- Author:
- David Nickerson <nickerso@users.sourceforge.net>
- Date:
- 2013-05-04 07:40:04+12:00
- Desc:
- adding initial TODO list to keep track of what I need to do to get things working with more recent tools than my original CellMLSimulator that I used in this paper
- Permanent Source URI:
- https://models.physiomeproject.org/w/andre/nickerson-2008/rawfile/d6328d18c94e9dad70f4d0e4b250e89429773b62/cellml/protocols/S1S2-restitution.xml
<?xml version="1.0" encoding="iso-8859-1"?>
<model
name="S1S2_restitution_protocol"
cmeta:id="S1S2_restitution_protocol"
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#">
<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>david.nickerson@nus.edu.sg</rdf:value>
<rdf:type rdf:resource="http://imc.org/vCard/3.0#internet" />
</vCard:EMAIL>
<vCard:ORG rdf:parseType="Resource">
<vCard:Orgname>National University of Singapore</vCard:Orgname>
<vCard:Orgunit>Division of Bioengineering</vCard:Orgunit>
</vCard:ORG>
</dc:creator>
<dcterms:created rdf:parseType="Resource">
<dcterms:W3CDTF>2007-04-24</dcterms:W3CDTF>
</dcterms:created>
</rdf:Description>
<rdf:Description rdf:about="#S1S2_restitution_protocol">
<dc:title>
S1-S2 restitution stimulus protocol.
</dc:title>
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
This CellML file describes the standard S1-S2 restitution stimulus
protocol. 10 S1 stimuli are applied at the specified basic cycle length
followed by a single S2 stimulus at the specified interval after the
tenth stimulus.
</rdf:value>
<dc:creator rdf:parseType="Resource">
<vCard:FN>David Nickerson</vCard:FN>
</dc:creator>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<import xlink:href="../models/common/units.xml">
<units name="ms" units_ref="ms"/>
<units name="uA_per_mmsq" units_ref="uA_per_mmsq"/>
<units name="uA_per_mmcu" units_ref="uA_per_mmcu"/>
<units name="mV" units_ref="mV"/>
<units name="mS_per_mmsq" units_ref="mS_per_mmsq"/>
<units name="per_mm" units_ref="per_mm"/>
</import>
<import xlink:href="periodic-IStim.xml">
<component name="periodicStimulus" component_ref="stimulus_protocol"/>
</import>
<import xlink:href="single-pulse-IStim.xml">
<component name="singlePulseStimulus" component_ref="stimulus_protocol"/>
</import>
<component name="stimulus_protocol" cmeta:id="stimulus_protocol">
<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_protocol">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
Here we define the S1-S2 stimulus protocol.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable cmeta:id="IStim" name="IStim" public_interface="out" units="uA_per_mmsq"/>
<variable cmeta:id="time" name="time" public_interface="in" private_interface="out" units="ms"/>
<variable cmeta:id="basicCycleLength" name="basicCycleLength" public_interface="in" private_interface="out" units="ms"/>
<variable cmeta:id="S2Interval" name="S2Interval" public_interface="in" private_interface="out" units="ms"/>
<variable cmeta:id="stimDuration" name="stimDuration" public_interface="in" private_interface="out" units="ms"/>
<variable cmeta:id="stimCurrent" name="stimCurrent" public_interface="in" private_interface="out" units="uA_per_mmcu"/>
<variable cmeta:id="Am" name="Am" public_interface="in" private_interface="out" units="per_mm"/>
<variable cmeta:id="periodicIStim" name="periodicIStim" private_interface="in" units="uA_per_mmsq"/>
<variable cmeta:id="singlePulseIStim" name="singlePulseIStim" private_interface="in" units="uA_per_mmsq"/>
<variable cmeta:id="stimulusSwitch" name="stimulusSwitch" units="ms"/>
<variable cmeta:id="s2Time" name="s2Time" private_interface="out" units="ms"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/>
<ci>stimulusSwitch</ci>
<apply><plus/>
<apply><times/>
<ci>basicCycleLength</ci>
<cn cellml:units="dimensionless">10</cn>
</apply>
<ci>stimDuration</ci>
</apply>
</apply>
<apply><eq/>
<ci>s2Time</ci>
<apply><plus/>
<apply><times/>
<ci>basicCycleLength</ci>
<cn cellml:units="dimensionless">10</cn>
</apply>
<ci>S2Interval</ci>
</apply>
</apply>
</math>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/>
<ci>IStim</ci>
<piecewise>
<piece>
<ci>periodicIStim</ci>
<apply><lt/>
<ci>time</ci>
<ci>stimulusSwitch</ci>
</apply>
</piece>
<otherwise>
<ci>singlePulseIStim</ci>
</otherwise>
</piecewise>
</apply>
</math>
</component>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="stimulus_protocol">
<component_ref component="periodicStimulus"/>
<component_ref component="singlePulseStimulus"/>
</component_ref>
</group>
<connection>
<map_components component_1="stimulus_protocol" component_2="periodicStimulus"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="Am" variable_2="Am"/>
<map_variables variable_1="basicCycleLength" variable_2="stimPeriod"/>
<map_variables variable_1="stimDuration" variable_2="stimDuration"/>
<map_variables variable_1="stimCurrent" variable_2="stimCurrent"/>
<map_variables variable_1="periodicIStim" variable_2="IStim"/>
</connection>
<connection>
<map_components component_1="stimulus_protocol" component_2="singlePulseStimulus"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="Am" variable_2="Am"/>
<map_variables variable_1="s2Time" variable_2="stimTime"/>
<map_variables variable_1="stimDuration" variable_2="stimDuration"/>
<map_variables variable_1="stimCurrent" variable_2="stimCurrent"/>
<map_variables variable_1="singlePulseIStim" variable_2="IStim"/>
</connection>
</model>
