ivconvm (runiv-mstoch.xml)
Continuous I-V curve for testing stochastic convergence.
Total CPU time 71.34 seconds; at 11:45:15 Thu 24 Sep 2009
Compartments | Stochastic channels / cpmts | Continuous channels / cpmts | Non Gated channels / cpmts | CPU Time / s |
1 | 201 / 1 | 0 / 0 | 0 / 0 | 71.3 |
Morphology: cell
Predefined views
16
zoom
start
null, line 0, deviation: mean = -90.3, rms= 136
All files
Model | Preprocessed | Outupt data | Reference data etc |
runiv-mstoch.xml cell.xml membrane.xml environment.xml recording-iv.xml na1.xml |
psics-out.ppp |
log.txt psics-out.sum psics-out.dat psics-out.txt |
ref_continuous.txt ref-continuous.txt start.txt |
Model
Archive file of the complete model: ivconvm.jarruniv-mstoch.xml
<PSICSRun timeStep="0.01ms" runTime="15ms" startPotential="-80mV" morphology="cell" environment="environment" properties="membrane" access="recording-iv" stochThreshold="1000" repeats="10000"> <StructureDiscretization baseElementSize="3um"/> <About> Continuous I-V curve for testing stochastic convergence. </About> <ViewConfig> <LineGraph width="500" height="400"> <XAxis min="0" max="250" label="time / ms"/> <YAxis min="-80" max="60" label="current / nA"/> <LineSet file="psics-out.txt" color="blue" maxshow="100"/> <Line file="ref-continuous.txt" color="white" width="1"/> <LineSet file="psics-out.txt" color="green" function="mean"> <DataComparison file="ref-continuous.txt" line="0"/> </LineSet> <View id="16" xmin="0." xmax="40." ymin="-500." ymax="20."/> <View id="zoom" xmin="5" xmax="6" ymin="-440." ymax="-340."/> <View id="start" xmin="0" xmax="5" ymin="-10." ymax="1."/> </LineGraph> </ViewConfig> </PSICSRun>
cell.xml
<CellMorphology id="cell"> <Point id="p0" x="0" y="0" z="0" r="1."/> </CellMorphology>
membrane.xml
<CellProperties id="membrane" cytoplasmResistivity="100ohm_cm" membraneCapacitance="1.e-8uF_per_um2"> <ChannelPopulation id="napop" channel="na1" density="16per_um2"/> </CellProperties>
environment.xml
<CellEnvironment id="environment"> <Ion id="Na" name="Sodium" reversalPotential="80mV"/> <Ion id="K" name="Potassium" reversalPotential="-80mV"/> </CellEnvironment>
recording-iv.xml
<Access id="recording-iv" saveInterval="0.01ms"> <VoltageClamp at="p0" lineColor="red" hold="-80.0mV"> <VoltagePulse id="vstep" start="5ms" to="0mV" duration="20ms"/> </VoltageClamp> </Access>
na1.xml
<KSChannel id="na1" gSingle="30pS" permeantIon="Na"> <ClosedState id="c1"/> <OpenState id="o1"/> <ClosedState id="c2"/> <VHalfTransition from="c1" to="o1" vHalf = "-35mV" z="4.5e" gamma="0.8" tau="0.55ms" tauMin="0.1ms"/> <VHalfTransition from="o1" to="c2" vHalf = "-70mV" z="1.1e" gamma="0.90" tau="12.0ms" tauMin="1.5ms"/> </KSChannel>