CoRC / data /inst /extdata /test_paramest.cps
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<?xml version="1.0" encoding="UTF-8"?>
<!-- generated with COPASI 4.20 (Build 158) (http://www.copasi.org) at 2017-09-17 18:52:40 UTC -->
<?oxygen RNGSchema="http://www.copasi.org/static/schema/CopasiML.rng" type="xml"?>
<COPASI xmlns="http://www.copasi.org/static/schema" versionMajor="4" versionMinor="20" versionDevel="158" copasiSourcesModified="0">
<ListOfFunctions>
<Function key="Function_6" name="Constant flux (irreversible)" type="PreDefined" reversible="false">
<Expression>
v
</Expression>
<ListOfParameterDescriptions>
<ParameterDescription key="FunctionParameter_49" name="v" order="0" role="constant"/>
</ListOfParameterDescriptions>
</Function>
<Function key="Function_13" name="Mass action (irreversible)" type="MassAction" reversible="false">
<MiriamAnnotation>
<rdf:RDF xmlns:CopasiMT="http://www.copasi.org/RDF/MiriamTerms#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Function_13">
<CopasiMT:is rdf:resource="urn:miriam:obo.sbo:SBO:0000041" />
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<Comment>
<body xmlns="http://www.w3.org/1999/xhtml">
<b>Mass action rate law for first order irreversible reactions</b>
<p>
Reaction scheme where the products are created from the reactants and the change of a product quantity is proportional to the product of reactant activities. The reaction scheme does not include any reverse process that creates the reactants from the products. The change of a product quantity is proportional to the quantity of one reactant.
</p>
</body>
</Comment>
<Expression>
k1*PRODUCT&lt;substrate_i>
</Expression>
<ListOfParameterDescriptions>
<ParameterDescription key="FunctionParameter_81" name="k1" order="0" role="constant"/>
<ParameterDescription key="FunctionParameter_79" name="substrate" order="1" role="substrate"/>
</ListOfParameterDescriptions>
</Function>
</ListOfFunctions>
<Model key="Model_1" name="Simple test for parameter estimation in conjunction with simple_exp_data.txt." simulationType="time" timeUnit="s" volumeUnit="ml" areaUnit="m²" lengthUnit="m" quantityUnit="mmol" type="deterministic" avogadroConstant="6.0221417899999999e+023">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Model_1">
<dcterms:created>
<rdf:Description>
<dcterms:W3CDTF>2013-07-31T10:49:40Z</dcterms:W3CDTF>
</rdf:Description>
</dcterms:created>
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfCompartments>
<Compartment key="Compartment_0" name="compartment" simulationType="fixed" dimensionality="3">
</Compartment>
</ListOfCompartments>
<ListOfMetabolites>
<Metabolite key="Metabolite_0" name="A" simulationType="reactions" compartment="Compartment_0">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_0">
<dcterms:created>
<rdf:Description>
<dcterms:W3CDTF>2013-07-31T10:55:14Z</dcterms:W3CDTF>
</rdf:Description>
</dcterms:created>
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_1" name="B" simulationType="reactions" compartment="Compartment_0">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_1">
<dcterms:created>
<rdf:Description>
<dcterms:W3CDTF>2013-07-31T10:55:18Z</dcterms:W3CDTF>
</rdf:Description>
</dcterms:created>
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
</ListOfMetabolites>
<ListOfReactions>
<Reaction key="Reaction_0" name="reaction_1" reversible="false" fast="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_0">
<dcterms:created>
<rdf:Description>
<dcterms:W3CDTF>2013-07-31T10:54:29Z</dcterms:W3CDTF>
</rdf:Description>
</dcterms:created>
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_0" stoichiometry="1"/>
</ListOfProducts>
<ListOfConstants>
<Constant key="Parameter_4953" name="v" value="1"/>
</ListOfConstants>
<KineticLaw function="Function_6" unitType="Default" scalingCompartment="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_49">
<SourceParameter reference="Parameter_4953"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_1" name="reaction_2" reversible="false" fast="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_1">
<dcterms:created>
<rdf:Description>
<dcterms:W3CDTF>2013-07-31T10:54:52Z</dcterms:W3CDTF>
</rdf:Description>
</dcterms:created>
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_0" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfProducts>
<Product metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfProducts>
<ListOfConstants>
<Constant key="Parameter_4952" name="k1" value="0.25"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Parameter_4952"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_79">
<SourceParameter reference="Metabolite_0"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_2" name="reaction_3" reversible="false" fast="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_2">
<dcterms:created>
<rdf:Description>
<dcterms:W3CDTF>2013-07-31T10:56:59Z</dcterms:W3CDTF>
</rdf:Description>
</dcterms:created>
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_4951" name="k1" value="0.1"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Parameter_4951"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_79">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
</ListOfReactions>
<ListOfModelParameterSets activeSet="ModelParameterSet_1">
<ModelParameterSet key="ModelParameterSet_1" name="Initial State">
<ModelParameterGroup cn="String=Initial Time" type="Group">
<ModelParameter cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt." value="0" type="Model" simulationType="time"/>
</ModelParameterGroup>
<ModelParameterGroup cn="String=Initial Compartment Sizes" type="Group">
<ModelParameter cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment]" value="1" type="Compartment" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="String=Initial Species Values" type="Group">
<ModelParameter cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment],Vector=Metabolites[A]" value="602214179" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment],Vector=Metabolites[B]" value="602214179" type="Species" simulationType="reactions"/>
</ModelParameterGroup>
<ModelParameterGroup cn="String=Initial Global Quantities" type="Group">
</ModelParameterGroup>
<ModelParameterGroup cn="String=Kinetic Parameters" type="Group">
<ModelParameterGroup cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_1]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_1],ParameterGroup=Parameters,Parameter=v" value="1" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_2]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_2],ParameterGroup=Parameters,Parameter=k1" value="0.25" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_3]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_3],ParameterGroup=Parameters,Parameter=k1" value="0.10000000000000001" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
</ModelParameterGroup>
</ModelParameterSet>
</ListOfModelParameterSets>
<StateTemplate>
<StateTemplateVariable objectReference="Model_1"/>
<StateTemplateVariable objectReference="Metabolite_0"/>
<StateTemplateVariable objectReference="Metabolite_1"/>
<StateTemplateVariable objectReference="Compartment_0"/>
</StateTemplate>
<InitialState type="initialState">
0 602214179 602214179 1
</InitialState>
</Model>
<ListOfTasks>
<Task key="Task_14" name="Steady-State" type="steadyState" scheduled="false" updateModel="false">
<Report reference="Report_9" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="JacobianRequested" type="bool" value="1"/>
<Parameter name="StabilityAnalysisRequested" type="bool" value="1"/>
</Problem>
<Method name="Enhanced Newton" type="EnhancedNewton">
<Parameter name="Resolution" type="unsignedFloat" value="1.0000000000000001e-009"/>
<Parameter name="Derivation Factor" type="unsignedFloat" value="0.001"/>
<Parameter name="Use Newton" type="bool" value="1"/>
<Parameter name="Use Integration" type="bool" value="1"/>
<Parameter name="Use Back Integration" type="bool" value="1"/>
<Parameter name="Accept Negative Concentrations" type="bool" value="0"/>
<Parameter name="Iteration Limit" type="unsignedInteger" value="50"/>
<Parameter name="Maximum duration for forward integration" type="unsignedFloat" value="1000000000"/>
<Parameter name="Maximum duration for backward integration" type="unsignedFloat" value="1000000"/>
</Method>
</Task>
<Task key="Task_15" name="Time-Course" type="timeCourse" scheduled="false" updateModel="false">
<Problem>
<Parameter name="AutomaticStepSize" type="bool" value="0"/>
<Parameter name="StepNumber" type="unsignedInteger" value="1000"/>
<Parameter name="StepSize" type="float" value="0.10000000000000001"/>
<Parameter name="Duration" type="float" value="100"/>
<Parameter name="TimeSeriesRequested" type="bool" value="1"/>
<Parameter name="OutputStartTime" type="float" value="0"/>
<Parameter name="Output Event" type="bool" value="0"/>
<Parameter name="Start in Steady State" type="bool" value="0"/>
<Parameter name="Continue on Simultaneous Events" type="bool" value="0"/>
</Problem>
<Method name="Deterministic (LSODA)" type="Deterministic(LSODA)">
<Parameter name="Integrate Reduced Model" type="bool" value="0"/>
<Parameter name="Relative Tolerance" type="unsignedFloat" value="9.9999999999999995e-007"/>
<Parameter name="Absolute Tolerance" type="unsignedFloat" value="9.9999999999999998e-013"/>
<Parameter name="Max Internal Steps" type="unsignedInteger" value="10000"/>
<Parameter name="Max Internal Step Size" type="unsignedFloat" value="0"/>
</Method>
</Task>
<Task key="Task_16" name="Scan" type="scan" scheduled="false" updateModel="false">
<Problem>
<Parameter name="Subtask" type="unsignedInteger" value="1"/>
<ParameterGroup name="ScanItems">
</ParameterGroup>
<Parameter name="Output in subtask" type="bool" value="1"/>
<Parameter name="Adjust initial conditions" type="bool" value="0"/>
</Problem>
<Method name="Scan Framework" type="ScanFramework">
</Method>
</Task>
<Task key="Task_17" name="Elementary Flux Modes" type="fluxMode" scheduled="false" updateModel="false">
<Report reference="Report_10" target="" append="1" confirmOverwrite="1"/>
<Problem>
</Problem>
<Method name="EFM Algorithm" type="EFMAlgorithm">
</Method>
</Task>
<Task key="Task_18" name="Optimization" type="optimization" scheduled="false" updateModel="false">
<Report reference="Report_11" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="Subtask" type="cn" value="CN=Root,Vector=TaskList[Steady-State]"/>
<ParameterText name="ObjectiveExpression" type="expression">
&lt;CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_2],Reference=Flux>
</ParameterText>
<Parameter name="Maximize" type="bool" value="0"/>
<Parameter name="Randomize Start Values" type="bool" value="0"/>
<Parameter name="Calculate Statistics" type="bool" value="1"/>
<ParameterGroup name="OptimizationItemList">
<ParameterGroup name="OptimizationItem">
<Parameter name="LowerBound" type="cn" value="1e-06"/>
<Parameter name="ObjectCN" type="cn" value="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_1],ParameterGroup=Parameters,Parameter=v,Reference=Value"/>
<Parameter name="StartValue" type="float" value="1"/>
<Parameter name="UpperBound" type="cn" value="1e+06"/>
</ParameterGroup>
<ParameterGroup name="OptimizationItem">
<Parameter name="LowerBound" type="cn" value="1e-06"/>
<Parameter name="ObjectCN" type="cn" value="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_3],ParameterGroup=Parameters,Parameter=k1,Reference=Value"/>
<Parameter name="StartValue" type="float" value="0.10000000000000001"/>
<Parameter name="UpperBound" type="cn" value="1e+06"/>
</ParameterGroup>
</ParameterGroup>
<ParameterGroup name="OptimizationConstraintList">
</ParameterGroup>
</Problem>
<Method name="Particle Swarm" type="ParticleSwarm">
<Parameter name="Iteration Limit" type="unsignedInteger" value="2000"/>
<Parameter name="Swarm Size" type="unsignedInteger" value="50"/>
<Parameter name="Std. Deviation" type="unsignedFloat" value="9.9999999999999995e-007"/>
<Parameter name="Random Number Generator" type="unsignedInteger" value="1"/>
<Parameter name="Seed" type="unsignedInteger" value="0"/>
</Method>
</Task>
<Task key="Task_19" name="Parameter Estimation" type="parameterFitting" scheduled="true" updateModel="false">
<Report reference="Report_12" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="Maximize" type="bool" value="0"/>
<Parameter name="Randomize Start Values" type="bool" value="0"/>
<Parameter name="Calculate Statistics" type="bool" value="1"/>
<ParameterGroup name="OptimizationItemList">
<ParameterGroup name="FitItem">
<ParameterGroup name="Affected Cross Validation Experiments">
</ParameterGroup>
<ParameterGroup name="Affected Experiments">
</ParameterGroup>
<Parameter name="LowerBound" type="cn" value="1e-06"/>
<Parameter name="ObjectCN" type="cn" value="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_1],ParameterGroup=Parameters,Parameter=v,Reference=Value"/>
<Parameter name="StartValue" type="float" value="1"/>
<Parameter name="UpperBound" type="cn" value="1e+06"/>
</ParameterGroup>
<ParameterGroup name="FitItem">
<ParameterGroup name="Affected Cross Validation Experiments">
</ParameterGroup>
<ParameterGroup name="Affected Experiments">
</ParameterGroup>
<Parameter name="LowerBound" type="cn" value="1e-06"/>
<Parameter name="ObjectCN" type="cn" value="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_2],ParameterGroup=Parameters,Parameter=k1,Reference=Value"/>
<Parameter name="StartValue" type="float" value="0.25"/>
<Parameter name="UpperBound" type="cn" value="1e+06"/>
</ParameterGroup>
<ParameterGroup name="FitItem">
<ParameterGroup name="Affected Cross Validation Experiments">
</ParameterGroup>
<ParameterGroup name="Affected Experiments">
</ParameterGroup>
<Parameter name="LowerBound" type="cn" value="1e-06"/>
<Parameter name="ObjectCN" type="cn" value="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Reactions[reaction_3],ParameterGroup=Parameters,Parameter=k1,Reference=Value"/>
<Parameter name="StartValue" type="float" value="0.10000000000000001"/>
<Parameter name="UpperBound" type="cn" value="1e+06"/>
</ParameterGroup>
</ParameterGroup>
<ParameterGroup name="OptimizationConstraintList">
</ParameterGroup>
<Parameter name="Steady-State" type="cn" value="CN=Root,Vector=TaskList[Steady-State]"/>
<Parameter name="Time-Course" type="cn" value="CN=Root,Vector=TaskList[Time-Course]"/>
<Parameter name="Create Parameter Sets" type="bool" value="0"/>
<ParameterGroup name="Experiment Set">
<ParameterGroup name="Experiment_1">
<Parameter name="Data is Row Oriented" type="bool" value="1"/>
<Parameter name="Experiment Type" type="unsignedInteger" value="1"/>
<Parameter name="File Name" type="file" value="test_paramest_exp_data.txt"/>
<Parameter name="First Row" type="unsignedInteger" value="1"/>
<Parameter name="Key" type="key" value="Experiment_0"/>
<Parameter name="Last Row" type="unsignedInteger" value="5"/>
<Parameter name="Normalize Weights per Experiment" type="bool" value="1"/>
<Parameter name="Number of Columns" type="unsignedInteger" value="3"/>
<ParameterGroup name="Object Map">
<ParameterGroup name="0">
<Parameter name="Role" type="unsignedInteger" value="3"/>
</ParameterGroup>
<ParameterGroup name="1">
<Parameter name="Object CN" type="cn" value="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment],Vector=Metabolites[A],Reference=Concentration"/>
<Parameter name="Role" type="unsignedInteger" value="2"/>
<Parameter name="Weight" type="unsignedFloat" value="1"/>
</ParameterGroup>
<ParameterGroup name="2">
<Parameter name="Object CN" type="cn" value="CN=Root,Model=Simple test for parameter estimation in conjunction with simple_exp_data.txt.,Vector=Compartments[compartment],Vector=Metabolites[B],Reference=Concentration"/>
<Parameter name="Role" type="unsignedInteger" value="2"/>
</ParameterGroup>
</ParameterGroup>
<Parameter name="Row containing Names" type="unsignedInteger" value="1"/>
<Parameter name="Separator" type="string" value="&#x09;"/>
<Parameter name="Weight Method" type="unsignedInteger" value="0"/>
</ParameterGroup>
</ParameterGroup>
<ParameterGroup name="Validation Set">
<Parameter name="Threshold" type="unsignedInteger" value="5"/>
<Parameter name="Weight" type="unsignedFloat" value="1"/>
</ParameterGroup>
</Problem>
<Method name="Levenberg - Marquardt" type="LevenbergMarquardt">
<Parameter name="Iteration Limit" type="unsignedInteger" value="2000"/>
<Parameter name="Tolerance" type="float" value="9.9999999999999995e-007"/>
</Method>
</Task>
<Task key="Task_20" name="Metabolic Control Analysis" type="metabolicControlAnalysis" scheduled="false" updateModel="false">
<Report reference="Report_13" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="Steady-State" type="key" value="Task_14"/>
</Problem>
<Method name="MCA Method (Reder)" type="MCAMethod(Reder)">
<Parameter name="Modulation Factor" type="unsignedFloat" value="1.0000000000000001e-009"/>
<Parameter name="Use Reder" type="bool" value="1"/>
<Parameter name="Use Smallbone" type="bool" value="1"/>
</Method>
</Task>
<Task key="Task_21" name="Lyapunov Exponents" type="lyapunovExponents" scheduled="false" updateModel="false">
<Report reference="Report_14" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="ExponentNumber" type="unsignedInteger" value="3"/>
<Parameter name="DivergenceRequested" type="bool" value="1"/>
<Parameter name="TransientTime" type="float" value="0"/>
</Problem>
<Method name="Wolf Method" type="WolfMethod">
<Parameter name="Orthonormalization Interval" type="unsignedFloat" value="1"/>
<Parameter name="Overall time" type="unsignedFloat" value="1000"/>
<Parameter name="Relative Tolerance" type="unsignedFloat" value="9.9999999999999995e-007"/>
<Parameter name="Absolute Tolerance" type="unsignedFloat" value="9.9999999999999998e-013"/>
<Parameter name="Max Internal Steps" type="unsignedInteger" value="10000"/>
</Method>
</Task>
<Task key="Task_22" name="Time Scale Separation Analysis" type="timeScaleSeparationAnalysis" scheduled="false" updateModel="false">
<Report reference="Report_15" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="StepNumber" type="unsignedInteger" value="100"/>
<Parameter name="StepSize" type="float" value="0.01"/>
<Parameter name="Duration" type="float" value="1"/>
<Parameter name="TimeSeriesRequested" type="bool" value="1"/>
<Parameter name="OutputStartTime" type="float" value="0"/>
</Problem>
<Method name="ILDM (LSODA,Deuflhard)" type="TimeScaleSeparation(ILDM,Modified)">
<Parameter name="Deuflhard Tolerance" type="unsignedFloat" value="9.9999999999999995e-007"/>
</Method>
</Task>
<Task key="Task_23" name="Sensitivities" type="sensitivities" scheduled="false" updateModel="false">
<Report reference="Report_16" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="SubtaskType" type="unsignedInteger" value="1"/>
<ParameterGroup name="TargetFunctions">
<Parameter name="SingleObject" type="cn" value=""/>
<Parameter name="ObjectListType" type="unsignedInteger" value="7"/>
</ParameterGroup>
<ParameterGroup name="ListOfVariables">
<ParameterGroup name="Variables">
<Parameter name="SingleObject" type="cn" value=""/>
<Parameter name="ObjectListType" type="unsignedInteger" value="41"/>
</ParameterGroup>
<ParameterGroup name="Variables">
<Parameter name="SingleObject" type="cn" value=""/>
<Parameter name="ObjectListType" type="unsignedInteger" value="0"/>
</ParameterGroup>
</ParameterGroup>
</Problem>
<Method name="Sensitivities Method" type="SensitivitiesMethod">
<Parameter name="Delta factor" type="unsignedFloat" value="0.001"/>
<Parameter name="Delta minimum" type="unsignedFloat" value="9.9999999999999998e-013"/>
</Method>
</Task>
<Task key="Task_24" name="Moieties" type="moieties" scheduled="false" updateModel="false">
<Problem>
</Problem>
<Method name="Householder Reduction" type="Householder">
</Method>
</Task>
<Task key="Task_25" name="Cross Section" type="crosssection" scheduled="false" updateModel="false">
<Problem>
<Parameter name="AutomaticStepSize" type="bool" value="0"/>
<Parameter name="StepNumber" type="unsignedInteger" value="100"/>
<Parameter name="StepSize" type="float" value="0.01"/>
<Parameter name="Duration" type="float" value="1"/>
<Parameter name="TimeSeriesRequested" type="bool" value="1"/>
<Parameter name="OutputStartTime" type="float" value="0"/>
<Parameter name="Output Event" type="bool" value="0"/>
<Parameter name="Start in Steady State" type="bool" value="0"/>
<Parameter name="LimitCrossings" type="bool" value="0"/>
<Parameter name="NumCrossingsLimit" type="unsignedInteger" value="0"/>
<Parameter name="LimitOutTime" type="bool" value="0"/>
<Parameter name="LimitOutCrossings" type="bool" value="0"/>
<Parameter name="PositiveDirection" type="bool" value="1"/>
<Parameter name="NumOutCrossingsLimit" type="unsignedInteger" value="0"/>
<Parameter name="LimitUntilConvergence" type="bool" value="0"/>
<Parameter name="ConvergenceTolerance" type="float" value="0"/>
<Parameter name="Threshold" type="float" value="0"/>
<Parameter name="DelayOutputUntilConvergence" type="bool" value="0"/>
<Parameter name="OutputConvergenceTolerance" type="float" value="0"/>
<ParameterText name="TriggerExpression" type="expression">
</ParameterText>
<Parameter name="SingleVariable" type="cn" value=""/>
<Parameter name="Continue on Simultaneous Events" type="bool" value="0"/>
</Problem>
<Method name="Deterministic (LSODA)" type="Deterministic(LSODA)">
<Parameter name="Integrate Reduced Model" type="bool" value="0"/>
<Parameter name="Relative Tolerance" type="unsignedFloat" value="9.9999999999999995e-007"/>
<Parameter name="Absolute Tolerance" type="unsignedFloat" value="9.9999999999999998e-013"/>
<Parameter name="Max Internal Steps" type="unsignedInteger" value="10000"/>
<Parameter name="Max Internal Step Size" type="unsignedFloat" value="0"/>
</Method>
</Task>
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