Location: semantic-annotation @ ade7933153a7 / weinstein_1995.sedml

Author:
AnandR <a.rampadarath@auckland.ac.nz>
Date:
2019-04-05 14:25:01+13:00
Desc:
Added some semgen annotated models (AnandR)
Permanent Source URI:
https://models.physiomeproject.org/workspace/584/rawfile/ade7933153a72bb89e0b02d75db92d6e4be285f5/weinstein_1995.sedml

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            <algorithm kisaoID="KISAO:0000019">
                <listOfAlgorithmParameters>
                    <algorithmParameter kisaoID="KISAO:0000211" value="1e-7"/>
                    <algorithmParameter kisaoID="KISAO:0000475" value="BDF"/>
                    <algorithmParameter kisaoID="KISAO:0000481" value="true"/>
                    <algorithmParameter kisaoID="KISAO:0000476" value="Newton"/>
                    <algorithmParameter kisaoID="KISAO:0000477" value="Dense"/>
                    <algorithmParameter kisaoID="KISAO:0000480" value="0"/>
                    <algorithmParameter kisaoID="KISAO:0000415" value="500"/>
                    <algorithmParameter kisaoID="KISAO:0000467" value="0"/>
                    <algorithmParameter kisaoID="KISAO:0000478" value="Banded"/>
                    <algorithmParameter kisaoID="KISAO:0000209" value="1e-7"/>
                    <algorithmParameter kisaoID="KISAO:0000479" value="0"/>
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            </algorithm>
        </uniformTimeCourse>
    </listOfSimulations>
    <listOfModels>
        <model id="model" language="urn:sedml:language:cellml.1_1" source="weinstein_1995.cellml"/>
    </listOfModels>
    <listOfTasks>
        <repeatedTask id="repeatedTask" range="once" resetModel="true">
            <listOfRanges>
                <vectorRange id="once">
                    <value> 1 </value>
                </vectorRange>
            </listOfRanges>
            <listOfSubTasks>
                <subTask order="1" task="task1"/>
            </listOfSubTasks>
        </repeatedTask>
        <task id="task1" modelReference="model" simulationReference="simulation1"/>
    </listOfTasks>
    <listOfDataGenerators>
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                  opby="http://identifiers.org/opb/OPB_00340" 
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                  chebi="http://purl.obolibrary.org/obo/CHEBI_29101" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol1Concentration" 
                  sparqlx="protocol1Time" 
                  time="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" 
                  ploty="undefined"/>
        <Protocol id="2" 
                  name="V vs I" 
                  opby="http://identifiers.org/opb/OPB_00318" 
                  opbx="http://identifiers.org/opb/OPB_00506" 
                  chebi="undefined" 
                  fma="http://purl.obolibrary.org/obo/FMA_84666" 
                  sparqly="protocol2Currrent" 
                  sparqlx="protocol2Potential" 
                  time="undefined" 
                  ploty="undefined"/>
        <Protocol id="3A" 
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                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_29101" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol3Flux" 
                  sparqlx="protocol1Concentration" 
                  time="undefined" 
                  ploty="plot (dimensionless)"/>
        <Protocol id="3B" 
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                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_29101" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol3Flux" 
                  sparqlx="protocol1Concentration" 
                  time="undefined" 
                  ploty="plot (dimensionless)"/>
        <Protocol id="4A" 
                  name="1/flux vs concentration 4A" 
                  opby="http://identifiers.org/opb/OPB_00593" 
                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_28938" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol3Flux" 
                  sparqlx="protocol4Concentration" 
                  time="undefined" 
                  ploty="plot (mM)"/>
        <Protocol id="4B" 
                  name="1/flux vs concentration 4B" 
                  opby="http://identifiers.org/opb/OPB_00593" 
                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_28938" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol3Flux" 
                  sparqlx="protocol4Concentration" 
                  time="undefined" 
                  ploty="plot (mM)"/>
        <Protocol id="2A" 
                  name="flux vs external pH 2A" 
                  opby="http://identifiers.org/opb/OPB_00593" 
                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_15378" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol3Flux" 
                  sparqlx="protocol2AConcentration" 
                  time="undefined" 
                  ploty="plot (dimensionless)"/>
        <Protocol id="2B" 
                  name="1/flux vs concentration 2B" 
                  opby="http://identifiers.org/opb/OPB_00593" 
                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_15378" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
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                  sparqlx="protocol2AConcentration" 
                  time="undefined" 
                  ploty="plot (dimensionless)"/>
        <Protocol id="5A" 
                  name="flux vs concentration 5A" 
                  opby="http://identifiers.org/opb/OPB_00593" 
                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_29101" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol3Flux" 
                  sparqlx="protocol1Concentration" 
                  time="undefined" 
                  ploty="plot (dimensionless)"/>
        <Protocol id="5B" 
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                  opby="http://identifiers.org/opb/OPB_00593" 
                  opbx="http://identifiers.org/opb/OPB_00340" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_29101" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol3Flux" 
                  sparqlx="protocol1Concentration" 
                  time="undefined" 
                  ploty="plot (dimensionless)"/>
        <Protocol id="experimental" 
                  name="experimental" 
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                  opbx="http://identifiers.org/opb/OPB_01023" 
                  chebi="http://purl.obolibrary.org/obo/CHEBI_29101" 
                  fma="http://purl.obolibrary.org/obo/FMA_74550" 
                  sparqly="protocol1Concentration" 
                  sparqlx="protocol1Time" 
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                  ploty="experimental"/>
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            </listOfVariables>
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                <ci> xVariable1_1 </ci>
            </math>
        </dataGenerator>
        <dataGenerator id="yDataGenerator1_1">
            <listOfVariables>
                <variable id="yVariable1_1" target="/cellml:model/cellml:component[@name='Concentrations']/cellml:variable[@name='C_ext_Na']" taskReference="repeatedTask"/>
            </listOfVariables>
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                <ci> yVariable1_1 </ci>
            </math>
        </dataGenerator>
    </listOfDataGenerators>
    <listOfOutputs>
        <plot2D id="plot1">
            <annotation>
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                    <fontSize>10</fontSize>
                    <foregroundColor>#000000</foregroundColor>
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                        <foregroundColor>#000000</foregroundColor>
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                        <title/>
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                        <logarithmicScale>false</logarithmicScale>
                        <title/>
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                    <zoomRegion>
                        <style>solid</style>
                        <width>1</width>
                        <color>#b0800000</color>
                        <fontColor>#ffffff</fontColor>
                        <filled>true</filled>
                        <fillColor>#30ffff00</fillColor>
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</sedML>