// Type III granule cell
// Modified from Upinder S. Bhalla, Caltech, May 1991, Aug 91
// fields are ..
// name
// parent
// x,y,z // coords of endpoint.
// dia // needed for memb props. All lengths are in microns.
// ch name density
// ch name density
// .....
// Control lines start with '*'. Valid control options are
// *relative - relative coords.
// *absolute - absolute coords.
// *asymmetric - use asymmetric compartments
// *symmetric - use symmetric compartments
// # name parent x y z d ch dens ch dens . . .
*asymmetric
*relative
*cartesian
*set_global RM 12.0
*set_global RA 0.5
*set_global CM 0.01
*set_global EREST_ACT -0.065
*memb_factor 2.0
*start_cell /library/notfakespine1
notfakespine1 none 10 0 0 2
neck . 1.9 0 0 0.23
head . 0.8 0 0 0.8 AMPA_NMDA -1000e-12 Ca_conc -26e10
*makeproto /library/notfakespine1
*start_cell /library/notfakespine2
notfakespine2 none 10 0 0 2
neck . -1.9 0 0 0.23
head . -0.8 0 0 0.8 AMPA_NMDA -1000e-12 Ca_conc -26e10
*makeproto /library/notfakespine2
//*add_spines DENDR_DIAM SPINE_DENS SPINE_SUR
//Adds membrane surface for collapsed spines to all compartments with
// dia <= DENDR_DIAM; units: DENDR_DIAM (um), SPINE_DENS (1/um), SPINE_SUR (um^2).
*add_spines 5 0.0267 3.37
*start_cell
soma none 0 0 8 6 Na2_rat_smsnn 1611 K_mit_usb 1313 KM_bsg_upi 1334 KA_bsg_yka 12.7 Rm 200e6
*polar
trunk[0] soma 20 30 20 2 Na2_rat_smsnn 1.7 K_mit_usb 71
trunk[1] . 20 60 20 2 Na2_rat_smsnn 1.7 K_mit_usb 71
trunk[2] . 20 90 10 1.5 Na2_rat_smsnn 1.7 K_mit_usb 71
trunk[3] . 20 100 10 1.5 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine1
trunk[4] . 20 120 20 1.4 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine2
trunk[5] . 20 130 20 1.4 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine1
trunk[6] . 20 140 10 1.3 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine2
trunk[7] . 20 150 10 1.3 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine1
trunk[8] trunk[7] 40 160 10 1.3 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine2
trunk[9] . 40 170 10 1.3 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine1
trunk[10] . 40 140 20 1.3 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine2
trunk[11] . 20 160 10 1.3 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine1
trunk[12] . 20 180 10 1.3 Na2_rat_smsnn 1.7 K_mit_usb 71
*compt /library/notfakespine2
periph1[0] trunk[12] 10 10 20 1.25 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph1[1] . 10 20 20 1.25 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph1[2] . 10 20 20 1.25 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph1[3] . 10 0 20 1.25 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph11[0] . 10 5 20 1.2 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph11[1] . 10 30 10 1.2 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph11[2] . 10 20 30 1.18 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph11[3] . 10 20 30 1.17 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph11[4] . 10 10 20 1.16 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph11[5] . 10 10 40 1.15 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph11[6] . 10 30 40 1.14 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph11[7] . 10 40 10 1.13 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph11[8] . 10 50 10 1.12 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph11[9] . 10 30 20 1.11 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph11[10] . 10 20 20 1.10 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph11[11] . 10 20 30 1.09 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph11[12] . 10 30 20 1.08 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph12[0] periph1[3] 10 -90 30 1.2 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph12[1] . 10 -80 20 1.2 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph12[2] . 10 -80 10 1.18 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph12[3] . 10 -70 30 1.16 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph12[4] . 10 -90 40 1.15 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph12[5] . 10 -80 40 1.14 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph12[6] . 10 -70 20 1.13 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph12[7] . 10 -60 20 1.12 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph12[8] . 10 -70 50 1.11 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph12[9] . 10 -80 10 1.10 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph12[10] . 10 -90 20 1.09 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph2[0] trunk[12] 10 150 20 1.2 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph2[1] . 10 160 10 1.2 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph2[2] . 10 180 10 1.19 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph2[3] . 10 190 30 1.18 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph2[4] . 10 160 30 1.17 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph2[5] . 10 170 20 1.16 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph21[0] . 10 170 20 1.03 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph21[1] . 10 160 20 1.02 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph21[2] . 10 150 30 1.01 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph21[3] . 10 160 20 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph21[4] . 10 140 30 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph21[5] . 10 150 10 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph21[6] . 10 170 20 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph21[7] . 10 150 30 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph22[0] periph2[5] 10 185 20 1.05 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph22[1] . 10 190 20 1.03 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph22[2] . 10 200 30 1.02 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph22[3] . 10 190 20 1.01 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph22[4] . 10 200 30 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph22[5] . 10 220 10 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph22[6] . 10 190 30 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph22[7] . 10 190 40 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine2
periph22[8] . 10 200 30 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/notfakespine1
periph22[9] . 10 210 20 1.0 Na2_rat_smsnn 1355 K_mit_usb 243
*compt /library/compartment
deep0[0] soma 10 55 150 1.0
deep0[1] . 10 35 160 0.8
deep0[2] . 10 45 140 0.8
deep0[3] . 10 55 140 0.7
deep0[4] . 10 65 130 0.6
deep0[5] . 10 45 160 0.5
deep1[0] soma 10 135 160 1.0
deep1[1] . 10 125 150 0.8
deep1[2] . 10 125 140 0.8
deep1[3] . 10 115 120 0.7
deep1[4] . 10 125 140 0.6
deep1[5] . 10 135 160 0.6
deep1[6] . 10 145 150 0.5
deep1[7] . 10 155 150 0.5
deep2[0] soma 10 -35 170 1.0
deep2[1] . 10 -45 160 0.8
deep2[2] . 10 -55 140 0.7
deep2[3] . 10 -45 150 0.6
deep3[0] soma 10 -125 160 1.0
deep3[1] . 10 -155 150 0.8
deep3[2] . 10 -145 140 0.7
deep3[3] . 10 -135 160 0.6
deep3[4] . 10 -125 150 0.6
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