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PinskyRinzel sisat fix #111

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PinskyRinzel sisat fix #111

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30 changes: 16 additions & 14 deletions NeuroML2CoreTypes/Cells.xml
100644 → 100755
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Original file line number Diff line number Diff line change
Expand Up @@ -1670,15 +1670,12 @@
<!-- Synaptic Dynamics -->
<StateVariable name="Si" dimension="none" exposure="Si"/>
<StateVariable name="Wi" dimension="none" exposure="Wi"/>

<!-- Note Sisat is StateVariable & ConditionalDerivedVariable, see https://github.com/OpenSourceBrain/PinskyRinzelModel/issues/7 -->
<StateVariable name="Sisat" dimension="none"/>


<!-- baseCellMembPot compatibility -->
<DerivedVariable name="v" dimension="voltage" value="Vs" exposure="v"/>
<DerivedVariable name="ICad" dimension="currentDensity" exposure="ICad" value="gCa*sd*sd*(Vd-eCa)"/>



<DerivedVariable name="alphams_Vs" dimension="none" value="0.32*(-46.9-Vs/MVOLT)/(exp((-46.9-Vs/MVOLT)/4.0)-1.0)"/>
<DerivedVariable name="betams_Vs" dimension="none" value="0.28*(Vs/MVOLT+19.9)/(exp((Vs/MVOLT+19.9)/5.0)-1.0)"/>
Expand All @@ -1693,17 +1690,15 @@
<DerivedVariable name="alphasd_Vd" dimension="none" value="1.6/(1.0+exp(-0.072*(Vd/MVOLT-5.0)))"/>
<DerivedVariable name="betasd_Vd" dimension="none" value="0.02*(Vd/MVOLT+8.9)/(exp((Vd/MVOLT+8.9)/5.0)-1.0)"/>


<DerivedVariable name="Iampa" dimension="currentDensity" value="gAmpa*Wi*(Vd-Vsyn)"/>
<DerivedVariable name="Inmda" dimension="currentDensity" value="gNmda*Sisat*(Vd-Vsyn)/(1.0+0.28*exp(-0.062*(Vd/MVOLT-60.0)))"/>
<DerivedVariable name="Isyn" dimension="currentDensity" value="Iampa+Inmda"/>




<ConditionalDerivedVariable name="alphaqd" dimension="none">
<Case condition="0.00002*Cad .gt. 0.01" value="0.01"/>
<Case value="0.00002*Cad"/>
</ConditionalDerivedVariable>

<ConditionalDerivedVariable name="chid" dimension="none">
<Case condition="Cad/250 .gt. 1" value="1"/>
<Case value="Cad/250"/>
Expand All @@ -1713,18 +1708,25 @@
<Case condition="Vd .lt. -10*MVOLT" value="exp((Vd/MVOLT+50.0)/11-(Vd/MVOLT+53.5)/27)/18.975"/>
<Case value="2.0*exp((-53.5-Vd/MVOLT)/27.0)"/>
</ConditionalDerivedVariable>

<ConditionalDerivedVariable name="betacd_Vd" dimension="none">
<Case condition="Vd .lt. -10*MVOLT" value="(2.0*exp((-53.5-Vd/MVOLT)/27.0)-alphacd_Vd)"/>
<Case value="0"/>
</ConditionalDerivedVariable>

<!-- Note Sisat is StateVariable & ConditionalDerivedVariable, see https://github.com/OpenSourceBrain/PinskyRinzelModel/issues/7 -->

<ConditionalDerivedVariable name="Sisat" dimension="none">
<Case condition="Si .gt. Smax" value="Smax"/>
<Case value="Si"/>
</ConditionalDerivedVariable>

<ConditionalDerivedVariable name="Inmda" dimension="currentDensity">
<Case condition="1 .eq. 1" value="gNmda*Sisat*(Vd-Vsyn)/(1.0+0.28*exp(-0.062*(Vd/MVOLT-60.0)))"/>
</ConditionalDerivedVariable>

<ConditionalDerivedVariable name="Isyn" dimension="currentDensity">
<Case condition="1 .eq. 1" value="Iampa+Inmda"/>
</ConditionalDerivedVariable>

<TimeDerivative variable="Vs" value="(-gLs*(Vs-eL)-gNa*(Minfs_Vs^2)*hs*(Vs-eNa)-gKdr*ns*(Vs-eK)+(gc/pp)*(Vd-Vs)+iSoma/pp) / cm"/>
<TimeDerivative variable="Vd" value="(iDend/(1.0-pp)-Isyn/(1.0-pp)-gLd*(Vd-eL)-ICad-gKahp*qd*(Vd-eK)-gKC*cd*chid*(Vd-eK)+(gc*(Vs-Vd))/(1.0-pp)) / cm"/>
Expand Down