breeds [trans1 trans1.5 trans2 trans2.5 
        potent1 potent2 terminal]
patches-own [threshold1 threshold2
             available1 available2]

to setup
    ca
    soma-neuron1
    soma-neuron2
    axon-neuron1
    axon-neuron2
    terminus1
    terminus2
    setup-plot
    ask turtles
        [die]
    neurogen
    ask patches
        [set available1 1 
         set available2 1]
end

to go
   move
   increase
   update-plot
end  

to move
    ask trans1
        [set heading towardsxy-nowrap 0 60 
         rt random 90
         fd random 3
         lt random 90 
         fd random 3] 
    ask trans2
        [set heading towardsxy-nowrap 0 -10
         rt random 90
         fd random 3
         lt random 90 
         fd random 3] 
end         

to increase
    update1
    update2
    assess1
    assess2
    relay1
    relay2
    release1
    release2
end

to neurogen
    ask patch 0 -66
        [sprout 1 
             [set breed potent2]]
end

to update1    
    ask trans1 at-points [[0 60]]
        [ask patch -1 36 
            [if threshold1 <= 0
                [set threshold1 threshold1 + .1]]
        ask patch 0 36 
            [if threshold1 <= 0
                [set threshold1 threshold1 + .1]]
        ask patch 1 36 
            [if threshold1 <= 0
                [set threshold1 threshold1 + .1]]
         die]
        update-plot
end

to update2    
    ask trans2 at-points [[0 -11]]
        [ask patch -1 -35 
            [if threshold2 <= 0
                [set threshold2 threshold2 + .1]]
        ask patch 0 -35 
            [if threshold2 <= 0
                [set threshold2 threshold2 + .1]]
        ask patch 1 -35 
            [if threshold2 <= 0
                [set threshold2 threshold2 + .1]]

         die]
        update-plot
end


to assess1
   ask patches 
       [if threshold1 > 0
           [set threshold1 10
            fire1
            update-plot
            set threshold1 -3]]
end

to assess2
    ask patches 
       [if threshold2 > 0
           [set threshold2 10
            fire2
            update-plot
            set threshold2 -3]]
end

to fire1
    sprout 1 [set color red - .5
              set breed potent1
              set heading 180                  
              repeat 31 [stamp red fd 1]]
end

to fire2
    sprout 1 [set color red - .5
              set breed potent2
              set heading 180                  
              repeat 31 [stamp red fd 1]]
end

to relay1
   ask patch 0 5
       [if any potent1-here
       [ask potent1
           [die]
       sprout 4 [set color red
             set breed trans1.5]
       ask random-one-of trans1.5-here
            [set heading 180
             stamp red lt 94.5
             repeat 25 
                [stamp red lt 356 fd 1]]
       ask random-one-of trans1.5-here
            [set heading 180
             stamp red lt 55
             repeat 15 
                [stamp red lt 356 fd 1]]
       ask random-one-of trans1.5-here 
            [set heading 180
             stamp red rt 55
             repeat 15 
                [stamp red rt 356 fd 1]]
       ask random-one-of trans1.5-here
            [set heading 180
             stamp red rt 94.5
             repeat 25 
                [stamp red rt 356 fd 1]]]]
   axon-neuron1
   terminus1
end

to relay2
   ask patch 0 -66
       [if any potent2-here
       [ask potent2
           [die]
       sprout 4 [set color red
             set breed trans2.5]
       ask random-one-of trans2.5-here
            [set heading 180
             stamp red lt 94.5
             repeat 25 
                [stamp red lt 356 fd 1]]
       ask random-one-of trans2.5-here
            [set heading 180
             stamp red lt 55
             repeat 15 
                [stamp red lt 356 fd 1]]
       ask random-one-of trans2.5-here 
            [set heading 180
             stamp red rt 55
             repeat 15 
                [stamp red rt 356 fd 1]]
       ask random-one-of trans2.5-here
            [set heading 180
             stamp red rt 94.5
             repeat 25 
                [stamp red rt 356 fd 1]]]]
   axon-neuron2
   terminus2
end


to release1
    ask patches with [any trans1.5-here]
        ;[ifelse available1 > 1
             [sprout neurotransmitters1        
              [set color lime
               set breed trans2]]
              ;(set available1 0)]
             ;[set available1 available1 + .25]]              
    ask trans1.5
        [die]
end                
        

to release2
    ask patches with [any trans2.5-here]
        ;[ifelse available2 > 1
            [sprout neurotransmitters2        
              [set color cyan
               set breed trans1]]
;              (set available2 0)]
 ;           [set available2 available2 + .25]]              
    ask trans2.5
        [die]
end                

to axon-neuron1
    ask patch -2 36
        [sprout 1 [set color grey + .5
                   set heading 180
                   repeat 31 [stamp grey fd 1]
                   die]]
    ask patch -1 36
        [sprout 1 [set color grey - 1.5
                   set heading 180
                   repeat 31 [stamp grey - 1.5 fd 1]
                   die]]
    ask patch 0 36
        [sprout 1 [set color grey - 1.5
                   set heading 180
                   repeat 31 [stamp grey - 1.5 fd 1]
                   die]]        
    ask patch 1 36
        [sprout 1 [set color grey - 1.5
                   set heading 180
                   repeat 31 [stamp grey - 1.5 fd 1]
                   die]]
    ask patch 2 36
        [sprout 1 [set color grey + .5
                   set heading 180
                   repeat 31 [stamp grey fd 1]
                   die]]
end

to axon-neuron2
    ask patch -2 -35
        [sprout 1 [set color grey + .5
                   set heading 180
                   repeat 31 [stamp grey fd 1]
                   die]]
    ask patch -1 -35
        [sprout 1 [set color grey - 1.5
                   set heading 180
                   repeat 31 [stamp grey - 1.5 fd 1]
                   die]]
    ask patch 0 -35
        [sprout 1 [set color grey - 1.5
                   set heading 180
                   repeat 31 [stamp grey - 1.5 fd 1]
                   die]]
    ask patch 1 -35
        [sprout 1 [set color grey - 1.5
                   set heading 180
                   repeat 31 [stamp grey - 1.5 fd 1]
                   die]]
    ask patch 2 -35
        [sprout 1 [set color grey + .5
                   set heading 180
                   repeat 31 [stamp grey fd 1]
                   die]]
end

to terminus1
        ask patch 0 5
        [sprout 4 [set color grey - 1.5
                   set breed terminal]
         ask random-one-of terminal-here
             [set heading 180
              stamp grey - 1.5 lt 94.5
              repeat 25 
                 [stamp grey - 1.5 lt 356 fd 1]
              die]
         ask random-one-of terminal-here
             [set heading 180
              stamp grey - 1.5 lt 55
              repeat 15 
                 [stamp grey - 1.5 lt 356 fd 1]
              die]
         ask random-one-of terminal-here 
            [set heading 180
             stamp grey - 1.5 rt 55
             repeat 15 
                [stamp grey - 1.5 rt 356 fd 1]
             die]
         ask random-one-of terminal-here
             [set heading 180
              stamp grey - 1.5 rt 94.5
              repeat 25 
                 [stamp grey - 1.5 rt 356 fd 1]
              die]]
end

to terminus2
        ask patch 0 -66
        [sprout 4 [set color grey - 1.5
                   set breed terminal]
         ask random-one-of terminal-here
             [set heading 180
              stamp grey - 1.5 lt 94.5
              repeat 25 
                 [stamp grey - 1.5 lt 356 fd 1]
              die]
         ask random-one-of terminal-here
             [set heading 180
              stamp grey - 1.5 lt 55
              repeat 15 
                 [stamp grey - 1.5 lt 356 fd 1]
              die]
         ask random-one-of terminal-here 
            [set heading 180
             stamp grey - 1.5 rt 55
             repeat 15 
                [stamp grey - 1.5 rt 356 fd 1]
             die]
         ask random-one-of terminal-here
             [set heading 180
              stamp grey - 1.5 rt 94.5
              repeat 25 
                 [stamp grey - 1.5 rt 356 fd 1]
              die]]
end

to soma-neuron1
    ask patch 15 46  
        [sprout 1 [set color grey
                   set heading 262
                   repeat 8 [stamp grey fd 1]]]
    ask patch 11 56
        [sprout 1 [set color grey
                   set heading 230
                   repeat 8 [stamp grey fd 1]]]
    ask patch 0 60
        [sprout 1 [set color grey
                   set heading 180
                   repeat 7 [stamp grey fd 1]]]
    ask patch -12 56
        [sprout 1 [set color grey
                   set heading 130
                   repeat 8 [stamp grey fd 1]]]
    ask patch -16 46
        [sprout 1 [set color grey
                   set heading 98
                   repeat 8 [stamp grey fd 1]]]
    ask turtles-at 0 53  
        [stamp grey lt 90
            repeat 50 
            [stamp grey rt 7.2 fd 1]]
end

to soma-neuron2
    ask patch 15 -25 
        [sprout 1 [set color grey
                   set heading 262
                   repeat 8 [stamp grey fd 1]]]
    ask patch 11 -15
        [sprout 1 [set color grey
                   set heading 230
                   repeat 8 [stamp grey fd 1]]]
    ask patch 0 -11
        [sprout 1 [set color grey
                   set heading 180
                   repeat 7 [stamp grey fd 1]]]
    ask patch -12 -15
        [sprout 1 [set color grey
                   set heading 130
                   repeat 8 [stamp grey fd 1]]]
    ask patch -16 -25
        [sprout 1 [set color grey
                   set heading 98
                   repeat 8 [stamp grey fd 1]]]
    ask turtles-at 0 -18  
        [stamp grey lt 90
            repeat 50 
            [stamp grey rt 7.2 fd 1]]
end

to setup-plot
      set-current-plot "potential"
      set-plot-y-range -5 10 
end

to update-plot
      set-current-plot "potential"
      set-current-plot-pen "potent"
      plot count potent1 * 2
      set-current-plot-pen "threshold1"
      plot value-from (patch 0 36) [threshold1]           
end                      


@#$#@#$#@
GRAPHICS-WINDOW
321
10
648
358
70
70
2.25
1
10
0
0

CC-WINDOW
321
357
646
476
Command Center

BUTTON
45
48
112
81
setup
setup
NIL
1
T
OBSERVER

BUTTON
47
98
110
131
go
go
T
1
T
OBSERVER

MONITOR
130
147
187
196
trans1
count trans1
0
1

PLOT
59
205
259
355
potential
time
action potential
0.0
100.0
-5.0
10.0
true
false
PENS
"potent" 1.0 0 -65536 true
"threshold1" 1.0 0 -16777216 true

SLIDER
130
48
302
81
neurotransmitters1
neurotransmitters1
1
10
10
1
1
NIL

MONITOR
201
147
258
196
trans2
count trans2
0
1

SLIDER
130
98
302
131
neurotransmitters2
neurotransmitters2
1
10
10
1
1
NIL

@#$#@#$#@
WHAT IS IT?
-----------
This section could give a general understanding of what the model is trying to show or explain.


HOW IT WORKS
------------
This section could explain what rules the agents use to create the overall behavior of the model.


HOW TO USE IT
-------------
This section could explain how to use the model, including a description of each of the items in the interface tab.


THINGS TO NOTICE
----------------
This section could give some ideas of things for the user to notice while running the model.


THINGS TO TRY
-------------
This section could give some ideas of things for the user to try to do (move sliders, switches, etc.) with the model.


EXTENDING THE MODEL
-------------------
This section could give some ideas of things to add or change in the procedures tab to make the model more complicated, detailed, accurate, etc.


NETLOGO FEATURES
----------------
This section could point out any especially interesting or unusual features of NetLogo that the model makes use of, particularly in the Procedures tab.  It might also point out places where workarounds were needed because of missing features.


RELATED MODELS
--------------
This section could give the names of models in the NetLogo Models Library or elsewhere which are of related interest.


CREDITS AND REFERENCES
----------------------
This section could contain a reference to the model's URL on the web if it has one, as well as any other necessary credits or references.
@#$#@#$#@
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ant
true
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Polygon -7566196 true true 225 66 230 107 159 122 161 127 234 111 236 106
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Polygon -7566196 true true 65 224 92 171 134 160 135 164 95 175
Polygon -7566196 true true 235 222 210 170 163 162 161 166 208 174
Polygon -7566196 true true 249 107 211 147 168 147 168 150 213 150

arrow
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bee
true
0
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bird1
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bird2
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boat1
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boat2
false
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boat3
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Rectangle -6524078 true false 150 32 157 162
Polygon -16776961 true false 150 34 131 49 145 47 147 48 149 49
Polygon -7566196 true true 158 37 172 45 188 59 202 79 217 109 220 130 218 147 204 156 158 156 161 142 170 123 170 102 169 88 165 62
Polygon -7566196 true true 149 66 142 78 139 96 141 111 146 139 148 147 110 147 113 131 118 106 126 71

box
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butterfly1
true
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Polygon -7566196 true true 136 110 119 82 110 71 85 61 59 48 36 56 17 88 6 115 2 147 15 178 134 178
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Line -7566196 true 136 47 145 81
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Circle -7566196 true true 133 44 7
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Polygon -7566196 true true 216 83 267 123 248 143 215 107
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sheep
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Circle -16777216 true false 1 88 92

spacecraft
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Polygon -7566196 true true 150 0 180 135 255 255 225 240 150 180 75 240 45 255 120 135

thin-arrow
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Polygon -7566196 true true 150 0 0 150 120 150 120 293 180 293 180 150 300 150

truck-down
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Polygon -8716033 true false 195 225 195 180 240 180 240 225

truck-left
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Polygon -7566196 true true 120 135 225 135 225 210 75 210 75 165 105 165
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Polygon -8716033 true false 180 210 195 225 210 210

truck-right
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Polygon -8716033 true false 120 210 105 225 90 210

turtle
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Polygon -7566196 true true 60 90 83 44 104 90
Polygon -16777216 true false 67 90 82 59 97 89
Rectangle -1 true false 48 93 59 105
Rectangle -16777216 true false 51 96 55 101
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Polygon -1 true false 30 151 37 136 43 151
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Rectangle -7566196 true true 108 195 259 201
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Rectangle -7566196 true true 128 108 248 114
Rectangle -7566196 true true 150 105 225 108
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Rectangle -7566196 true true 210 214 232 270
Rectangle -7566196 true true 189 260 210 270
Line -7566196 true 263 127 281 155
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Polygon -6524078 true true 99 131 76 152 76 163 96 182 104 182 109 173 102 167 99 173 87 159 104 140
Polygon -6524078 true true 107 138 107 186 98 190 99 196 112 196 115 190
Polygon -6524078 true true 116 140 114 189 105 137
Rectangle -6524078 true true 109 150 114 192
Rectangle -6524078 true true 111 143 116 191
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Polygon -6524078 true true 207 140 200 163 206 175 207 192 193 189 192 177 198 176 185 150
Polygon -6524078 true true 214 134 203 168 192 148
Polygon -6524078 true true 204 151 203 176 193 148
Polygon -6524078 true true 207 103 221 98 236 101 243 115 243 128 256 142 239 143 233 133 225 115 214 114

wolf-right
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Polygon -6524078 true true 170 127 200 93 231 93 237 103 262 103 261 113 253 119 231 119 215 143 213 160 208 173 189 187 169 190 154 190 126 180 106 171 72 171 73 126 122 126 144 123 159 123
Polygon -6524078 true true 201 99 214 69 215 99
Polygon -6524078 true true 207 98 223 71 220 101
Polygon -6524078 true true 184 172 189 234 203 238 203 246 187 247 180 239 171 180
Polygon -6524078 true true 197 174 204 220 218 224 219 234 201 232 195 225 179 179
Polygon -6524078 true true 78 167 95 187 95 208 79 220 92 234 98 235 100 249 81 246 76 241 61 212 65 195 52 170 45 150 44 128 55 121 69 121 81 135
Polygon -6524078 true true 48 143 58 141
Polygon -6524078 true true 46 136 68 137
Polygon -6524078 true true 45 129 35 142 37 159 53 192 47 210 62 238 80 237
Line -16777216 false 74 237 59 213
Line -16777216 false 59 213 59 212
Line -16777216 false 58 211 67 192
Polygon -6524078 true true 38 138 66 149
Polygon -6524078 true true 46 128 33 120 21 118 11 123 3 138 5 160 13 178 9 192 0 199 20 196 25 179 24 161 25 148 45 140
Polygon -6524078 true true 67 122 96 126 63 144

@#$#@#$#@
NetLogo 1.3.1
@#$#@#$#@
@#$#@#$#@
@#$#@#$#@