- Author:
- Soroush Safaei <ssaf006@aucklanduni.ac.nz>
- Date:
- 2018-06-17 16:19:11+12:00
- Desc:
- adding sedml
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/483/rawfile/bc2af7007f2aa02c56f59766b9550e8a81afc138/BondGraph/WholeBody.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="30000" outputEndTime="30000" outputStartTime="0">
<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"/>
</listOfAlgorithmParameters>
</algorithm>
</uniformTimeCourse>
</listOfSimulations>
<listOfModels>
<model id="model" language="urn:sedml:language:cellml.1_1" source="WholeBody.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='environment']/cellml:variable[@name='time']" 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='q_G_sto1']" 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='environment']/cellml:variable[@name='time']" 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='q_G_sto2']" 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='environment']/cellml:variable[@name='time']" 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='q_G_gut']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable1_3 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator1_4">
<listOfVariables>
<variable id="xVariable1_4" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable1_4 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator1_4">
<listOfVariables>
<variable id="yVariable1_4" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q_G_plasma']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable1_4 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator1_5">
<listOfVariables>
<variable id="xVariable1_5" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable1_5 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator1_5">
<listOfVariables>
<variable id="yVariable1_5" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q_G_tissue']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable1_5 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator2_1">
<listOfVariables>
<variable id="xVariable2_1" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" 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='q_I_liver']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable2_1 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator2_2">
<listOfVariables>
<variable id="xVariable2_2" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable2_2 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator2_2">
<listOfVariables>
<variable id="yVariable2_2" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q_I_portalVein']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable2_2 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator2_3">
<listOfVariables>
<variable id="xVariable2_3" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable2_3 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator2_3">
<listOfVariables>
<variable id="yVariable2_3" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q_I_plasma']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable2_3 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator2_4">
<listOfVariables>
<variable id="xVariable2_4" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable2_4 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator2_4">
<listOfVariables>
<variable id="yVariable2_4" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='q_I_interstitium']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable2_4 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator3_1">
<listOfVariables>
<variable id="xVariable3_1" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" 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='v_I_hepaticExtraction']" 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='environment']/cellml:variable[@name='time']" 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='v_I_interstitium']" 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='environment']/cellml:variable[@name='time']" 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='v_I_periphery']" 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='environment']/cellml:variable[@name='time']" 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='v_I_plasma']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable3_4 </ci>
</math>
</dataGenerator>
<dataGenerator id="xDataGenerator3_5">
<listOfVariables>
<variable id="xVariable3_5" target="/cellml:model/cellml:component[@name='environment']/cellml:variable[@name='time']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> xVariable3_5 </ci>
</math>
</dataGenerator>
<dataGenerator id="yDataGenerator3_5">
<listOfVariables>
<variable id="yVariable3_5" target="/cellml:model/cellml:component[@name='state']/cellml:variable[@name='v_I_secretion']" taskReference="repeatedTask"/>
</listOfVariables>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<ci> yVariable3_5 </ci>
</math>
</dataGenerator>
</listOfDataGenerators>
<listOfOutputs>
<plot2D id="plot1">
<annotation>
<properties xmlns="http://www.opencor.ws/">
<backgroundColor>#ffffff</backgroundColor>
<fontSize>10</fontSize>
<foregroundColor>#000000</foregroundColor>
<height>1</height>
<gridLines>
<style>dot</style>
<width>1</width>
<color>#a0a0a4</color>
</gridLines>
<legend>true</legend>
<pointCoordinates>
<style>dash</style>
<width>1</width>
<color>#b0008080</color>
<fontColor>#ffffff</fontColor>
</pointCoordinates>
<surroundingArea>
<backgroundColor>#ececec</backgroundColor>
<foregroundColor>#000000</foregroundColor>
</surroundingArea>
<title/>
<xAxis>
<logarithmicScale>false</logarithmicScale>
<title/>
</xAxis>
<yAxis>
<logarithmicScale>false</logarithmicScale>
<title/>
</yAxis>
<zoomRegion>
<style>solid</style>
<width>1</width>
<color>#b0800000</color>
<fontColor>#ffffff</fontColor>
<filled>true</filled>
<fillColor>#30ffff00</fillColor>
</zoomRegion>
</properties>
</annotation>
<listOfCurves>
<curve id="curve1_1" logX="false" logY="false" xDataReference="xDataGenerator1_1" yDataReference="yDataGenerator1_1">
<annotation>
<properties xmlns="http://www.opencor.ws/">
<selected>true</selected>
<title>q_G_sto1</title>
<line>
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<color>#0072bd</color>
</line>
<symbol>
<style>none</style>
<size>8</size>
<color>#0072bd</color>
<filled>true</filled>
<fillColor>#ffffff</fillColor>
</symbol>
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</annotation>
</curve>
<curve id="curve1_2" logX="false" logY="false" xDataReference="xDataGenerator1_2" yDataReference="yDataGenerator1_2">
<annotation>
<properties xmlns="http://www.opencor.ws/">
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<title>q_G_sto2</title>
<line>
<style>solid</style>
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<color>#d95319</color>
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<symbol>
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<size>8</size>
<color>#d95319</color>
<filled>true</filled>
<fillColor>#ffffff</fillColor>
</symbol>
</properties>
</annotation>
</curve>
<curve id="curve1_3" logX="false" logY="false" xDataReference="xDataGenerator1_3" yDataReference="yDataGenerator1_3">
<annotation>
<properties xmlns="http://www.opencor.ws/">
<selected>true</selected>
<title>q_G_gut</title>
<line>
<style>solid</style>
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<color>#edb120</color>
</line>
<symbol>
<style>none</style>
<size>8</size>
<color>#edb120</color>
<filled>true</filled>
<fillColor>#ffffff</fillColor>
</symbol>
</properties>
</annotation>
</curve>
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<annotation>
<properties xmlns="http://www.opencor.ws/">
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<symbol>
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<size>8</size>
<color>#7e2f8e</color>
<filled>true</filled>
<fillColor>#ffffff</fillColor>
</symbol>
</properties>
</annotation>
</curve>
<curve id="curve1_5" logX="false" logY="false" xDataReference="xDataGenerator1_5" yDataReference="yDataGenerator1_5">
<annotation>
<properties xmlns="http://www.opencor.ws/">
<selected>true</selected>
<title>q_G_tissue</title>
<line>
<style>solid</style>
<width>2</width>
<color>#77ac30</color>
</line>
<symbol>
<style>none</style>
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<color>#77ac30</color>
<filled>true</filled>
<fillColor>#ffffff</fillColor>
</symbol>
</properties>
</annotation>
</curve>
</listOfCurves>
</plot2D>
<plot2D id="plot2">
<annotation>
<properties xmlns="http://www.opencor.ws/">
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<foregroundColor>#000000</foregroundColor>
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<gridLines>
<style>dot</style>
<width>1</width>
<color>#a0a0a4</color>
</gridLines>
<legend>true</legend>
<pointCoordinates>
<style>dash</style>
<width>1</width>
<color>#b0008080</color>
<fontColor>#ffffff</fontColor>
</pointCoordinates>
<surroundingArea>
<backgroundColor>#ececec</backgroundColor>
<foregroundColor>#000000</foregroundColor>
</surroundingArea>
<title/>
<xAxis>
<logarithmicScale>false</logarithmicScale>
<title/>
</xAxis>
<yAxis>
<logarithmicScale>false</logarithmicScale>
<title/>
</yAxis>
<zoomRegion>
<style>solid</style>
<width>1</width>
<color>#b0800000</color>
<fontColor>#ffffff</fontColor>
<filled>true</filled>
<fillColor>#30ffff00</fillColor>
</zoomRegion>
</properties>
</annotation>
<listOfCurves>
<curve id="curve2_1" logX="false" logY="false" xDataReference="xDataGenerator2_1" yDataReference="yDataGenerator2_1">
<annotation>
<properties xmlns="http://www.opencor.ws/">
<selected>true</selected>
<title>q_I_liver</title>
<line>
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<width>2</width>
<color>#0072bd</color>
</line>
<symbol>
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<size>8</size>
<color>#0072bd</color>
<filled>true</filled>
<fillColor>#ffffff</fillColor>
</symbol>
</properties>
</annotation>
</curve>
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<annotation>
<properties xmlns="http://www.opencor.ws/">
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<title>q_I_portalVein</title>
<line>
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<color>#d95319</color>
</line>
<symbol>
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<symbol>
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<symbol>
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</curve>
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</plot2D>
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<properties xmlns="http://www.opencor.ws/">
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<foregroundColor>#000000</foregroundColor>
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<gridLines>
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<color>#a0a0a4</color>
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<pointCoordinates>
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<width>1</width>
<color>#b0008080</color>
<fontColor>#ffffff</fontColor>
</pointCoordinates>
<surroundingArea>
<backgroundColor>#ececec</backgroundColor>
<foregroundColor>#000000</foregroundColor>
</surroundingArea>
<title/>
<xAxis>
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<title/>
</xAxis>
<yAxis>
<logarithmicScale>false</logarithmicScale>
<title/>
</yAxis>
<zoomRegion>
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<width>1</width>
<color>#b0800000</color>
<fontColor>#ffffff</fontColor>
<filled>true</filled>
<fillColor>#30ffff00</fillColor>
</zoomRegion>
</properties>
</annotation>
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</line>
<symbol>
<style>none</style>
<size>8</size>
<color>#77ac30</color>
<filled>true</filled>
<fillColor>#ffffff</fillColor>
</symbol>
</properties>
</annotation>
</curve>
</listOfCurves>
</plot2D>
</listOfOutputs>
</sedML>
