-
Notifications
You must be signed in to change notification settings - Fork 24
/
LEMS_NML2_Ex5_DetCell.xml
64 lines (46 loc) · 3.48 KB
/
LEMS_NML2_Ex5_DetCell.xml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
<Lems>
<!-- Example with Simple cell specifying segment details-->
<!-- This is a file which can be read and executed by the LEMS Interpreter.
It imports the LEMS definitions of the core NeuroML 2 Components,
imports in "pure" NeuroML 2 and contains some LEMS elements for running
a simulation -->
<Target component="sim1" reportFile="report.ex5.txt"/>
<Include file="Cells.xml"/>
<Include file="Networks.xml"/>
<Include file="Simulation.xml"/>
<!-- Including file with a <neuroml> root, a "real" NeuroML 2 file -->
<Include file="../examples/NML2_SingleCompHHCell.nml"/>
<Simulation id="sim1" length="300ms" step="0.01ms" target="net1">
<Display id="d1" title="Ex5: HH cell with simple morphology: voltage" timeScale="1ms" xmin="0" xmax="300" ymin="-90" ymax="50">
<Line id="v" quantity="hhpop[0]/v" scale="1mV" color="#cccccc" timeScale="1ms"/>
<Line id="spiking" quantity="hhpop[0]/spiking" scale="0.1V" color="#004040" timeScale="1ms"/>
<!--<Line id="l3" quantity="hhpop[0]/debugVal" scale="1V" color="#999999" timeScale="1ms"/>-->
</Display>
<Display id="d2" title="Ex5: HH cell with simple morphology: rate variables" timeScale="1ms" xmin="0" xmax="300" ymin="-0.1" ymax="1.1">
<Line id="m" quantity="hhpop[0]/bioPhys1/membraneProperties/naChans/naChan/m/q" scale="1" color="#000000" timeScale="1ms"/>
<Line id="h" quantity="hhpop[0]/bioPhys1/membraneProperties/naChans/naChan/h/q" scale="1" color="#ff0000" timeScale="1ms"/>
<Line id="n" quantity="hhpop[0]/bioPhys1/membraneProperties/kChans/kChan/n/q" scale="1" color="#0000ff" timeScale="1ms"/>
</Display>
<Display id="d3" title="Ex5: HH cell with simple morphology: current densities" timeScale="1ms" xmin="0" xmax="300" ymin="-0.1" ymax="1.1">
<Line id="ina" quantity="hhpop[0]/bioPhys1/membraneProperties/naChans/iDensity" scale="1" color="#000000" timeScale="1ms"/>
<Line id="ik" quantity="hhpop[0]/bioPhys1/membraneProperties/kChans/iDensity" scale="1" color="#ff0000" timeScale="1ms"/>
</Display>
<Display id="d4" title="Ex5: HH cell with simple morphology: conductance densities" timeScale="1ms" xmin="0" xmax="300" ymin="-50" ymax="350">
<Line id="gna" quantity="hhpop[0]/bioPhys1/membraneProperties/naChans/gDensity" scale="1" color="#000000" timeScale="1ms"/>
<Line id="gk" quantity="hhpop[0]/bioPhys1/membraneProperties/kChans/gDensity" scale="1" color="#ff0000" timeScale="1ms"/>
</Display>
<OutputFile id="of0" fileName="results/ex5_v.dat">
<OutputColumn id="v" quantity="hhpop[0]/v"/>
</OutputFile>
<OutputFile id="of1" fileName="results/ex5_vars.dat">
<OutputColumn id="m" quantity="hhpop[0]/bioPhys1/membraneProperties/naChans/naChan/m/q"/>
<OutputColumn id="h" quantity="hhpop[0]/bioPhys1/membraneProperties/naChans/naChan/h/q"/>
<OutputColumn id="n" quantity="hhpop[0]/bioPhys1/membraneProperties/kChans/kChan/n/q"/>
</OutputFile>
<!-- Not supported by EDEN...
<OutputFile id="of2" fileName="results/ex5_curr_dens.dat">
<OutputColumn id="ina" quantity="hhpop[0]/bioPhys1/membraneProperties/naChans/iDensity"/>
<OutputColumn id="ik" quantity="hhpop[0]/bioPhys1/membraneProperties/kChans/iDensity"/>
</OutputFile>-->
</Simulation>
</Lems>