;extensions [profiler]


globals [
  membrane-edge-x  ;; horizontal distance from center to edge of membrane
  membrane-edge-y  ;; vertical distance from center to edge of membrane
  membrane-center
  detector-value-1
  detector-value-2
  membrane-surface
  atom-batch-twist
 ; driver-vibration-frequency
  red-detector-size
  blue-detector-size
  length-of-simulation
 ; stength-of-push
  empty-space
  #atoms
  vibrate-particles?
  dark-friction-in-medium
  stiffness
  distance-of-blue-squares-from-sound-source
  particle-shape
  friction-in-medium
  particle-size
  slide-step
]


breed [grids grid]
breed [particles particle]
breed [dark-particles dark-particle]
breed [boundaries boundary]
breed [atoms atom ]
breed [detectors detector]
breed [graphics-detectors graphic-detector]

particles-own [
  edge?            ;; are we on the edge of the membrane?
  driver?          ;; are we part of the green driving plate?
  x                ;; position on x axis in space
  y                ;; position on y axis in space
  z                ;; position on z axis in space
  velocity         ;; velocity along z axis
  neighbor-particles ;; agentset of particles adjacent to us
]

dark-particles-own [
  edge?
  driver?
  x                ;; position on x axis in space
  y                ;; position on y axis in space
  z                ;; position on z axis in space
  velocity         ;; velocity along z axis
  neighbor-particles ;; agentset of particles adjacent to us
]

boundaries-own [
  edge?
  driver?
  x                ;; position on x axis in space
  y                ;; position on y axis in space
  z                ;; position on z axis in space
  velocity         ;; velocity along z axis
  neighbor-particles ;; agentset of particles adjacent to us
]


patches-own [detector? detector-number]

atoms-own [kind x y offset-distance tracking?]



to setup
  clear-all
  set particle-size 1.0
  set stiffness 3.0
  set vibrate-particles? true
  set empty-space 1
  set #atoms 3
  set slide-step 20
  set friction-in-medium 0
  set distance-of-blue-squares-from-sound-source 1
  set dark-friction-in-medium 6
  ;set stength-of-push 15
  set length-of-simulation 499
 ; set driver-vibration-frequency 30
  set red-detector-size 1
  set blue-detector-size 1
  set atom-batch-twist false
  set membrane-surface ""
  set membrane-surface "rigid"
  set particle-shape "offset-circle"

create-graphics-detectors 1 [set color black setxy -3.5 0 set size 6 set shape "detector" set hidden? true]

  ask patches [set detector? false set pcolor white]
  ask patches with [(pxcor <= max-pxcor  - 1) and pycor = 0]
    [ sprout 1
        [ set breed particles
         ; set color [0 255 0 150]
           set hidden? true
           set edge? false
           set driver? false
           set size 1.1
          if (( pxcor >= (min-pxcor + 2) and pxcor <= min-pxcor + 3) and pxcor != max-pxcor )
             [set driver? true  set shape "rectangle" set color orange set hidden? false set size 3.6
             ; if  pxcor = (min-pxcor + 4) [set shape "half-face"]

           ]
          set x xcor
          set y ycor
          set z 0
          set velocity 0
         ; repack-new
          ]
        ]

   ask patches with [(pxcor <= max-pxcor  - 1) and pycor = 0][
     sprout 1
     [
       set breed dark-particles
       set edge? false
       set driver? false

       set x xcor
       set y ycor
       set z 0

       set velocity 0
       set hidden? true
      ; repack-new
     ]
   ]

   ask patches with [(pxcor = max-pxcor) and pycor >= (min-pycor + empty-space) and pycor <= (max-pycor - empty-space)][
     sprout 1
     [
       set breed boundaries
       set edge? false
       set driver? false
       set color violet
       set x xcor
       set y ycor
       set z 0
       set velocity 0
       set hidden? true
     ;  repack-new
     ]
   ]

  ask particles
    [
      let these-particle-neighbors particles-on neighbors4
      let these-boundary-neighbors boundaries-on neighbors4
      let myxcor x
    ;  if (driver?) [set hidden? false]
    ;  set shape "square"
    ;  set size 2

    ifelse myxcor = (max-pxcor - 1) [set neighbor-particles (turtle-set these-particle-neighbors these-boundary-neighbors) with [x != myxcor] ]
      [  set neighbor-particles these-particle-neighbors with [x != myxcor]  ]
     ]

    ask dark-particles
    [
      let these-dark-neighbors dark-particles-on neighbors4
      let these-boundary-neighbors boundaries-on neighbors4
      let myxcor x
      ifelse myxcor = (max-pxcor - 1) [ set neighbor-particles (turtle-set these-dark-neighbors these-boundary-neighbors) with [x != myxcor]]
      [ set neighbor-particles these-dark-neighbors with [x != myxcor]   ]
   ]

   ask boundaries
    [
      let these-dark-neighbors dark-particles-on neighbors4
      let these-particle-neighbors particles-on neighbors4
      let myxcor x
      set neighbor-particles (turtle-set these-dark-neighbors these-particle-neighbors) with [x != myxcor]
     ]

    ask patches [
     let min-xpos -5

      if (pxcor >= (min-xpos + distance-of-blue-squares-from-sound-source) and pxcor <= (min-xpos + distance-of-blue-squares-from-sound-source + 1)  ) and (abs pycor < 2 )
      [set detector? true]


    ]

  ;  ask patches [
  ;  sprout 1 [set breed grids set shape "grid" set color [255 255 255 55] stamp die]
  ;  ]
  make-atoms-new
   ;   ask atoms [
     ;  ifelse show-particles-in-medium?
   ;    [set hidden? not show-particles-in-medium?]
  ;     [set hidden? not show-particles-in-medium?]
  ;    ]
  repack-new
 ; calculate-detector-values
;

  reset-ticks
end








to make-atoms-new
   let counter-x 0
   let min-x (min-pxcor + 5)
   let x-offset -.45
   let x-offset-2 0
   let x-offset-3 0
   let counter-y 0
   let min-y -1.4
   let closest-particle nobody

   repeat 3 [
   repeat 2 [

   repeat 2 [

     repeat (abs (min-x * 2) + 4) [
       create-atoms 1 [set breed atoms set size (.45 * particle-size) set color [50 175 50] set shape "offset-circle" set hidden? false
            setxy (min-x + counter-x + x-offset + x-offset-2 + x-offset-3 ) (min-y + counter-y)
            set offset-distance (pxcor - xcor)
            rt random 360
            set color [50 175 50]
            set closest-particle min-one-of particles [distance myself]
            create-link-from closest-particle [tie set hidden? true]
            set x xcor
            set y ycor
            set tracking? false
       ]
       set counter-x counter-x + 1

     ]
     set counter-x 0
     set x-offset x-offset + 0.5
     set counter-y counter-y + 0.25
   ]
     set x-offset -.45
     set x-offset-2 x-offset-2 + (0.052)
   ]

     set x-offset -.45
    ; set x-offset-2  0
     set x-offset-3 x-offset-3 - (0.16)

   ]



ask particles with [not edge? and not driver?] [set hidden? true]
end

to repack  ;; turtle procedure'
  let my-xcor 0
 ask (turtle-set particles boundaries dark-particles) [
  if not edge?
    [
      setxy x y
      set heading -90

      fd z / slide-step

      ]
   ]
end

to repack-new  ;; turtle procedure'
  let my-xcor 0

  ask (turtle-set particles boundaries dark-particles) [
  if not edge?
    [
      setxy x y
      set heading -90
      fd z / slide-step
      ]
   ]

 ask (particles) [
  if not edge?
    [

      let this-z z
    ;  fd z / slide-step
      if breed = particles and any? link-neighbors [
        set my-xcor x
        let left-neighbor-particle  one-of neighbor-particles with [x < my-xcor]
        let right-neighbor-particle one-of neighbor-particles with [x > my-xcor]
        let z-left [z] of left-neighbor-particle
        let z-right[z] of right-neighbor-particle

        ask link-neighbors [
          set xcor x
          set ycor y
          set heading -90
          fd this-z / slide-step
          if offset-distance < 0 [fd offset-distance *  (z-left  - this-z) / slide-step]
          if offset-distance > 0 [fd offset-distance *  (this-z - z-right) / slide-step]
        ;  if wiggle? [rt random 360]
        ]

       ]  ;ask atoms with []
      ]
   ]

end


to check-driver

    ask particles

    [
       let driver-vibration-frequency vibration-frequency * 30
      ifelse driver?
        [ set z (vibration-amplitude * -1 * (sin (0.1 * driver-vibration-frequency * ticks)))
          if (0.1 * driver-vibration-frequency * ticks) / 360 >= #-of-repeated-vibrations [set z 0] ]
        [ set z (z + velocity)]
     ; set hidden? true
     ]
  ask boundaries      [ set z (z + velocity)]
  ask dark-particles  [ set z (z + velocity)]
end

to go
  if (ticks >  length-of-simulation) [stop]


  ask particles with [not edge?]
    [ propagate-across-particles friction-in-medium ]
  ask boundaries
    [ propagate-across-particles friction-in-medium]
  ask dark-particles
    [ propagate-across-particles dark-friction-in-medium]

  check-driver

  check-mouse-click

  repack-new
  ;calculate-detector-values

  tick
end



to check-mouse-click
  if mouse-down? and mouse-inside? [
    let this-mouse-xcor mouse-xcor
    let this-mouse-ycor mouse-ycor

    let atoms-near-mouse atoms with [sqrt (((xcor - mouse-xcor) ^ 2) + ((ycor - mouse-ycor) ^ 2)) <= .25  ]
    ask atoms [set tracking? false set color [50 175 50]]
    if any? atoms-near-mouse [ask atoms-near-mouse [set tracking? true]]
  ]


    if mouse-inside?
      [ask atoms with [tracking? = true][set color red] ]

end



to propagate-across-particles [this-friction-in-medium]  ;; turtle procedure -- propagates the wave from neighboring particles
  set velocity (velocity +  (stiffness * 0.01) *  (sum [z] of neighbor-particles -  2 * z))
  set velocity (((1000 - this-friction-in-medium) / 1000) * velocity)
end


to-report #-atoms-at-detector
  let p 0
 ; ifelse show-detector-region?
  ;   [set p (count atoms with [pxcor >= -4 and pxcor <= -3] )]
   ;   [set p "N/A"]
  report 0
end





; Copyright 1997 Uri Wilensky.
; See Info tab for full copyright and license.
@#$#@#$#@
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@#$#@#$#@
## WHAT IS IT?

## HOW IT WORKS

## HOW TO USE IT

## THINGS TO TRY

## EXTENDING THE MODEL

## NETLOGO FEATURES

## CREDITS AND REFERENCES

Developed by Michael Novak, Northwestern University, Evanston, IL.

This model is based on the code from the NetLogo Wave Machine model:  http://ccl.northwestern.edu/netlogo/models/WaveMachine.  Center for Connected Learning and Computer-Based Modeling, Northwestern University, Evanston, IL.


## HOW TO CITE

If you mention this model in a publication, we ask that you include this citation

* Wilensky, U. (1999). NetLogo. http://ccl.northwestern.edu/netlogo/. Center for Connected Learning and Computer-Based Modeling, Northwestern University, Evanston, IL.


## COPYRIGHT AND LICENSE

Copyright 1997 Uri Wilensky.

![CC BY-NC-SA 3.0](http://i.creativecommons.org/l/by-nc-sa/3.0/88x31.png)

This work is licensed under the Creative Commons Attribution-NonCommercial-ShareAlike 3.0 License.  To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-sa/3.0/ or send a letter to Creative Commons, 559 Nathan Abbott Way, Stanford, California 94305, USA.

Commercial licenses are also available. To inquire about commercial licenses, please contact Uri Wilensky at uri@northwestern.edu.

This model was created as part of the project: CONNECTED MATHEMATICS: MAKING SENSE OF COMPLEX PHENOMENA THROUGH BUILDING OBJECT-BASED PARALLEL MODELS (OBPML).  The project gratefully acknowledges the support of the National Science Foundation (Applications of Advanced Technologies Program) -- grant numbers RED #9552950 and REC #9632612.

This model was converted to NetLogo as part of the projects: PARTICIPATORY SIMULATIONS: NETWORK-BASED DESIGN FOR SYSTEMS LEARNING IN CLASSROOMS and/or INTEGRATED SIMULATION AND MODELING ENVIRONMENT. The project gratefully acknowledges the support of the National Science Foundation (REPP & ROLE programs) -- grant numbers REC #9814682 and REC-0126227. Converted from StarLogoT to NetLogo, 2001.
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