/*************************************************
* section lists *
*************************************************/
objref soma
somaA soma = new SectionRef()
objref distTuft
distTuft = new SectionList()
numDistNeurites = 0
forsec "dendA5_01111111111111111" {
if (strcmp(secname(),"dendA5_01111111111111111")==0){
// skip the neurite right before the distal bifurcation
}else{
distTuft.append
numDistNeurites+=1
}
}
objref all_apicals
all_apicals = new SectionList()
dendA5_0 all_apicals.subtree()
objref all_basals
all_basals = new SectionList()
dendA1_0 all_basals.subtree()
dendA2_0 all_basals.subtree()
dendA3_0 all_basals.subtree()
dendA4_0 all_basals.subtree()
objref primary_apical_list
primary_apical_list = new SectionList()
dendA5_0 primary_apical_list.append
dendA5_01 primary_apical_list.append
dendA5_011 primary_apical_list.append
dendA5_0111 primary_apical_list.append
dendA5_01111 primary_apical_list.append
dendA5_011111 primary_apical_list.append
dendA5_0111111 primary_apical_list.append
dendA5_01111111 primary_apical_list.append
dendA5_011111111 primary_apical_list.append
dendA5_0111111111 primary_apical_list.append
dendA5_01111111111 primary_apical_list.append
dendA5_011111111111 primary_apical_list.append
dendA5_0111111111111 primary_apical_list.append
dendA5_01111111111111 primary_apical_list.append
dendA5_011111111111111 primary_apical_list.append
dendA5_0111111111111111 primary_apical_list.append
dendA5_01111111111111111 primary_apical_list.append
objref d[16]
for ii = 0, 15 {
d[ii] = new SectionList()
}
/* BRANCH 0 in code, BRANCH 1 in Fig3 */
dendA5_00 d[0].append
/* BRANCH 1 in code, BRANCH 2 in Fig 3 */
dendA5_010 d[1].append
dendA5_0100 d[1].append
dendA5_0101 d[1].append
/* BRANCH 2 in code, BRANCH 3 in Fig 3 */
dendA5_0110 d[2].append
dendA5_01100 d[2].append
dendA5_01101 d[2].append
dendA5_011010 d[2].append
dendA5_011011 d[2].append
dendA5_0110110 d[2].append
dendA5_0110111 d[2].append
/* BRANCH 3 in code, skipped in Fig 3 because too short */
dendA5_01110 d[3].append
/* BRANCH 4 in code, BRANCH 4 in Fig 3 */
dendA5_011110 d[4].append
dendA5_0111100 d[4].append
dendA5_0111101 d[4].append
/* BRANCH 5 in code, BRANCH 5 in Fig 3 */
dendA5_0111110 d[5].append
dendA5_01111100 d[5].append
dendA5_01111101 d[5].append
dendA5_011111010 d[5].append
dendA5_011111011 d[5].append
dendA5_0111110110 d[5].append
dendA5_0111110111 d[5].append
/* BRANCH 6 in code, skipped in Fig 3 because too short */
dendA5_01111110 d[6].append
/* BRANCH 7 skipped in Fig 3 because too short */
dendA5_011111110 d[7].append
/* BRANCH 8 in code, BRANCH 6 in Fig 3 */
dendA5_0111111110 d[8].append
dendA5_01111111100 d[8].append
dendA5_01111111101 d[8].append
/* BRANCH 9 in code, BRANCH 7 in Fig 3 */
dendA5_01111111110 d[9].append
/* BRANCH 10 in code, BRANCH 8 in Fig 3 */
dendA5_011111111110 d[10].append
/* BRANCH 11 in code, BRANCH 9 in Fig 3 */
dendA5_0111111111110 d[11].append
dendA5_01111111111100 d[11].append
dendA5_01111111111101 d[11].append
/* BRANCH 12 in code, BRANCH 10 in Fig 3 */
dendA5_01111111111110 d[12].append
dendA5_011111111111100 d[12].append
dendA5_011111111111101 d[12].append
dendA5_0111111111111010 d[12].append
dendA5_01111111111110100 d[12].append
dendA5_01111111111110101 d[12].append
dendA5_0111111111111011 d[12].append
/* BRANCH 13 in code, BRANCH 11 in Fig 3 */
dendA5_011111111111110 d[13].append
/* BRANCH 14 in code, BRANCH 12 in Fig 3 */
dendA5_0111111111111110 d[14].append
/* BRANCH 15 in code, skipped in Fig 3 because too short */
dendA5_01111111111111110 d[15].append
| 
