- Author:
- David Nickerson <nickerso@users.sourceforge.net>
- Date:
- 2016-09-01 09:07:53+12:00
- Desc:
- correcting invalid interface declartion on time variable
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/242/rawfile/1a5fb711bfae01cd8a1793ae74ca10be3f05c2cb/experiments/multiple-stimulus.xml
<?xml version="1.0" encoding="iso-8859-1"?>
<model
name="single_stimulus"
cmeta:id="single_stimulus"
xmlns="http://www.cellml.org/cellml/1.1#"
xmlns:cellml="http://www.cellml.org/cellml/1.1#"
xmlns:cmeta="http://www.cellml.org/metadata/1.0#"
xmlns:xlink="http://www.w3.org/1999/xlink">
<rdf:RDF
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:cmeta="http://www.cellml.org/metadata/1.0#"
xmlns:bqs="http://www.cellml.org/bqs/1.0#"
xmlns:dc="http://purl.org/dc/elements/1.1/"
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#"
xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#">
<rdf:Description rdf:about="">
<dc:creator rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>Nickerson</vCard:Family>
<vCard:Given>David</vCard:Given>
</vCard:N>
<vCard:EMAIL rdf:parseType="Resource">
<rdf:value>d.nickerson@auckland.ac.nz</rdf:value>
<rdf:type rdf:resource="http://imc.org/vCard/3.0#internet"/>
</vCard:EMAIL>
<vCard:ORG rdf:parseType="Resource">
<vCard:Orgname>The University of Auckland</vCard:Orgname>
<vCard:Orgunit>Bioengineering Institute</vCard:Orgunit>
</vCard:ORG>
</dc:creator>
<dcterms:created rdf:parseType="Resource">
<dcterms:W3CDTF>2009-06-17</dcterms:W3CDTF>
</dcterms:created>
<dc:publisher>
Bioengineering Institute, The University of Auckland
</dc:publisher>
</rdf:Description>
<rdf:Description rdf:about="#single_stimulus">
<dc:title>
Action potential simulation with single stimulus.
</dc:title>
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
This is the CellML description of a action potential simulation
with a single stimulus current applied to the default FHN model.
</rdf:value>
<dc:creator rdf:parseType="Resource">
<vCard:FN>David Nickerson</vCard:FN>
</dc:creator>
</cmeta:comment>
<cs:simulation>
<rdf:Description rdf:ID="simulation">
<cs:multistepMethod>bdf</cs:multistepMethod>
<cs:iterationMethod>functional</cs:iterationMethod>
<cs:boundIntervals rdf:parseType="Collection">
<rdf:Description>
<cs:boundVariable>
<rdf:Description rdf:about="#time"/>
</cs:boundVariable>
<cs:maximumStepSize rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
0.1
</cs:maximumStepSize>
<cs:tabulationStepSize rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
1.0
</cs:tabulationStepSize>
<cs:startingValue rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
0
</cs:startingValue>
<cs:endingValue rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
800
</cs:endingValue>
</rdf:Description>
</cs:boundIntervals>
</rdf:Description>
</cs:simulation>
</rdf:Description>
</rdf:RDF>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="interface">
<component_ref component="stimulus_parameters"/>
<component_ref component="model"/>
<component_ref component="stimulus_protocol"/>
</component_ref>
</group>
<component name="interface">
<variable units="ms"
private_interface="out" name="time" />
<variable units="mV" cmeta:id="Vm" public_interface="out" private_interface="in" name="Vm"/>
</component>
<import xlink:href="../units.xml">
<units name="ms" units_ref="ms"/>
<units name="per_mm" units_ref="per_mm"/>
<units name="uA_per_mmcu" units_ref="uA_per_mmcu"/>
</import>
<import xlink:href="../model.xml">
<component name="model" component_ref="interface"/>
</import>
<connection>
<map_components component_1="model" component_2="interface"/>
<map_variables variable_1="t" variable_2="time"/>
<map_variables variable_1="Vm" variable_2="Vm"/>
</connection>
<import xlink:href="../periodic-IStim.xml">
<component name="stimulus_protocol" component_ref="stimulus_protocol"/>
</import>
<component name="stimulus_parameters" cmeta:id="stimulus_parameters">
<rdf:RDF
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:cmeta="http://www.cellml.org/metadata/1.0#">
<rdf:Description rdf:about="#stimulus_parameters">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
Here we define the parameters for the standard stimulus protocol we import for this experiment.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable name="stimPeriod" initial_value="1000" public_interface="out" units="ms"/> <!-- original value is 100-->
<variable name="stimDuration" initial_value="0.5" public_interface="out" units="ms"/>
<variable name="stimCurrent" initial_value="150" public_interface="out" units="uA_per_mmcu"/>
<variable name="Am" initial_value="100" public_interface="out" units="per_mm"/>
</component>
<connection>
<map_components component_1="model" component_2="stimulus_protocol"/>
<map_variables variable_1="Istim" variable_2="IStim"/>
</connection>
<connection>
<map_components component_1="interface" component_2="stimulus_protocol"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="stimulus_parameters" component_2="stimulus_protocol"/>
<map_variables variable_1="stimPeriod" variable_2="stimPeriod"/>
<map_variables variable_1="stimDuration" variable_2="stimDuration"/>
<map_variables variable_1="stimCurrent" variable_2="stimCurrent"/>
<map_variables variable_1="Am" variable_2="Am"/>
</connection>
</model>
<!-- going from single AP to periodic AP you need to change stimPeriod to stimTime and you also need to import single-pulse-IStim.xml instead of periodic-IStim.xml-->
