sbml2PrismResult00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://bioputer.mimuw.edu.pl/tav4sb/services/wsdl
sbml2Prism
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1
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0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokesbml2PrismResultXMLinput0prismModel00error00warnings11net.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="sbml2PrismResult" name="sbml2PrismResult" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/prism}sbml2PrismResult"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="prismModel" qname=">sbml2PrismResult>prismModel" /><s:arraytype optional="true" unbounded="true" wrapped="true" typename="string" name="warnings" qname=">sbml2PrismResult>warnings"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="" qname="{http://www.w3.org/2001/XMLSchema}string" /></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="error" qname=">sbml2PrismResult>error" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
input
0
'text/xml'
0
prismModel
0
'text/plain'
1
warnings
1
l('text/plain')
0
error
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.Invokesbml2PrismParamsXMLsbmlModel0maxAmount0output00net.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="sbml2PrismParams" name="sbml2PrismParams" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/prism}sbml2PrismParams"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="sbmlModel" qname=">sbml2PrismParams>sbmlModel" /><s:basetype optional="true" unbounded="false" typename="integer" name="maxAmount" qname=">sbml2PrismParams>maxAmount" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
sbmlModel
0
'text/plain'
java.lang.String
true
maxAmount
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.Invokesbml2Prismsbml2PrismParamssbml2PrismResultXMLinputsbml2PrismParamsXMLsbmlModelsbml2PrismParamsXMLmaxAmountprismModelwarningserror
Mikołaj Rybiński
2011-06-28 16:16:49.332 CEST
For example of the SBML to PRISM translation and the description of its details see http://www.prismmodelchecker.org/manual/RunningPRISM/SupportForSBML .
2011-06-28 16:16:49.332 CEST
sbml2Prism Web service
2011-06-28 16:16:49.332 CEST
32b53cf9-c394-43de-983d-de6af08aff8b
2011-06-28 16:17:52.119 CEST
calcSensitivityWebserviceoperationparamXmlList11
2011-06-28 16:03:23.326 CEST
text/plain
2011-06-28 16:03:23.326 CEST
acceptableSampleXmlList11
text/plain
2011-06-28 16:03:23.326 CEST
2011-06-28 16:03:23.326 CEST
text/xml
2011-06-28 16:03:23.326 CEST
unacceptableSampleXmlList11
text/plain
2011-06-28 16:03:23.326 CEST
text/xml
2011-06-28 16:03:23.326 CEST
2011-06-28 16:03:23.326 CEST
ifGeneratePlots00
2011-06-28 16:03:23.326 CEST
text/plain
2011-06-28 16:03:23.326 CEST
paramRankingXmlList
text/xml
2011-06-28 16:03:23.326 CEST
plotList
image/png
2011-06-28 16:03:23.326 CEST
application/octet-stream
2011-06-28 16:03:23.326 CEST
calcSensitivitycalcSensitivityParams0attachmentList11calcSensitivityResult00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://bioputer.mimuw.edu.pl/tav4sb/services/wsdl
calcSensitivity
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokefromPairpair1el100el200net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
pair
1
l('text/plain')
0
el1
0
'text/plain'
0
el2
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.InvokeparamXmlList2selectedParamsXmlparamXmlList1selectedParamsXml00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
paramXmlList
1
l('text/plain')
0
selectedParamsXml
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.InvokesampleXmlList2sampleListXmlsampleXmlList1sampleListXml00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
sampleXmlList
1
l('text/plain')
0
sampleListXml
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.InvoketoPairlist11list21listsPair22net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
list1
1
l('text/plain')
java.lang.String
true
list2
1
l('text/plain')
2
listsPair
2
l(l('text/plain'))
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeDecode_base64_to_bytebase640bytes00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.DecodeBase64
commons-codec:commons-codec:1.3
workflow
commons-codec
commons-codec
1.3
1635363350
java.lang.String
true
base64
0
'text/plain'
0
bytes
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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokerankingListXMLinput0rankingList11net.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:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfParamRanking" name="rankingList" qname=">calcSensitivityResult>rankingList"><s:elementtype><s:complextype optional="false" unbounded="false" typename="ParamRanking" name="" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}ParamRanking"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="name" qname="ParamRanking>name" /><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="paramSortedList" qname="ParamRanking>paramSortedList"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elements></s:complextype></s:elementtype></s:arraytype></s:extensions>
java.lang.String
true
input
0
'text/xml'
1
rankingList
1
l('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.InvokecalcSensitivityResultXMLinput0rankingList00ecdfPlotList11net.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="calcSensitivityResult" name="calcSensitivityResult" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}calcSensitivityResult"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfParamRanking" name="rankingList" qname=">calcSensitivityResult>rankingList"><s:elementtype><s:complextype optional="false" unbounded="false" typename="ParamRanking" name="" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}ParamRanking"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="name" qname="ParamRanking>name" /><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="sortedParamList" qname="ParamRanking>sortedParamList"><s:elementtype><s:basetype optional="false" unbounded="false" typename="decimal" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elements></s:complextype></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="false" wrapped="true" typename="ArrayOfPlot" name="ecdfPlotList" qname=">calcSensitivityResult>ecdfPlotList"><s:elementtype><s:basetype optional="false" unbounded="false" typename="base64Binary" name="Plot" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}Plot" /></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions>
java.lang.String
true
input
0
'text/xml'
0
rankingList
0
'text/xml'
1
ecdfPlotList
1
l('text/plain')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokecalcSensitivityParamsXMLacceptableSamples0selectedParams0generatePlots0unacceptableSamples0output00net.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="calcSensitivityParams" name="calcSensitivityParams" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}calcSensitivityParams"><s:elements><s:complextype optional="false" unbounded="false" typename="paramList" name="selectedParams" qname=">calcSensitivityParams>selectedParams"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="paramList" qname="paramList>paramList"><s:elementtype><s:basetype optional="false" unbounded="false" typename="decimal" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elements></s:complextype><s:complextype optional="false" unbounded="false" typename=">>calcSensitivityParams>acceptableSamples" name="acceptableSamples" qname=">calcSensitivityParams>acceptableSamples"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfSample" name="sampleList" qname=">>calcSensitivityParams>acceptableSamples>sampleList"><s:elementtype><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="ArrayOfdecimal" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewArrayOfParam"><s:elementtype><s:basetype optional="false" unbounded="false" typename="decimal" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elementtype></s:arraytype></s:elements></s:complextype><s:complextype optional="false" unbounded="false" typename=">>calcSensitivityParams>unacceptableSamples" name="unacceptableSamples" qname=">calcSensitivityParams>unacceptableSamples"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfSample" name="sampleList" qname=">>calcSensitivityParams>unacceptableSamples>sampleList"><s:elementtype><s:arraytype id="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewArrayOfParam" optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="ArrayOfdecimal" /></s:elementtype></s:arraytype></s:elements></s:complextype><s:basetype optional="true" unbounded="false" typename="boolean" name="generatePlots" qname=">calcSensitivityParams>generatePlots" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
selectedParams
0
'text/xml'
java.lang.String
true
acceptableSamples
0
'text/xml'
java.lang.String
true
unacceptableSamples
0
'text/xml'
java.lang.String
true
generatePlots
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.InvokeacceptableSamplesXMLsampleList0output00net.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=">>calcSensitivityParams>acceptableSamples" name="acceptableSamples" qname=">calcSensitivityParams>acceptableSamples"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfSample" name="sampleList" qname=">>calcSensitivityParams>acceptableSamples>sampleList"><s:elementtype><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="ArrayOfstring" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewArrayOfParam"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions>
java.lang.String
true
sampleList
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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeunacceptableSamplesXMLsampleList0output00net.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=">>calcSensitivityParams>unacceptableSamples" name="unacceptableSamples" qname=">calcSensitivityParams>unacceptableSamples"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfSample" name="sampleList" qname=">>calcSensitivityParams>unacceptableSamples>sampleList"><s:elementtype><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="ArrayOfstring" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewArrayOfParam"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions>
java.lang.String
true
sampleList
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
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokecalcSensitivitycalcSensitivityParamsfromPairpairparamXmlList2selectedParamsXmlparamXmlListsampleXmlList2sampleListXmlsampleXmlListtoPairlist1toPairlist2Decode_base64_to_bytebase64rankingListXMLinputcalcSensitivityResultXMLinputcalcSensitivityParamsXMLacceptableSamplescalcSensitivityParamsXMLselectedParamscalcSensitivityParamsXMLgeneratePlotscalcSensitivityParamsXMLunacceptableSamplesacceptableSamplesXMLsampleListunacceptableSamplesXMLsampleListparamRankingXmlListplotList
2011-06-28 16:03:23.553 CEST
82bc1121-c9d9-4e85-bed9-0d83aba9204f
2011-06-28 16:04:23.214 CEST
calcSensitivity Web service operation
2011-06-28 16:03:23.553 CEST
2011-06-28 16:03:23.553 CEST
sampleParamsWebserviceoperationdistribution00
2011-06-28 16:03:23.556 CEST
text/plain
2011-06-28 16:03:23.556 CEST
method00
text/plain
2011-06-28 16:03:23.556 CEST
2011-06-28 16:03:23.556 CEST
nr00
text/plain
2011-06-28 16:03:23.556 CEST
2011-06-28 16:03:23.556 CEST
paramListXml00
text/xml
2011-06-28 16:03:23.556 CEST
2011-06-28 16:03:23.556 CEST
scale00
2011-06-28 16:03:23.556 CEST
text/plain
2011-06-28 16:03:23.556 CEST
rangeMultiplier00
2011-06-28 16:03:23.556 CEST
text/plain
2011-06-28 16:03:23.556 CEST
sampleXmlList
text/xml
2011-06-28 16:03:23.556 CEST
sampleParamssampleParamsParams0attachmentList11sampleParamsResult00net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://bioputer.mimuw.edu.pl/tav4sb/services/wsdl
sampleParams
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokesampleListXml2sampleXmlListinput0sampleList11net.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:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfSample" name="sampleList" qname=">sampleParamsResult>sampleList"><s:elementtype><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="ArrayOfstring" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewArrayOfParam"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elementtype></s:arraytype></s:extensions>
java.lang.String
true
input
0
'text/xml'
1
sampleList
1
l('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.InvokesampleParamsResultinput0sampleList00net.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="sampleParamsResult" name="sampleParamsResult" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}sampleParamsResult"><s:elements><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfSample" name="sampleList" qname=">sampleParamsResult>sampleList"><s:elementtype><s:arraytype optional="false" unbounded="false" wrapped="true" typename="NewArrayOfParam" name="ArrayOfstring" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewArrayOfParam"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="NewParam" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}NewParam" /></s:elementtype></s:arraytype></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions>
java.lang.String
true
input
0
'text/xml'
0
sampleList
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.InvokesampleParamsParamsXMLparamList0distribution0scale0nr0rangeMultiplier0method0output00net.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="sampleParamsParams" name="sampleParamsParams" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}sampleParamsParams"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="distribution" qname=">sampleParamsParams>distribution" /><s:basetype optional="false" unbounded="false" typename="string" name="method" qname=">sampleParamsParams>method" /><s:basetype optional="false" unbounded="false" typename="int" name="nr" qname=">sampleParamsParams>nr" /><s:arraytype optional="false" unbounded="false" wrapped="true" typename="ArrayOfParam" name="paramList" qname=">sampleParamsParams>paramList"><s:elementtype><s:complextype optional="false" unbounded="false" typename="param" name="" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/mathematica}param"><s:elements /></s:complextype></s:elementtype></s:arraytype><s:basetype optional="false" unbounded="false" typename="string" name="scale" qname=">sampleParamsParams>scale" /><s:basetype optional="true" unbounded="false" typename="decimal" name="rangeMultiplier" qname=">sampleParamsParams>rangeMultiplier" /></s:elements></s:complextype></s:extensions>
java.lang.String
true
distribution
0
'text/plain'
java.lang.String
true
method
0
'text/plain'
java.lang.String
true
nr
0
'text/plain'
java.lang.String
true
paramList
0
'text/xml'
java.lang.String
true
scale
0
'text/plain'
java.lang.String
true
rangeMultiplier
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.InvokesampleParamssampleParamsParamssampleListXml2sampleXmlListinputsampleParamsResultinputsampleParamsParamsXMLparamListsampleParamsParamsXMLdistributionsampleParamsParamsXMLscalesampleParamsParamsXMLnrsampleParamsParamsXMLrangeMultipliersampleParamsParamsXMLmethodsampleXmlList
1add5695-69d2-46e3-95fc-b1580f525b13
2011-06-28 16:04:23.740 CEST
Paweł Banasik
2011-06-28 16:03:23.580 CEST
2011-06-28 16:03:23.580 CEST
sampleParams Web service operation
2011-06-28 16:03:23.580 CEST
SelectSBMLmodelparametersmodelXml00
2011-06-28 16:03:23.182 CEST
text/xml
2011-06-28 16:03:23.182 CEST
paramNameCsv00
text/plain
2011-06-28 16:03:23.182 CEST
String with a comma-separated list of parameters identifiers. Currently, kinetic parameters and initial species amounts or concentrations are supported. Reaction's local kinetic parameters are identified by using reaction identifier as a prefix, separated with dot (".") from the kinetic parameter identifier.
Example value:
s1, k1, r1.k
2011-06-28 16:03:23.182 CEST
paramXmlList
text/plain
2011-06-28 16:03:23.182 CEST
text/xml
2011-06-28 16:03:23.182 CEST
paramNameListbuildXPathFilterattrName0attrValList1xpath00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
attrName
0
'text/plain'
java.lang.String
true
attrValList
1
l('text/plain')
java.lang.String
true
ifQuoteVal
0
'text/plain'
0
xpath
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.InvokegetSbmlParamsmodel0paramListXml00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
jsbml-0.8-b2-with-dependencies.jar
java.lang.String
true
model
0
'text/xml'
0
paramListXml
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.InvokegetNamexpath0xml-text0nodelistAsXML11nodelist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker
dom4j:dom4j:1.6
workflow
dom4j
dom4j
1.6
716010169
java.lang.String
true
xpath
0
'text/plain'
java.lang.String
true
xml-text
0
'text/xml'
1
nodelist
1
l('text/plain')
1
nodelistAsXML
1
l('text/plain')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecsv2Liststring0regex0split11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.SplitByRegex
workflow
java.lang.String
true
string
0
'text/plain'
java.lang.String
true
regex
0
'text/plain'
1
split
1
l('text/plain')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokefilterParamsxml-text0xpath0nodelist11nodelistAsXML11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker
dom4j:dom4j:1.6
workflow
dom4j
dom4j
1.6
716010169
java.lang.String
true
xpath
0
'text/plain'
java.lang.String
true
xml-text
0
'text/xml'
1
nodelist
1
l('text/plain')
1
nodelistAsXML
1
l('text/plain')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeaddXPathPrefixstring20string10output00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.StringConcat
workflow
java.lang.String
true
string1
0
'text/plain'
java.lang.String
true
string2
0
'text/plain'
0
output
0
'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.InvokeFlatten_listinputlist2outputlist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.FlattenList
workflow
[B
true
inputlist
2
l(l(''))
1
outputlist
1
l('')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokebuildXPathFilter_attrName_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
name
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokegetName_xpath_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
/*/@name
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.Invokecsv2List_regex_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
\s*,\s*
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokeaddXPathPrefix_string1_defaultValuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
/paramList/
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokebuildXPathFilterattrNamebuildXPathFilterattrValListgetSbmlParamsmodelgetNamexpathgetNamexml-textcsv2Liststringcsv2ListregexfilterParamsxml-textfilterParamsxpathaddXPathPrefixstring2addXPathPrefixstring1Flatten_listinputlistparamXmlListparamNameList
4405f87b-e19d-4d3a-bb73-0f70bba8f23d
2011-06-28 16:04:24.87 CEST
Select SBML model parameters
2011-06-28 16:03:23.323 CEST
Mikołaj Rybiński
2011-06-28 16:03:23.323 CEST
2011-06-28 16:03:23.323 CEST
ClassifysamplessampleList11
2011-06-28 16:03:23.87 CEST
text/plain
2011-06-28 16:03:23.81 CEST
sampleErrorList11
text/plain
2011-06-28 16:03:23.87 CEST
2011-06-28 16:03:23.87 CEST
method00
text/plain
2011-06-28 16:03:23.87 CEST
2011-06-28 16:03:23.87 CEST
acceptableSampleList
text/plain
2011-06-28 16:03:23.87 CEST
unacceptableSampleList
text/plain
2011-06-28 16:03:23.87 CEST
errorThresholdcalculateThresholdnumbers1method0threshold00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
method
0
'text/plain'
java.lang.String
true
numbers
1
l('text/plain')
0
threshold
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.InvokeclassifySamplesthreshold0sampleErrorList1sampleList1acceptableSampleList11unacceptableSampleList11net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
threshold
0
'text/plain'
java.lang.String
true
sampleList
1
l('text/plain')
java.lang.String
true
sampleErrorList
1
l('text/plain')
1
unacceptableSampleList
1
l('text/plain')
1
acceptableSampleList
1
l('text/plain')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokecalculateThresholdnumberscalculateThresholdmethodclassifySamplesthresholdclassifySamplessampleErrorListclassifySamplessampleListacceptableSampleListunacceptableSampleListerrorThreshold
1a429533-06b3-4614-a0d1-e7d0c7437914
2011-06-28 16:04:23.402 CEST
9c68d651-eaaa-4962-bfac-ca8ae3ce9a15
2011-07-01 12:03:38.249 CEST
Classify samples
2011-06-28 16:03:23.128 CEST
2011-06-28 16:03:23.128 CEST
2011-06-28 16:03:23.128 CEST
CalculateerrorofSBMLparameterssamplesusingODEssimulationssampleXmlList11
2011-06-28 16:03:23.598 CEST
modelXml00
2011-06-28 16:03:23.599 CEST
text/plain
2011-06-28 16:03:23.599 CEST
text/xml
2011-06-28 16:03:23.599 CEST
rewards00properties00sampleErrorList
text/plain
2011-06-28 16:03:23.599 CEST
setSbmlParamsparamListXml0modelInXml0modelOutXml00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
system
jsbml-0.8-b2-with-dependencies.jar
java.lang.String
true
modelInXml
0
'text/xml'
java.lang.String
true
paramListXml
0
'text/xml'
0
modelOutXml
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
10
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokeEcho_listinputlist1outputlist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.EchoList
workflow
[B
true
inputlist
1
l('')
1
outputlist
1
l('')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSbml2PrismsbmlModel0maxAmount0prismModel00net.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
10
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokerefSbml2PrismsbmlModel0maxAmount0prismModel00net.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.InvokeSbml2Prism_maxAmount_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.InvokeappendRewardsstring20string10output00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.StringConcat
workflow
java.lang.String
true
string1
0
'text/plain'
java.lang.String
true
string2
0
'text/plain'
0
output
0
'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.InvokerefAppendRewardsstring20string10output00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.StringConcat
workflow
java.lang.String
true
string1
0
'text/plain'
java.lang.String
true
string2
0
'text/plain'
0
output
0
'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.InvokePrismmodel0properties0constants0resultsXml00net.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
10
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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.InvokerefPrismmodel0properties0constants0resultsXml00net.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.InvokeemptyStrvalue00net.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
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokemeanAbsDiffvalList12valList22error00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
valList1
2
text/plain
java.lang.String
true
valList2
2
text/plain
0
error
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.InvokepointListXmlToValuesListListpointListXml0coordinateNameList1coordinateValueListList22net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
pointListXml
0
text/plain
java.lang.String
true
coordinateNameList
1
text/plain
2
coordinateValueListList
2
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokerefPointListXmlToValuesListListpointListXml0coordinateNameList1coordinateValueListList22net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
pointListXml
0
text/plain
java.lang.String
true
coordinateNameList
1
text/plain
2
coordinateValueListList
2
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetPropertyNameListxpath0xml-text0nodelist11net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker
dom4j:dom4j:1.6
workflow
dom4j
dom4j
1.6
716010169
java.lang.String
true
xpath
0
'text/plain'
java.lang.String
true
xml-text
0
'text/xml'
1
nodelist
1
l('text/plain')
1
nodelistAsXML
1
l('text/plain')
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokexpath_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.2net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
/*/*/property/@name
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokesetSbmlParamsparamListXmlsetSbmlParamsmodelInXmlEcho_listinputlistSbml2PrismsbmlModelSbml2PrismmaxAmountrefSbml2PrismsbmlModelrefSbml2PrismmaxAmountappendRewardsstring2appendRewardsstring1refAppendRewardsstring2refAppendRewardsstring1PrismmodelPrismpropertiesPrismconstantsrefPrismmodelrefPrismpropertiesrefPrismconstantsmeanAbsDiffvalList1meanAbsDiffvalList2pointListXmlToValuesListListpointListXmlpointListXmlToValuesListListcoordinateNameListrefPointListXmlToValuesListListpointListXmlrefPointListXmlToValuesListListcoordinateNameListgetPropertyNameListxpathgetPropertyNameListxml-textsampleErrorList
624687e7-1333-4c67-a1e9-d2e84c23a440
2011-06-28 16:03:49.564 CEST
97ff6f7f-1440-4d51-8323-c2efce7fb83d
2011-06-29 12:00:38.996 CEST
4647e086-b681-42d9-93a0-0cd5be7c9e1d
2011-06-29 11:54:38.711 CEST
6922c0e2-4be1-493d-abee-8ce999ab1fbe
2011-06-28 16:38:37.727 CEST
440abe1c-42fb-4b6c-89d6-03c78f5e0aeb
2011-06-28 17:19:23.1 CEST
Mikołaj Rybiński
2011-06-28 16:03:23.826 CEST
Calculate error of SBML parameters' samples using ODEs simulations
2011-06-28 16:03:23.826 CEST
efcbdb98-0f78-406f-bd2e-b7971b7b36b5
2011-06-28 16:42:55.990 CEST
0a5bd4d1-1277-42c7-b6b7-caecb9da12e5
2011-06-28 16:55:38.227 CEST
3b761666-cb1b-454f-aff9-dd1b245dc1a4
2011-06-28 17:51:45.971 CEST
bcc68d1f-890e-4ab0-856d-4ab13c6791f4
2011-06-29 12:13:36.688 CEST
2011-06-28 16:03:23.826 CEST
4ddc2bba-476d-4dca-a133-2b970da3f4d3
2011-06-29 12:11:20.105 CEST
ed6744c0-3a08-4f06-9033-02117306fa64
2011-06-28 17:40:24.581 CEST
579c7ee7-5f5c-4b1c-94a3-976adab1c698
2011-06-28 17:48:49.111 CEST
c017b2b6-732e-43c1-a7a4-95b3fff412af
2011-06-28 17:50:35.966 CEST
edc41ea3-7bbf-4400-a2ae-febece2b86fa
2011-06-28 17:10:47.704 CEST
af2ff9cb-60b6-468a-83b2-6aece6989af1
2011-06-28 17:47:20.660 CEST
387e5f1d-358b-4d6d-9da8-5771882aa5be
2011-06-28 16:43:33.254 CEST
d4d1edfb-f75c-4461-8c20-142394564284
2011-06-28 16:04:07.550 CEST
0dd4ad4c-347e-4a3a-b50b-c00551c4b843
2011-06-28 16:36:38.961 CEST
prismWebservicemodel00
text/x-taverna-web-url
2011-06-28 16:16:49.333 CEST
text/plain
2011-06-28 16:16:49.333 CEST
PRISM model file content.
Reference: http://www.prismmodelchecker.org/manual/ThePRISMLanguage/PRISMLanguageFiles
Example value:
// Enzymatic reaction model
ctmc
// Reaction rates constants
const double k1 = 0.184;
const double k2 = 0.016;
const double k3 = 0.211;
// Species s (Substrate)
const int s_MAX;
module s
s : [0..s_MAX] init s_MAX;
// r1 (ES-complex association)
[r1] s > 0 -> (s'=s-1);
// r2 (ES-complex dissociation)
[r2] s <= s_MAX-1 -> (s'=s+1);
endmodule
// Species e (Enzyme)
const int e_MAX;
module e
e : [0..e_MAX] init e_MAX;
// r1 (ES-complex association)
[r1] e > 0 -> (e'=e-1);
// r2 (ES-complex dissociation)
[r2] e <= e_MAX-1 -> (e'=e+1);
// r3 (Product creation)
[r3] e <= e_MAX-1 -> (e'=e+1);
endmodule
// Species es (ES-complex)
const int es_MAX = min(s_MAX, e_MAX);
module es
es : [0..es_MAX] init 0;
// r1 (ES-complex association)
[r1] es <= es_MAX-1 -> (es'=es+1);
// r2 (ES-complex dissociation)
[r2] es > 0 -> (es'=es-1);
// r3 (Product creation)
[r3] es > 0 -> (es'=es-1);
endmodule
// Species p (Product)
const int p_MAX = s_MAX;
module p
p : [0..p_MAX] init 0;
// r3 (Product creation)
[r3] p <= p_MAX-1 -> (p'=p+1);
endmodule
// Reaction rates
module reaction_rates
// r1 (ES-complex association)
[r1] (k1*s*e) > 0 -> (k1*s*e) : true;
// r2 (ES-complex dissociation)
[r2] (k2*es) > 0 -> (k2*es) : true;
// r3 (Product creation)
[r3] (k3*es) > 0 -> (k3*es) : true;
endmodule
// A expected number of enzyme-substrate complex association reactions.
rewards "r1"
[r1] true : 1;
endrewards
2011-06-28 16:16:49.333 CEST
properties00
text/x-taverna-web-url
2011-06-28 16:16:49.333 CEST
PRISM properties file content.
Reference:
http://www.prismmodelchecker.org/manual/PropertySpecification/PropertiesFiles
Example value:
// How many times on average a enzyme-substrate complex association reaction have to occure before the amount of product reaches 50% of it's maximum? Corresponds to EC50 coefficient.
// Attention: for this formula to make sense, the maximum amount of product must be known and set to the appropriate value; in this particular case it means that p_MAX must be equal to sum of initial amounts of all species, except of enzyme e.
R{"r1"}=? [ F (p >= 0.5 * p_MAX) ]
2011-06-28 16:16:49.333 CEST
text/plain
2011-06-28 16:16:49.333 CEST
constants00
Optional constants and their values in the format of PRISM '-const' switch, i.e. comma separated definitons of constants: name=start:[step:]stop, where step is optional and by default equal to 1.
Reference:
http://www.prismmodelchecker.org/manual/RunningPRISM/Experiments
Example value:
e_MAX=1:2:15,s_MAX=1:10
2011-06-28 16:16:49.333 CEST
text/plain
2011-06-28 16:16:49.333 CEST
resultsXml
text/xml
2011-06-28 16:16:49.334 CEST
setConstantCompactXmlListinput0output11net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
input
0
'text/plain'
1
output
1
l('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.InvokeprismParamsCompactXMLproperties0model0constantCompact1output00net.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="prismParamsCompact" name="prismParamsCompact" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/wsdl}prismParamsCompact"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="model" qname=">prismParamsCompact>model" /><s:basetype optional="false" unbounded="false" typename="string" name="properties" qname=">prismParamsCompact>properties" /><s:arraytype optional="true" unbounded="true" wrapped="false" typename="FiniteValues" name="constantCompact" qname=">prismParamsCompact>constantCompact"><s:elementtype><s:complextype optional="false" unbounded="false" typename="FiniteValues" name="" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/wsdl}FiniteValues"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="name" qname="FiniteValues>name" /><s:arraytype optional="false" unbounded="true" wrapped="false" typename="decimal" name="value" qname="FiniteValues>value"><s:elementtype><s:basetype optional="false" unbounded="false" typename="decimal" name="" qname="{http://www.w3.org/2001/XMLSchema}decimal" /></s:elementtype></s:arraytype></s:elements></s:complextype></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions>
java.lang.String
true
model
0
'text/plain'
java.lang.String
true
properties
0
'text/plain'
java.lang.String
true
constantCompact
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.InvokeprismprismParamsCompact0prismResult00attachmentList11net.sf.taverna.t2.activitieswsdl-activity1.2net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://bioputer.mimuw.edu.pl/tav4sb/services/wsdl
prism
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.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
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net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeprismResultXMLinput0result11net.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="prismResult" name="prismResult" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/prism}prismResult"><s:elements><s:arraytype optional="true" unbounded="true" wrapped="false" typename="ResultValue" name="result" qname=">prismResult>result"><s:elementtype><s:complextype optional="false" unbounded="false" typename="ResultValue" name="" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/prism}ResultValue"><s:elements><s:arraytype optional="true" unbounded="true" wrapped="false" typename="FiniteValue" name="constant" qname="ResultValue>constant"><s:elementtype><s:basetype optional="false" unbounded="false" typename="string" name="FiniteValue" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/prism}FiniteValue" /></s:elementtype></s:arraytype><s:arraytype optional="true" unbounded="true" wrapped="false" typename="Value" name="property" qname="ResultValue>property"><s:elementtype><s:basetype optional="false" unbounded="false" typename="double" name="Value" qname="{http://bioputer.mimuw.edu.pl/tav4sb/services/xsd/prism}Value" /></s:elementtype></s:arraytype><s:basetype optional="true" unbounded="false" typename="string" name="error" qname="ResultValue>error" /></s:elements></s:complextype></s:elementtype></s:arraytype></s:elements></s:complextype></s:extensions>
java.lang.String
true
input
0
'text/xml'
1
result
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l('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
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0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_string_list_to_stringstringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.2net.sf.taverna.t2.activities.localworker.LocalworkerActivity
org.embl.ebi.escience.scuflworkers.java.StringListMerge
workflow
java.lang.String
true
stringlist
1
l('text/plain')
java.lang.String
true
seperator
0
'text/plain'
0
concatenated
0
'text/plain'
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
0
0
0
net.sf.taverna.t2.coreworkflowmodel-impl1.2net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokewrapWithResultsTagstr0wrapped00net.sf.taverna.t2.activitiesbeanshell-activity1.2net.sf.taverna.t2.activities.beanshell.BeanshellActivity
workflow
java.lang.String
true
str
0
'text/plain'
java.lang.String
true
name
0
'text/plain'
0
wrapped
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.InvokesetConstantCompactXmlListinputprismParamsCompactXMLpropertiesprismParamsCompactXMLmodelprismParamsCompactXMLconstantCompactprismprismParamsCompactprismResultXMLinputMerge_string_list_to_stringstringlistwrapWithResultsTagstrresultsXml
df40a47a-99b3-41fa-979e-72a66226127d
2011-06-28 16:17:51.996 CEST
Mikołaj Rybiński
2011-06-28 16:16:49.379 CEST
prism Web service
2011-06-28 16:16:49.379 CEST
PRISM model checking (http://www.prismmodelchecker.org/manual/RunningPRISM/ModelChecking). The '-fixdl' switch is used, which means that all deadlock states in model are fixed by addition of self-loops.
2011-06-28 16:16:49.379 CEST