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Xmlfile for rdes #80

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c8848c5
eqivalent SBML files of genesis
hrani Mar 26, 2022
f1bf9b3
Added two more xml files
hrani Apr 6, 2022
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2,372 changes: 2,372 additions & 0 deletions tutorials/Rdesigneur/NN_mapk15.xml
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932 changes: 932 additions & 0 deletions tutorials/Rdesigneur/chem/CICRspineDend.xml
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802 changes: 802 additions & 0 deletions tutorials/Rdesigneur/chem/CICRwithConcChan.xml
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105 changes: 105 additions & 0 deletions tutorials/Rdesigneur/chem/CaOnly.xml
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<?xml version="1.0" encoding="UTF-8"?>
<sbml xmlns="http://www.sbml.org/sbml/level3/version1/core" xmlns:xhtml="http://www.w3.org/1999/xhtml" xmlns:moose="http://www.moose.ncbs.res.in" xmlns:groups="http://www.sbml.org/sbml/level3/version1/groups/version1" level="3" version="1" groups:required="false">
<model id="CaOnly" substanceUnits="substance" timeUnits="time" volumeUnits="volume" areaUnits="area" lengthUnits="length" extentUnits="substance">
<annotation>
<moose:ModelAnnotation>
<moose:runTime> 100.0 </moose:runTime>
<moose:solver> ee </moose:solver>
<moose:simdt>0.001 </moose:simdt>
<moose:plotdt> 0.1 </moose:plotdt>
<moose:plots/>
</moose:ModelAnnotation>
</annotation>
<listOfUnitDefinitions>
<unitDefinition id="volume">
<listOfUnits>
<unit kind="litre" exponent="1" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="substance">
<listOfUnits>
<unit kind="mole" exponent="1" scale="-3" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="length">
<listOfUnits>
<unit kind="metre" exponent="1" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="area">
<listOfUnits>
<unit kind="metre" exponent="2" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="time">
<listOfUnits>
<unit kind="second" exponent="1" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
</listOfUnitDefinitions>
<listOfCompartments>
<compartment id="kinetics_1248_0_" name="kinetics" spatialDimensions="3" size="3.1115e-15" units="volume" constant="true">
<annotation>
<moose:CompartmentAnnotation>
<moose:Mesh>CubeMesh</moose:Mesh>
<moose:isMembraneBound>False</moose:isMembraneBound>
</moose:CompartmentAnnotation>
</annotation>
</compartment>
<compartment id="compartment_1_1268_0_" name="compartment_1" spatialDimensions="3" size="1e-16" units="volume" constant="true">
<annotation>
<moose:CompartmentAnnotation>
<moose:Mesh>CubeMesh</moose:Mesh>
<moose:isMembraneBound>False</moose:isMembraneBound>
</moose:CompartmentAnnotation>
</annotation>
</compartment>
</listOfCompartments>
<listOfSpecies>
<species id="Ca_1257_0_" name="Ca" compartment="kinetics_1248_0_" initialConcentration="7.99989287053404e-05" substanceUnits="substance" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
<annotation>
<moose:ModelAnnotation>
<moose:xCord>1000.0</moose:xCord>
<moose:yCord>0.0</moose:yCord>
<moose:bgColor>23</moose:bgColor>
<moose:textColor>black</moose:textColor>
<moose:diffConstant>2e-11</moose:diffConstant>
<moose:motorConstant>0.0</moose:motorConstant>
</moose:ModelAnnotation>
</annotation>
</species>
<species id="Ca_1261_0_" name="Ca" compartment="compartment_1_1268_0_" initialConcentration="8e-05" substanceUnits="substance" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
<annotation>
<moose:ModelAnnotation>
<moose:xCord>0.0</moose:xCord>
<moose:yCord>800.0</moose:yCord>
<moose:bgColor>25</moose:bgColor>
<moose:textColor>yellow</moose:textColor>
<moose:diffConstant>2e-11</moose:diffConstant>
<moose:motorConstant>0.0</moose:motorConstant>
</moose:ModelAnnotation>
</annotation>
</species>
</listOfSpecies>
<groups:listOfGroups>
<groups:group groups:id="DEND_1255_0_" groups:name="DEND" groups:kind="collection">
<annotation>
<moose:GroupAnnotation>
<moose:Compartment>kinetics_1248_0_</moose:Compartment>
<moose:Parent>kinetics_1248_0_</moose:Parent>
<moose:bgColor>#FFA500</moose:bgColor>
</moose:GroupAnnotation>
</annotation>
</groups:group>
<groups:group groups:id="SPINE_1259_0_" groups:name="SPINE" groups:kind="collection">
<annotation>
<moose:GroupAnnotation>
<moose:Compartment>kinetics_1248_0_</moose:Compartment>
<moose:Parent>kinetics_1248_0_</moose:Parent>
<moose:bgColor>#FFFF00</moose:bgColor>
</moose:GroupAnnotation>
</annotation>
</groups:group>
</groups:listOfGroups>
</model>
</sbml>
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