- Author:
- Soroush Safaei <ssaf006@aucklanduni.ac.nz>
- Date:
- 2018-06-21 17:32:55+12:00
- Desc:
- adding new model
- Permanent Source URI:
- https://models.fieldml.org/workspace/43b/rawfile/407bbf87831b4f602c138839d0fa7874993b5ff4/BG Tutorial Biochemical Systems/Biochemical 2.sedml
<?xml version='1.0' encoding='UTF-8'?>
<sedML level="1" version="2" xmlns="http://sed-ml.org/sed-ml/level1/version2" xmlns:cellml="http://www.cellml.org/cellml/1.1#">
<listOfSimulations>
<uniformTimeCourse id="simulation1" initialTime="0" numberOfPoints="500" outputEndTime="5" outputStartTime="0">
<algorithm kisaoID="KISAO:0000019">
<listOfAlgorithmParameters>
<algorithmParameter kisaoID="KISAO:0000211" value="9.9999999999999995e-08"/>
<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="9.9999999999999995e-08"/>
<algorithmParameter kisaoID="KISAO:0000479" value="0"/>
</listOfAlgorithmParameters>
</algorithm>
</uniformTimeCourse>
</listOfSimulations>
<listOfModels>
<model id="model" language="urn:sedml:language:cellml.1_1" source="Biochemical 2.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>
<dataGenerator id="xDataGenerator1_1">
<listOfVariables>
<variable id="xVariable1_1" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable1_1 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator1_1">
<listOfVariables>
<variable id="yVariable1_1" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q1']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable1_1 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator1_2">
<listOfVariables>
<variable id="xVariable1_2" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable1_2 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator1_2">
<listOfVariables>
<variable id="yVariable1_2" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q2']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable1_2 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator1_3">
<listOfVariables>
<variable id="xVariable1_3" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable1_3 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator1_3">
<listOfVariables>
<variable id="yVariable1_3" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q3']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable1_3 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator2_1">
<listOfVariables>
<variable id="xVariable2_1" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable2_1 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator2_1">
<listOfVariables>
<variable id="yVariable2_1" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='v1']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable2_1 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator3_1">
<listOfVariables>
<variable id="xVariable3_1" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable3_1 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator3_1">
<listOfVariables>
<variable id="yVariable3_1" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='u1']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable3_1 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator3_2">
<listOfVariables>
<variable id="xVariable3_2" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable3_2 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator3_2">
<listOfVariables>
<variable id="yVariable3_2" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='u2']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable3_2 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator3_3">
<listOfVariables>
<variable id="xVariable3_3" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable3_3 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator3_3">
<listOfVariables>
<variable id="yVariable3_3" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='u3']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable3_3 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator3_4">
<listOfVariables>
<variable id="xVariable3_4" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='t']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable3_4 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator3_4">
<listOfVariables>
<variable id="yVariable3_4" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='u4']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable3_4 </ci>
</math>
</dataGenerator>
</listOfDataGenerators>
<listOfOutputs>
<plot2D id="plot1">
<listOfCurves>
<curve id="curve1_1" logX="false" logY="false" xDataReference="xDataGenerator1_1" yDataReference="yDataGenerator1_1"/>
<curve id="curve1_2" logX="false" logY="false" xDataReference="xDataGenerator1_2" yDataReference="yDataGenerator1_2"/>
<curve id="curve1_3" logX="false" logY="false" xDataReference="xDataGenerator1_3" yDataReference="yDataGenerator1_3"/>
</listOfCurves>
</plot2D>
<plot2D id="plot2">
<listOfCurves>
<curve id="curve2_1" logX="false" logY="false" xDataReference="xDataGenerator2_1" yDataReference="yDataGenerator2_1"/>
</listOfCurves>
</plot2D>
<plot2D id="plot3">
<listOfCurves>
<curve id="curve3_1" logX="false" logY="false" xDataReference="xDataGenerator3_1" yDataReference="yDataGenerator3_1"/>
<curve id="curve3_2" logX="false" logY="false" xDataReference="xDataGenerator3_2" yDataReference="yDataGenerator3_2"/>
<curve id="curve3_3" logX="false" logY="false" xDataReference="xDataGenerator3_3" yDataReference="yDataGenerator3_3"/>
<curve id="curve3_4" logX="false" logY="false" xDataReference="xDataGenerator3_4" yDataReference="yDataGenerator3_4"/>
</listOfCurves>
</plot2D>
</listOfOutputs>
</sedML>
