/*________________________________________________________________*/
/* BEGIN FILE */
/*----------------------------------------------------------------
%W% %G%
/usr/local/src/cable/anatomy/ca3cell.txt translated Tue Jun 30
13:42:37 1992 by ntscable 2.0
source file syntax: Eutectic
output file syntax: CABLE
soma: diameter = 23.4229 um length = 46.1079 um area = 3392.86 um2
28 three-D points; 30 outline points numbered 1425-1454
outline diameter = 30.1063 um
10 primary neurites
110 branches totaling 17491.9 um in length, 21723.9 um2 in area
1424 tree points translated to 211 segments (1 requested)
Neurites divided into segments of equal dx between adjacent digitized
branch points.
Segment length constrained to be < 17491.9 um.
The file on this disk is an ASCII dump of a Eutectic datafile of a
rat CA3 cell. The neuron is pictured in Figure 1 of Ishizuka, Weber
and Amaral, J. Comp. Neurol. 1990.
No. points 1454
No. trees 11
Text File sent from PDP-11
----------------------------------------------------------------*/
/* create sections */
create soma,\
dend1[3],\
dend2[15],\
dend3[97],\
dend4[17],\
dend5[7],\
dend6[27],\
dend7[17],\
dend8[19],\
dend9[5],\
dend10[3]
/*----------------------------------------------------------------*/
proc geometry() { local i, j
/* soma geometry */
soma {
nseg = 1
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
/* connect primary neurites
*/
soma connect dend1[0] (0), 0.5
soma connect dend2[0] (0), 0.5
soma connect dend3[0] (0), 0.5
soma connect dend4[0] (0), 0.5
soma connect dend5[0] (0), 0.5
soma connect dend6[0] (0), 0.5
soma connect dend7[0] (0), 0.5
soma connect dend8[0] (0), 0.5
soma connect dend9[0] (0), 0.5
soma connect dend10[0] (0), 0.5
/* neurite geometry*/
for i = 0,2 {
dend1[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,14 {
dend2[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,96 {
dend3[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,16 {
dend4[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,6 {
dend5[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,26 {
dend6[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,16 {
dend7[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,18 {
dend8[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,4 {
dend9[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
for i = 0,2 {
dend10[i] {
nseg = fscan()
pt3dclear()
for j = 1, fscan() {
pt3dadd(fscan(),fscan(),fscan(),fscan())
}
}
}
/* branching topology*/
for i = 1,2 {
dend1[fscan()] connect dend1[i] (0), fscan()
}
for i = 1,14 {
dend2[fscan()] connect dend2[i] (0), fscan()
}
for i = 1,96 {
dend3[fscan()] connect dend3[i] (0), fscan()
}
for i = 1,16 {
dend4[fscan()] connect dend4[i] (0), fscan()
}
for i = 1,6 {
dend5[fscan()] connect dend5[i] (0), fscan()
}
for i = 1,26 {
dend6[fscan()] connect dend6[i] (0), fscan()
}
for i = 1,16 {
dend7[fscan()] connect dend7[i] (0), fscan()
}
for i = 1,18 {
dend8[fscan()] connect dend8[i] (0), fscan()
}
for i = 1,4 {
dend9[fscan()] connect dend9[i] (0), fscan()
}
for i = 1,2 {
dend10[fscan()] connect dend10[i] (0), fscan()
}
}
geometry()
SOMA COORDINATES AND DIAMETERS:
28
-12 -6 2 1e-6
-11 -5 2 8
-10 -3 2 16
-9.5 -3 2 18
-9 -4 2 22
-9 -5 1.75 24.005
-7 -3.3333 1.75 28.671
-5.5 -1.8333 1.75 32.67
-5.5 -0.083333 1.75 36.17
-5 1.5833 1.75 39.836
-3 1.25 1.75 40.503
-3 1.75 1 39.551
-2 2.25 1 38.552
0 4.25 1 38.552
1.5 4.25 1 35.556
3 3.9688 1 33.123
3 3.4688 1 32.125
4 2.2812 1 28.508
5.5 2.15 1 26.376
6.5 2.5833 1 23.917
8.5 4.25 1 20.597
10 6.1786 1.1071 16.738
12 9.35 1.25 12.788
12.5 9.8056 1.3056 12.466
15.5 11.639 1.6389 8.7521
16.5 11.75 1.75 6.5192
17 11.792 1.7917 5.4327
19.5 12 2 1e-6
NEURITE COORDINATES AND DIAMETERS:
1 16
4 -11.5 -3.5 1.8
5 -16.5 -7 1.8
4.5 -24 -9.5 1.6
3 -28 -11 1.2
0.5 -36 -12.5 1
-2 -50 -13 0.8
-3 -66 -15.5 0.8
-3.5 -82.5 -19.5 0.5
-5.5 -96.5 -24.5 0.5
-6.5 -106.5 -28 0.5
-7 -120 -30.5 0.5
-8.5 -132.5 -33.5 0.3
-8 -147 -36 0.3
-6.5 -159 -38.5 0.3
-5.5 -173.5 -42.5 0.3
-8 -182.5 -45.5 0.3
1 9
-8 -182.5 -45.5 0.3
-12 -193.5 -47.5 0.3
-17.5 -211 -51 0.3
-22.5 -229 -52.5 0.3
-24.5 -234 -53.5 0.3
-23.5 -245 -54.5 0.3
-28 -254 -57.5 0.3
-31.5 -263.5 -58 0.3
-42 -279 -60.5 0.3
1 6
-8 -182.5 -45.5 0.3
-6.5 -186.5 -48.5 0.3
-3.5 -191.5 -52.5 0.3
-3.5 -200.5 -56 0.3
-3 -209.5 -57 0.3
-2.5 -220 -59 0.3
1 4
-8.5 -13.5 2.5 2.9
-13.5 -22 2 2.9
-18.5 -32 6 1.8
-23 -39 11 1.8
1 8
-23 -39 11 1.8
-23.5 -44.5 11.5 0.8
-26.5 -55 12.5 0.8
-32.5 -72 13.5 0.6
-35.5 -90.5 14.5 0.6
-40.5 -107 15 0.4
-44 -114 15 0.4
-44.5 -119 16 0.4
1 3
-44.5 -119 16 0.4
-45 -128 20 0.3
-45 -134.5 21 0.3
1 3
-45 -134.5 21 0.3
-48.5 -140.5 22.5 0.3
-49.5 -144 24.5 0.3
1 7
-49.5 -144 24.5 0.3
-42 -155 25.5 0.3
-26 -175.5 26 0.3
-18 -187.5 28 0.3
-16.5 -193.5 28.5 0.3
-18 -200.5 28.5 0.3
-15.5 -205.5 28.5 0.3
1 8
-49.5 -144 24.5 0.3
-54.5 -149.5 25 0.3
-63.5 -159 28 0.3
-70 -167.5 31 0.3
-78 -174 32.5 0.3
-80.5 -177.5 35 0.3
-83 -182.5 37.5 0.3
-83.5 -186 38.5 0.3
1 7
-45 -134.5 21 0.3
-40 -141.5 22 0.3
-33 -150.5 23.5 0.3
-25.5 -161.5 23 0.3
-22 -166 21.5 0.3
-23 -174 22.5 0.3
-26 -176.5 22.5 0.3
1 3
-44.5 -119 16 0.4
-51.5 -134.5 16 0.3
-53.5 -143 18 0.3
1 9
-53.5 -143 18 0.3
-52 -154.5 16.5 0.3
-54 -167.5 18 0.3
-55.5 -183 18 0.3
-54.5 -195.5 19 0.3
-51 -216 22.5 0.3
-49.5 -227 25.5 0.3
-46 -244.5 27.5 0.3
-43.5 -257 27.5 0.3
1 7
-53.5 -143 18 0.3
-56.5 -148 18.5 0.3
-61 -156 20.5 0.3
-70.5 -172 19.5 0.3
-85.5 -187.5 19 0.3
-94.5 -200 20.5 0.3
-98.5 -207 20 0.3
1 11
-23 -39 11 1.8
-27 -46.5 14.5 0.6
-28 -57.5 21.5 0.4
-30 -64 26.5 0.4
-29.5 -73.5 30.5 0.4
-32 -82 33 0.4
-36 -91.5 37.5 0.4
-36.5 -99.5 40.5 0.4
-42 -109 43.5 0.4
-40 -120 49 0.4
-41 -126 50.5 0.4
1 2
-41 -126 50.5 0.4
-39.5 -129 50.5 0.3
1 7
-39.5 -129 50.5 0.3
-38.5 -140.5 52 0.3
-41.5 -154 53 0.3
-41 -170 54.5 0.3
-42 -185 55.5 0.3
-43.5 -191.5 56.5 0.3
-47.5 -199 58 0.3
1 12
-39.5 -129 50.5 0.3
-37.5 -129 52.5 0.3
-41.5 -134.5 54.5 0.3
-43.5 -140.5 59 0.3
-47.5 -148.5 62 0.3
-50 -155.5 65.5 0.3
-53.5 -158 66.5 0.3
-55.5 -166 69 0.3
-56 -174.5 70.5 0.3
-59 -181 72 0.3
-63 -196.5 75.5 0.3
-65.5 -211 77 0.3
1 10
-41 -126 50.5 0.4
-46 -133.5 51.5 0.3
-53.5 -144 53.5 0.3
-59 -153.5 55.5 0.3
-65.5 -164 59 0.3
-71.5 -174 61.5 0.3
-80 -182.5 64 0.3
-87.5 -189.5 66.5 0.3
-94 -194.5 69 0.3
-97 -196.5 70 0.3
1 5
-6 -17.5 -2 5.9
-8 -27.5 -3.5 5
-12 -48 -1 3.2
-17.5 -70.5 -1 2.9
-21 -89.5 0 2.9
1 2
-21 -89.5 0 2.9
-22 -101 0 3.5
1 4
-22 -101 0 3.5
-20 -107 1.5 3
-15.5 -113 1 2.2
-12.5 -119 1 1.8
1 5
-12.5 -119 1 1.8
-8.5 -127 -1.5 1.2
-5.5 -136 -4.5 1.2
-3 -142.5 -7.5 0.8
-1.5 -146.5 -8.5 0.8
1 7
-1.5 -146.5 -8.5 0.8
0 -156.5 -12 0.8
3 -167 -16 0.6
8 -178.5 -19.5 0.6
10.5 -189.5 -23 0.6
13 -199.5 -25.5 0.6
17 -210.5 -28.5 0.6
1 4
17 -210.5 -28.5 0.6
27.5 -226.5 -32.5 0.5
35 -239 -33.5 0.5
39.5 -251 -36 0.5
1 8
39.5 -251 -36 0.5
43 -266.5 -38.5 0.5
46.5 -293.5 -38.5 0.5
51 -311 -41.5 0.5
57.5 -328.5 -44.5 0.5
61 -344 -41.5 0.5
63 -358.5 -38.5 0.5
63 -366.5 -38 0.5
1 6
63 -366.5 -38 0.5
59 -376.5 -39.5 0.5
55 -385 -42 0.3
49.5 -402.5 -44.5 0.3
43 -418 -49 0.3
40 -426.5 -51.5 0.3
1 13
40 -426.5 -51.5 0.3
41 -433.5 -51.5 0.3
52 -453 -53.5 0.3
57 -463 -57 0.3
57.5 -468.5 -59.5 0.3
52.5 -483 -63 0.3
50.5 -492 -66.5 0.3
54.5 -501.5 -69.5 0.3
57.5 -508.5 -71.5 0.3
57.5 -517 -73.5 0.3
54.5 -534 -75.5 0.3
54.5 -543.5 -77.5 0.3
53.5 -550.5 -80 0.3
1 5
53.5 -550.5 -80 0.3
52 -559.5 -82.5 0.3
51.5 -565.5 -83 0.3
50.5 -570 -83 0.3
51.5 -574.5 -83.5 0.3
1 8
53.5 -550.5 -80 0.3
48.5 -554 -81.5 0.3
49.5 -557.5 -83.5 0.3
46 -561.5 -84 0.3
48 -567 -85.5 0.3
52 -576 -88.5 0.3
52.5 -582 -91.5 0.3
52.5 -587.5 -93 0.3
1 20
40 -426.5 -51.5 0.3
36.5 -437.5 -51.5 0.3
34 -449.5 -55.5 0.3
32 -463.5 -59.5 0.3
31 -471.5 -60 0.3
27.5 -477.5 -61.5 0.3
20.5 -484 -64 0.3
14 -489.5 -67 0.3
8 -498.5 -70 0.3
-0.5 -510.5 -72 0.3
-12 -522.5 -74 0.3
-19.5 -534 -75.5 0.3
-31.5 -545.5 -78 0.3
-37.5 -552 -79.5 0.3
-43.5 -563.5 -82.5 0.3
-49.5 -577.5 -86 0.3
-52.5 -584 -88 0.3
-54.5 -588.5 -89.5 0.3
-56.5 -591.5 -91 0.3
-57 -597.5 -92 0.3
1 18
63 -366.5 -38 0.5
70.5 -377 -36.5 0.3
85 -399.5 -37.5 0.3
98.5 -413 -41.5 0.3
110.5 -426.5 -45.5 0.3
117.5 -438.5 -46 0.3
120 -456.5 -46.5 0.3
123.5 -465.5 -47 0.3
138 -486 -50.5 0.3
144 -493.5 -52 0.3
149 -510.5 -54.5 0.3
152.5 -521.5 -56 0.3
155.5 -536 -58.5 0.3
160.5 -550.5 -61.5 0.3
163 -565.5 -63.5 0.3
161.5 -576 -67.5 0.3
162.5 -582.5 -69 0.3
163.5 -588.5 -70.5 0.3
1 5
39.5 -251 -36 0.5
57 -260.5 -37.5 0.3
75 -266.5 -42 0.3
93.5 -271.5 -45 0.3
108.5 -277.5 -45 0.3
1 13
17 -210.5 -28.5 0.6
16 -213.5 -33.5 0.3
16.5 -218 -37.5 0.3
17.5 -221.5 -39.5 0.3
19 -226.5 -41.5 0.3
19 -230 -45 0.3
21 -235 -48.5 0.3
25 -240 -53 0.3
31.5 -246 -58.5 0.3
32.5 -252.5 -62.5 0.3
30.5 -260.5 -63.5 0.3
31.5 -265 -65 0.3
29 -270 -65.5 0.3
1 2
-1.5 -146.5 -8.5 0.8
4.5 -152.5 -10 0.3
1 7
4.5 -152.5 -10 0.3
16 -161.5 -8 0.3
28 -173.5 -6 0.3
35 -182 -5 0.3
41.5 -197.5 -3.5 0.3
47 -210.5 -2.5 0.3
57 -223.5 -1.5 0.3
1 2
57 -223.5 -1.5 0.3
61.5 -228 -2.5 0.3
1 2
57 -223.5 -1.5 0.3
57 -229 -1.5 0.3
1 2
4.5 -152.5 -10 0.3
8 -155 -10.5 0.3
1 5
8 -155 -10.5 0.3
15.5 -153 -11.5 0.3
39 -156.5 -17.5 0.3
51.5 -159 -18.5 0.3
57.5 -162 -18 0.3
1 9
8 -155 -10.5 0.3
11.5 -163.5 -11.5 0.3
19.5 -176.5 -16 0.3
34 -186 -20.5 0.3
50 -198.5 -25 0.3
65.5 -214 -25.5 0.3
68.5 -217.5 -26 0.3
75 -231.5 -26.5 0.3
82.5 -243 -27.5 0.3
1 3
-12.5 -119 1 1.8
-6.5 -133 8.5 0.8
-4.5 -142.5 10.5 0.8
1 4
-4.5 -142.5 10.5 0.8
-1.5 -170.5 14 0.6
2 -190.5 18 0.6
4.5 -198 19.5 0.6
1 3
4.5 -198 19.5 0.6
12.5 -216 23 0.6
18.5 -228.5 26.5 0.6
1 6
18.5 -228.5 26.5 0.6
23 -242.5 27 0.3
29 -260.5 28.5 0.4
35.5 -285.5 33.5 0.4
37.5 -297 35.5 0.4
38.5 -302.5 36 0.4
1 18
38.5 -302.5 36 0.4
49 -320.5 36 0.4
55.5 -335 36 0.4
64 -359.5 34.5 0.4
79.5 -385.5 32.5 0.4
105 -416.5 27.5 0.4
118 -435 26.5 0.4
130.5 -448.5 30 0.4
140 -475 29 0.4
140.5 -489 29.5 0.4
151.5 -522 29 0.3
157 -535.5 29 0.3
156.5 -544 30 0.3
152 -563.5 28 0.3
153 -579 28 0.3
158.5 -591 29 0.3
162 -604 32 0.3
164.5 -609.5 32.5 0.3
1 5
164.5 -609.5 32.5 0.3
163.5 -619.5 34.5 0.3
162.5 -631.5 37 0.3
164 -641.5 38.5 0.3
168 -651.5 37 0.3
1 3
164.5 -609.5 32.5 0.3
168 -611.5 33 0.3
174 -614 35 0.3
1 16
38.5 -302.5 36 0.4
39.5 -311 40 0.3
44.5 -320.5 45 0.3
51 -332.5 49 0.3
56 -342 54 0.3
58.5 -354.5 58 0.3
64.5 -369 60 0.3
64 -378.5 63 0.3
61.5 -395 68 0.3
60.5 -408.5 72.5 0.3
58 -420 77.5 0.3
55 -437.5 82 0.3
54.5 -456.5 85 0.3
59.5 -475.5 87 0.3
66 -494 87.5 0.3
68.5 -503.5 88 0.3
1 10
68.5 -503.5 88 0.3
69.5 -523 82.5 0.3
69 -545.5 80 0.3
71 -567 78 0.3
81 -590.5 74 0.3
86 -611.5 70 0.3
84.5 -623.5 70 0.3
82 -634.5 66 0.3
77 -646 61.5 0.3
77 -654 58.5 0.3
1 7
68.5 -503.5 88 0.3
70 -517.5 91.5 0.3
69 -533 93.5 0.3
64 -546.5 96 0.3
55 -559 99.5 0.3
52.5 -576 103 0.3
51.5 -581 105 0.3
1 5
51.5 -581 105 0.3
46.5 -594 107 0.3
43 -610 109 0.3
37.5 -624.5 112 0.3
40 -634.5 111 0.3
1 5
51.5 -581 105 0.3
54.5 -584.5 104 0.3
56 -593 107.5 0.3
58 -601.5 110.5 0.3
64.5 -609 113 0.3
1 10
18.5 -228.5 26.5 0.6
21 -234 30 0.3
27.5 -243.5 35 0.3
36.5 -253.5 41 0.3
44 -264 48 0.3
50.5 -272 55 0.3
54 -278 60.5 0.3
57 -283 64.5 0.3
58.5 -289 67 0.3
55 -295.5 70 0.3
1 8
4.5 -198 19.5 0.6
-1 -206 20.5 0.3
-3 -217.5 22 0.3
-11 -228 23 0.3
-23.5 -243 27 0.3
-34 -253.5 31 0.3
-42 -263 33.5 0.3
-49.5 -266.5 34.5 0.3
1 9
-4.5 -142.5 10.5 0.8
2 -147 12 0.3
19 -156 16 0.3
40.5 -166 21 0.3
60.5 -176.5 25.5 0.3
78 -185 29.5 0.3
101.5 -190.5 35 0.3
115 -193.5 37.5 0.3
127 -199 38.5 0.3
1 3
-22 -101 0 3.5
-25.5 -109.5 -0.5 2
-27.5 -112.5 -1.5 1.7
1 3
-27.5 -112.5 -1.5 1.7
-31.5 -122 -1 1.2
-32 -127.5 1 1.2
1 3
-32 -127.5 1 1.2
-33.5 -140.5 1.5 1
-35 -149 3 1
1 4
-35 -149 3 1
-36 -161.5 2 0.6
-37.5 -182 3.5 0.6
-38.5 -196 4 0.6
1 5
-38.5 -196 4 0.6
-32 -209.5 3.5 0.6
-30.5 -218.5 5.5 0.6
-30.5 -229.5 5.5 0.6
-35 -241 6 0.6
1 4
-35 -241 6 0.6
-46.5 -261.5 3.5 0.6
-52.5 -281.5 0.5 0.5
-54 -291.5 -0.5 0.5
1 3
-54 -291.5 -0.5 0.5
-49.5 -312.5 -4.5 0.5
-48 -328 -5.5 0.5
1 18
-48 -328 -5.5 0.5
-45.5 -348 -9.5 0.3
-44 -361 -12.5 0.3
-41.5 -375.5 -15.5 0.3
-47 -393.5 -21.5 0.3
-49.5 -410 -25 0.3
-46.5 -424.5 -28.5 0.3
-38.5 -455 -30 0.3
-36 -465.5 -30.5 0.3
-27 -486.5 -31.5 0.3
-25 -512.5 -31 0.3
-26 -532.5 -32 0.3
-34.5 -572 -33.5 0.3
-40 -588.5 -37 0.3
-37 -607.5 -39.5 0.3
-31 -634.5 -42 0.3
-28.5 -641.5 -43.5 0.3
-27 -653 -45 0.3
1 4
-27 -653 -45 0.3
-14.5 -661 -46.5 0.3
-4 -671 -50 0.3
2 -679 -51 0.3
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CONNECTIONS:
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/*----------------------------------------------------------------*/
proc geometry() {
/* NULL geometry procedure: keeps the user from
calling the geometry procedure in isolation. */
printf("\nYou must re-read the entire geometry\n")
printf("file to execute geometry().\n\n")
}
/*________________________________________________________________*/
/* END OF FILE */