proc celldef() {
  topol()
  subsets()
  geom()
  biophys()
  // geom_nseg()
}

create soma, ABD[5], axonstart, AIS, axon, axoD, axoD_sec[2]
create interD[4], interD_sec[4], nABD[2], nABD_sec[10]

proc topol() { local i
  connect ABD(0), soma(0)
  for i = 1, 4 connect ABD[i](0), ABD[i-1](1)
  connect axonstart(0), ABD[4](1)
  connect AIS(0), axonstart(1)
  connect axon(0), AIS(1)
  connect axoD(0), ABD[4](1)
  for i = 0, 1 connect axoD_sec[i](0), axoD(1)
  for i = 0, 3 connect interD[i](0), ABD[i](1)
  for i = 0, 1 connect interD_sec[i](0), interD[3](1)
  for i = 2, 3 connect interD_sec[i](0), interD_sec[1](1)
  for i = 0, 1 connect nABD[i](0), soma(1)
  for i = 0, 1 connect nABD_sec[i](0), nABD(1)
  for i = 2, 3 connect nABD_sec[i](0), nABD_sec[1](1)
  for i = 4, 5 connect nABD_sec[i](0), nABD_sec[2](1)
  for i = 6, 7 connect nABD_sec[i](0), nABD[1](1)
  for i = 8, 9 connect nABD_sec[i](0), nABD_sec[7](1)
  basic_shape()
}
proc basic_shape() {
  soma {pt3dclear() pt3dadd(0, 0, 0, 1) pt3dadd(15, 0, 0, 1)}
  ABD {pt3dclear() pt3dadd(0, 0, 0, 1) pt3dadd(-14, -29, 0, 1)}
  ABD[1] {pt3dclear() pt3dadd(-14, -29, 0, 1) pt3dadd(0, -44, 0, 1)}
  ABD[2] {pt3dclear() pt3dadd(0, -44, 0, 1) pt3dadd(30, -59, 0, 1)}
  ABD[3] {pt3dclear() pt3dadd(30, -59, 0, 1) pt3dadd(60, -59, 0, 1)}
  ABD[4] {pt3dclear() pt3dadd(60, -59, 0, 1) pt3dadd(75, -74, 0, 1)}
  axonstart {pt3dclear() pt3dadd(75, -74, 0, 1) pt3dadd(60, -89, 0, 1)}
  AIS {pt3dclear() pt3dadd(60, -89, 0, 1) pt3dadd(45, -104, 0, 1)}
  axon {pt3dclear() pt3dadd(45, -104, 0, 1) pt3dadd(15, -134, 0, 1)}
  axoD {pt3dclear() pt3dadd(75, -74, 0, 1) pt3dadd(90, -89, 0, 1)}
  axoD_sec {pt3dclear() pt3dadd(90, -89, 0, 1) pt3dadd(120, -89, 0, 1)}
  axoD_sec[1] {pt3dclear() pt3dadd(90, -89, 0, 1) pt3dadd(105, -119, 0, 1)}
  interD {pt3dclear() pt3dadd(-14, -29, 0, 1) pt3dadd(-44, -29, 0, 1)}
  interD[1] {pt3dclear() pt3dadd(0, -44, 0, 1) pt3dadd(-14, -59, 0, 1)}
  interD[2] {pt3dclear() pt3dadd(30, -59, 0, 1) pt3dadd(15, -89, 0, 1)}
  interD[3] {pt3dclear() pt3dadd(60, -59, 0, 1) pt3dadd(75, -44, 0, 1)}
  interD_sec {pt3dclear() pt3dadd(75, -44, 0, 1) pt3dadd(75, -14, 0, 1)}
  interD_sec[1] {pt3dclear() pt3dadd(75, -44, 0, 1) pt3dadd(105, -44, 0, 1)}
  interD_sec[2] {pt3dclear() pt3dadd(105, -44, 0, 1) pt3dadd(120, -29, 0, 1)}
  interD_sec[3] {pt3dclear() pt3dadd(105, -44, 0, 1) pt3dadd(120, -59, 0, 1)}
  nABD {pt3dclear() pt3dadd(15, 0, 0, 1) pt3dadd(60, 15, 0, 1)}
  nABD[1] {pt3dclear() pt3dadd(15, 0, 0, 1) pt3dadd(0, 30, 0, 1)}
  nABD_sec {pt3dclear() pt3dadd(60, 15, 0, 1) pt3dadd(60, 45, 0, 1)}
  nABD_sec[1] {pt3dclear() pt3dadd(60, 15, 0, 1) pt3dadd(90, 15, 0, 1)}
  nABD_sec[2] {pt3dclear() pt3dadd(90, 15, 0, 1) pt3dadd(105, 45, 0, 1)}
  nABD_sec[3] {pt3dclear() pt3dadd(90, 15, 0, 1) pt3dadd(120, 0, 0, 1)}
  nABD_sec[4] {pt3dclear() pt3dadd(105, 45, 0, 1) pt3dadd(105, 75, 0, 1)}
  nABD_sec[5] {pt3dclear() pt3dadd(105, 45, 0, 1) pt3dadd(135, 60, 0, 1)}
  nABD_sec[6] {pt3dclear() pt3dadd(0, 30, 0, 1) pt3dadd(0, 60, 0, 1)}
  nABD_sec[7] {pt3dclear() pt3dadd(0, 30, 0, 1) pt3dadd(-29, 45, 0, 1)}
  nABD_sec[8] {pt3dclear() pt3dadd(-29, 45, 0, 1) pt3dadd(-29, 75, 0, 1)}
  nABD_sec[9] {pt3dclear() pt3dadd(-29, 45, 0, 1) pt3dadd(-59, 45, 0, 1)}
}

objref all, all_biophys, all_ABD
proc subsets() { local i
  objref all, all_biophys, all_ABD
  all = new SectionList()
    soma all.append()
    for i=0, 4 ABD[i] all.append()
    axonstart all.append()
    AIS all.append()
    axon all.append()
    axoD all.append()
    for i=0, 1 axoD_sec[i] all.append()
    for i=0, 3 interD[i] all.append()
    for i=0, 3 interD_sec[i] all.append()
    for i=0, 1 nABD[i] all.append()
    for i=0, 9 nABD_sec[i] all.append()

  all_biophys = new SectionList()
    for i=0, 4 ABD[i] all_biophys.append()
    axonstart all_biophys.append()
    axoD all_biophys.append()
    for i=0, 1 axoD_sec[i] all_biophys.append()
    for i=0, 3 interD[i] all_biophys.append()
    for i=0, 3 interD_sec[i] all_biophys.append()
    for i=0, 1 nABD[i] all_biophys.append()
    for i=0, 9 nABD_sec[i] all_biophys.append()

      all_ABD=new SectionList()
     for i=0, 4 ABD[i] all_ABD.append()
    axonstart all_ABD.append()
        axoD all_ABD.append()
    for i=0, 1 axoD_sec[i] all_ABD.append()
    for i=0, 3 interD[i] all_ABD.append()
    for i=0, 3 interD_sec[i] all_ABD.append()

}
proc geom() {

  soma {  L = 19   }
  ABD {  L = 16   }
  ABD[1] {  L = 5   }
  ABD[2] {  L = 9   }
  ABD[3] {  L = 6   }
  ABD[4] {  L = 10   }
  axonstart {  L = 25.3   }
  AIS {  L = 35.3   }
  axon {  L = 800   }
  axoD {  L = 177   }
  axoD_sec {  L = 41   }
  axoD_sec[1] {  L = 76   }
  interD {  L = 27   }
  interD[1] {  L = 143   }
  interD[2] {  L = 176   }
  interD[3] {  L = 17   }
  interD_sec {  L = 246   }
  interD_sec[1] {  L = 15   }
  interD_sec[2] {  L = 178   }
  interD_sec[3] {  L = 218   }
  nABD {  L = 11   }
  nABD[1] {  L = 6   }
  nABD_sec {  L = 170   }
  nABD_sec[1] {  L = 5   }
  nABD_sec[2] {  L = 18   }
  nABD_sec[3] {  L = 301   }
  nABD_sec[4] {  L = 129   }
  nABD_sec[5] {  L = 143   }
  nABD_sec[6] {  L = 14   }
  nABD_sec[7] {  L = 89   }
  nABD_sec[8] {  L = 25   }
  nABD_sec[9] {  L = 205   }

// nseg definition has to be launched before diam definition for tapering to be taken into account

  forsec all { nseg = int((L/(0.1*lambda_f(1000))+.999)/2)*2 + 1  }

  soma {    diam = 10  }
  ABD {   diam(0:1) = 3.7:3.5  }
  ABD[1] {   diam(0:1) = 3.5:2.4  }
  ABD[2] {   diam(0:1) = 2.4:2.2  }
  ABD[3] {   diam(0:1) = 2.2:2 }
  ABD[4] {    diam = 2  }
  axonstart {     diam(0:1) = 1.35:1  }
  AIS {     diam(0:1) = 1:0.9  }
  axon {    diam = 0.9  }
  axoD {    diam(0:1) = 1.18:1 }
  axoD_sec {   diam = 0.8 }
  axoD_sec[1] {   diam = 0.8 }
  interD {  diam(0:1) = 1.14:1  }
  interD[1] {    diam(0:1) = 1:0.8  }
  interD[2] {    diam(0:1) = 1.3:0.8  }
  interD[3] {   diam(0:1) = 2:1.8 }
  interD_sec {   diam(0:1) = 1:0.8  }
  interD_sec[1] {   diam = 1  }
  interD_sec[2] {   diam =  0.8 }
  interD_sec[3] {   diam = 0.8 }
  nABD {  diam(0:1) = 3:2.5  }
  nABD[1] {   diam(0:1) = 3.7:3  }
  nABD_sec {    diam(0:1) = 1.5:0.8  }
  nABD_sec[1] {   diam = 1.5  }
  nABD_sec[2] {   diam = 1  }
  nABD_sec[3] {    diam(0:1) = 1:0.8 }
  nABD_sec[4] {    diam = 0.8 }
  nABD_sec[5] {    diam = 0.8 }
  nABD_sec[6] {   diam = 1  }
  nABD_sec[7] {   diam(0:1) = 2:1 }
  nABD_sec[8] {   diam = 0.8}
  nABD_sec[9] {    diam = 0.8 }
  
  }
proc biophys() {
  forsec all {
    Ra = 150
    cm = 0.75
    insert pasnts
      g_pasnts = 1e-05
      e_pasnts = -50
  }
  forsec all_biophys {
    insert CAV13
      gbar_CAV13 = 1.25
      iLCa_CAV13 = 0
    insert Ih
      gbar_Ih = 3
    insert kaDa
      gbar_kaDa = 50
      taurecov_kaDa = 25
    insert kdrDA
      gbar_kdrDA = 150
    insert Na12
      gbar_Na12 = 75
    insert cad
    insert kca
      gbar_kca = 0.1
        
  }
  soma {
    insert CAV13
      gbar_CAV13 = 1.25
      iLCa_CAV13 = 0
    insert Ih
      gbar_Ih = 3
    insert kaDasoma
      gbar_kaDasoma = 150
      taurecov_kaDasoma = 25
    insert kdrDA
      gbar_kdrDA = 150
    insert Na12
      gbar_Na12 = 75
    insert cad
    insert kca
      gbar_kca = 0.1
        
  }
  AIS {
    insert kdrDA
      gbar_kdrDA = 4000
    insert Na12
      gbar_Na12 = 4000
  }
  axon {
    insert kdrDA
      gbar_kdrDA = 400
    insert Na12
      gbar_Na12 = 400
  }
  forsec all { ena=60
ek=-90
}
}
access soma

celldef()