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Merge pull request #2 from OpenSourceBrain/master
Updated scripts to test & compare channels NML2 vs mod
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| Original file line number | Diff line number | Diff line change |
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@@ -7,6 +7,7 @@ | |
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| /NeuroML2/*.mod | ||
| /NeuroML2/*.hoc | ||
| /NeuroML2/*.dat | ||
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| /NEURON*/test/*.dat | ||
| /NEURON*/*.dat | ||
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,174 @@ | ||
| usegui = 1 | ||
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| {load_file("stdlib.hoc")} | ||
| {load_file("stdgui.hoc")} | ||
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| create Soma | ||
| access Soma | ||
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| celsius = 23 | ||
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| Soma {pt3dclear() pt3dadd(0.0, 0, 0.0, 27) pt3dadd(0.0, 27, 0.0, 27)} | ||
| define_shape() | ||
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| forall Ra = 100 | ||
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| insert Golgi_lkg | ||
| glbar_Golgi_lkg=2.1e-05 | ||
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| insert Golgi_KA | ||
| gkbar_Golgi_KA=0.008 | ||
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| insert Golgi_CALC | ||
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| //ena = -55 | ||
| ek = -84.69 | ||
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| proc initialiseValues0() { | ||
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| forall v = -65 | ||
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| } | ||
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| objref fih0 | ||
| {fih0 = new FInitializeHandler(0, "initialiseValues0()")} | ||
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| objref stim1 | ||
| objref stim2 | ||
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| Soma { | ||
| stim1 = new IClamp(0.5) | ||
| stim1.del = 200.0 | ||
| stim1.dur = 200.0 | ||
| stim1.amp = -0.005 | ||
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| stim2 = new IClamp(0.5) | ||
| stim2.del = 800.0 | ||
| stim2.dur = 200.0 | ||
| stim2.amp = 0.04 | ||
| } | ||
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| tstop = 1500.0 | ||
| dt = 0.002 | ||
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| objref v_time | ||
| objref f_time | ||
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| v_time = new Vector() | ||
| { v_time.record(&t) } | ||
| //{ v_time.resize(70001) } // false | ||
| f_time = new File() | ||
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| objref Soma_v | ||
| { Soma_v = new Vector() } | ||
| { Soma_v.record(&Soma.v(0.5))} | ||
| objref Soma_ca | ||
| { Soma_ca = new Vector() } | ||
| { Soma_ca.record(&Soma.cai(0.5))} | ||
| objref Soma_ka_a | ||
| { Soma_ka_a = new Vector() } | ||
| { Soma_ka_a.record(&Soma.a_Golgi_KA(0.5))} | ||
| objref Soma_ka_b | ||
| { Soma_ka_b = new Vector() } | ||
| { Soma_ka_b.record(&Soma.b_Golgi_KA(0.5))} | ||
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| objref f_Soma_v | ||
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| objref GraphWin_0 | ||
| objref GraphWin_1 | ||
| objref GraphWin_2 | ||
| objref GraphWin_3 | ||
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| if (usegui==1) { | ||
| GraphWin_0 = new Graph(0) | ||
| {GraphWin_0.size(0, tstop,-110.0,50.0)} | ||
| {GraphWin_0.view(0, -110.0, tstop, 160.0, 80, 330, 330, 250)} | ||
| { | ||
| GraphWin_0.addexpr("Soma.v", "Soma.v(0.5)", 1, 1, 0.8, 0.9, 2) | ||
| graphList[0].append(GraphWin_0) | ||
| } | ||
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| GraphWin_2 = new Graph(0) | ||
| {GraphWin_2.size(0, tstop,0,1)} | ||
| {GraphWin_2.view(0, 0, tstop, 1, 80, 330, 330, 250)} | ||
| { | ||
| GraphWin_2.addexpr("KA a", "Soma.a_Golgi_KA", 1, 1, 0.8, 0.9, 2) | ||
| GraphWin_2.addexpr("KA b", "Soma.b_Golgi_KA", 2, 1, 0.8, 0.9, 2) | ||
| graphList[0].append(GraphWin_2) | ||
| } | ||
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| GraphWin_3 = new Graph(0) | ||
| {GraphWin_3.size(0, tstop,0,0.005)} | ||
| {GraphWin_3.view(0, 0, tstop, 0.005, 80, 330, 330, 250)} | ||
| { | ||
| GraphWin_3.addexpr("cai", "Soma.cai", 1, 1, 0.8, 0.9, 2) | ||
| graphList[0].append(GraphWin_3) | ||
| } | ||
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| } | ||
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| {run()} | ||
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| strdef timeFilename | ||
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| f_Soma_v = new File() | ||
| strdef filename | ||
| {sprint(filename, "Soma.dat")} | ||
| f_Soma_v.wopen(filename) | ||
| Soma_v.printf(f_Soma_v) | ||
| f_Soma_v.close() | ||
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| { sprint(timeFilename, "%s", "time.dat")} | ||
| { f_time.wopen(timeFilename) } | ||
| { v_time.printf(f_time) } | ||
| { f_time.close() } | ||
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| objref f_Soma_si | ||
| f_Soma_si = new File() | ||
| { f_Soma_si.wopen("Soma.si.dat") } | ||
| for i=0, Soma_v.size()-1 { | ||
| f_Soma_si.printf("%f\t%f\n", v_time.x[i]/1000, Soma_v.x[i]/1000) | ||
| } | ||
| { f_Soma_si.close() } | ||
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| objref f_Soma_ka | ||
| f_Soma_ka = new File() | ||
| {sprint(filename, "KA.dat")} | ||
| f_Soma_ka.wopen(filename) | ||
| for i=0, Soma_v.size()-1 { | ||
| f_Soma_ka.printf("%f\t%f\t%f\n", v_time.x[i]/1000, Soma_ka_a.x[i], Soma_ka_b.x[i]) | ||
| } | ||
| f_Soma_ka.close() | ||
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| if (usegui==1) { | ||
| // This code pops up a simple Run Control | ||
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| { | ||
| xpanel("RunControl", 0) | ||
| v_init = -60.0 | ||
| xbutton("Init & Run","run()") | ||
| xbutton("Stop","stoprun=1") | ||
| t = 0 | ||
| xvalue("t","t", 2 ) | ||
| xvalue("Tstop","tstop", 1,"tstop_changed()", 0, 1 ) | ||
| dt = 0.01 | ||
| xvalue("dt","dt", 1,"setdt()", 0, 1 ) | ||
| xpanel(80,80) | ||
| } | ||
| } | ||
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| forall psection() |
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