//######################################
//
// LayerVrun.hoc
// -------------
//
// Main hoc to start the model
//
// Author: Konstantin Stadler
// Version: 20131108
//
//######################################
//
// Loads the morphology and ion channels distributions
//
// Morphology based on Ri18 from Stuart and Spruston 1998 (Ri18geo.hoc):
// http://senselab.med.yale.edu/modeldb/showmodel.asp?model=3677
// PMID: 9570781
//
// The naming of sections in Ri18 is somehow confusing...
// This routine summarises the sections into lists:
//
// - SectionList Axon: the axon
// - SectionList SomaDend: everything except the axon
// - SectionList Soma: the Soma
// - SectionList ApikalDend: apical dendrite
// - Array ApikalTrunk: trunk part of the apical dendrite
//
// *Default accessed section*: dend1[21]
// That's the middle of the soma
//
// ************************************************************************** //
// ************************************************************************** //
load_file("nrngui.hoc")
// --- Morphology ---
xopen("./geo/Ri18geo.hoc") // Morphology based on Stuar&Spruston 1998 (Age: P21)
objref ApikalDend, Soma, SomaDend, Axon
ApikalDend = new SectionList()
dend1[28] ApikalDend.subtree()
Soma = new SectionList()
for i = 14,27 dend1[i] {Soma.append()}
SomaDend = new SectionList()
dend1[14] SomaDend.subtree()
Axon = new SectionList()
axon Axon.append()
soma Axon.append()
for i=0,13 dend1[i] {Axon.append()}
double ApikalTrunk[46]
ApikalTrunk[ 0 ]= 29
ApikalTrunk[ 1 ]= 30
ApikalTrunk[ 2 ]= 31
ApikalTrunk[ 3 ]= 32
ApikalTrunk[ 4 ]= 43
ApikalTrunk[ 5 ]= 44
ApikalTrunk[ 6 ]= 47
ApikalTrunk[ 7 ]= 71
ApikalTrunk[ 8 ]= 72
ApikalTrunk[ 9 ]= 108
ApikalTrunk[ 10 ]= 109
ApikalTrunk[ 11 ]= 110
ApikalTrunk[ 12 ]= 111
ApikalTrunk[ 13 ]= 112
ApikalTrunk[ 14 ]= 126
ApikalTrunk[ 15 ]= 161
ApikalTrunk[ 16 ]= 164
ApikalTrunk[ 17 ]= 165
ApikalTrunk[ 18 ]= 171
ApikalTrunk[ 19 ]= 172
ApikalTrunk[ 20 ]= 173
ApikalTrunk[ 21 ]= 174
ApikalTrunk[ 22 ]= 175
ApikalTrunk[ 23 ]= 176
ApikalTrunk[ 24 ]= 177
ApikalTrunk[ 25 ]= 178
ApikalTrunk[ 26 ]= 179
ApikalTrunk[ 27 ]= 180
ApikalTrunk[ 28 ]= 181
ApikalTrunk[ 29 ]= 182
ApikalTrunk[ 30 ]= 183
ApikalTrunk[ 31 ]= 184
ApikalTrunk[ 32 ]= 185
ApikalTrunk[ 33 ]= 186
ApikalTrunk[ 34 ]= 187
ApikalTrunk[ 35 ]= 188
ApikalTrunk[ 36 ]= 197
ApikalTrunk[ 37 ]= 198
ApikalTrunk[ 38 ]= 199
ApikalTrunk[ 39 ]= 200
ApikalTrunk[ 40 ]= 201
ApikalTrunk[ 41 ]= 202
ApikalTrunk[ 42 ]= 203
ApikalTrunk[ 43 ]= 204
ApikalTrunk[ 44 ]= 206
ApikalTrunk[ 45 ]= 207
// --- Mechanism ---
xopen("./LayerVinit.hoc")
init_General()
init_AxonParameter()
init_SomaParameter()
init_DendParameter()
init_Axon()
init_Soma()
init_Dend()
init_Volt()
print " Layer V - Ri18 successfully built\n"
access dend1[21] //soma
load_file("./sub/util.hoc")
load_file("./sub/OwnInit.hoc")
load_file("./sub/ReducExp.hoc")
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