;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; 1. DECLARATIONS ;; ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; breed [ mammals mammal ] breed [ reptiles reptile ] turtles-own [ body-size ;; intrinsic size of the turtle (scales movement, energy threshold, predation) energy ;; accumulated energy from eating; when ≥ body-size * tummy-size-factor → breed breeding-mode? ;; true if turtle is seeking a mate infected? ;; true if reptile is infected by fungus family-avoid-timer ;; ticks remaining to avoid close proximity to family after breeding base-color ;; default color to revert to when not in special state sprint-timer ;; ticks remaining in a sprint (fleeing or chasing) cooldown-timer ;; ticks remaining before turtle may hunt again has-moved? ;; true if turtle has already moved this tick post-kill-immunity ;; ticks remaining immune to infection after making a kill ] patches-own [ plant-mass ;; units of plant biomass on this patch fungus-level ;; units of fungal biomass on this patch meat-level ;; units of meat available here (dropped by kills) meat-age ;; ticks since meat was created; only meat-age > 0 is edible ] globals [ BASE-SPEED ;; base movement speed (patches per tick) REPTILE-SPEED-MULTIPLIER ;; speed multiplier applied to reptiles MINIMUM-SIZE ;; minimum allowed body-size for hatchlings zcor ;; vertical offset so turtles hover above patches ;; slider‐defined parameters (commented out here; defined on the Interface) ;; INITIAL-REPTILES ; number of reptile agents at setup ;; INITIAL-MAMMALS ; number of mammal agents at setup ;; INITIAL-PLANT-SEEDS ; initial number of plant patches ;; INITIAL-FUNGAL-SPORES ; initial number of fungus patches ;; OFFSPRING_SIZE_FRAC_DIFF ; variation fraction in offspring size ;; FOOD-CONSUMPTION-RATE ; max food units consumed per tick ;; FAMILY-AVOIDANCE-DUR ; ticks to avoid family after reproduction ;; LIGHT-LEVEL ; ambient light level (0–1) affecting growth ;; FUNGAL-GROWTH-RATE ; base rate at which fungus spreads ;; PLANT-GROWTH-RATE ; base rate at which plants spread ;; INITIAL-SIZE-FRAC ; initial size variation fraction ;; FUNGAL-RECOVERY-CHANCE ; per-tick chance reptiles recover from infection ;; SEED-SPAWN-PERIOD ; avg ticks between random plant seed spawns ;; PERCEPTION-RADIUS ; detection radius for food, threats, mates ;; PREY-SIZE-FRAC-MIN ; min prey size as fraction of predator ;; PREY-SIZE-FRAC-MAX ; max prey size as fraction of predator ;; FUNGUS-AVOIDANCE ; chance reptiles avoid fungus ahead ;; CHASE-DURATION ; ticks spent sprinting when chasing prey ;; FLEE-DURATION ; ticks spent sprinting when fleeing threat ;; ROT-CHANCE ; chance meat patch turns to fungus when eaten ;; MEAT-BONUS ; energy gained per unit of meat ;; HUNT-COOLDOWN ; ticks predator must wait post-hunt ;; meat counts (when eating live turtles and scavenging) meat-consumed-by-mammals meat-consumed-by-reptiles ;; plant & fungus counters (when foraging) fungus-consumed-by-mammals plant-consumed-by-mammals plant-consumed-by-reptiles tummy-size-factor ;controls how much turtles need to eat before entering breeding mode SPORE-EMISSION ;; how much each fungus patch emits per tick (e.g. 1) SPORE-DIFFUSION ;; fraction of neighbor field that flows in (e.g. 0.2) SPORE-DECAY ;; fraction lost each tick (e.g. 0.05) PREDATION-IMMUNITY-TICKS ;; how many ticks of immunity you want ] ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; 2. SETUP ;; ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; to setup clear-all ;; set our movement constants set BASE-SPEED 1 set REPTILE-SPEED-MULTIPLIER 1.25 ;; enforce a minimum initial size set MINIMUM-SIZE 2 set zcor 1 ;; Keep turtle above patches set tummy-size-factor 10 set SPORE-EMISSION 1 set SPORE-DIFFUSION 0.2 set SPORE-DECAY 0.05 set PREDATION-IMMUNITY-TICKS 20 ;; -- reset patches -- ask patches [ set plant-mass 0 set fungus-level 0 set meat-level 0 set meat-age 0 set pcolor scale-color white LIGHT-LEVEL 0 1 ] ;; -- seed plants & fungus -- ask n-of INITIAL-PLANT-SEEDS patches [ set plant-mass 1 set pcolor green ] ask n-of INITIAL-FUNGAL-SPORES patches [ set fungus-level 1 set pcolor violet ] ;; -- create mammals with float sizes & initialized state -- create-mammals INITIAL-MAMMALS [ ;; size variability with a global minimum let base-size 3.0 let frac INITIAL-SIZE-FRAC let raw-min base-size * (1 - frac) let min-size max (list raw-min MINIMUM-SIZE) let max-size base-size * (1 + frac) set body-size (random-float (max-size - min-size)) + min-size set size body-size set post-kill-immunity 0 ;; visuals & shape set base-color brown set color base-color set shape "mammal" set zcor 1 ;; initialize state set energy 0 set breeding-mode? false set infected? false set family-avoid-timer 0 set sprint-timer 0 set cooldown-timer 0 move-to one-of patches ;; clear any food under this newborn ask patch-here [ set plant-mass 0 set fungus-level 0 set meat-level 0 set pcolor scale-color white LIGHT-LEVEL 0 1] ] ;; -- create reptiles with float sizes & initialized state -- create-reptiles INITIAL-REPTILES [ let base-size 5.0 let frac INITIAL-SIZE-FRAC let raw-min base-size * (1 - frac) let min-size max (list raw-min MINIMUM-SIZE) let max-size base-size * (1 + frac) set body-size (random-float (max-size - min-size)) + min-size set size body-size set base-color (yellow + 2) set color base-color set shape "reptile" set zcor 1 set energy 0 set breeding-mode? false set infected? false set post-kill-immunity 0 set sprint-timer 0 set cooldown-timer 0 set family-avoid-timer 0 move-to one-of patches ;; clear any food under this newborn ask patch-here [ set plant-mass 0 set fungus-level 0 set meat-level 0 set pcolor scale-color white LIGHT-LEVEL 0 1] ] ;; initialize all consumption counters set meat-consumed-by-mammals 0 set meat-consumed-by-reptiles 0 set fungus-consumed-by-mammals 0 set plant-consumed-by-mammals 0 set plant-consumed-by-reptiles 0 reset-ticks end ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; 3. MAIN LOOP ("go") ;; ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; to go ;; Reset movement flags ask turtles [ set has-moved? false ] no-display ;; age all meat by one tick ask patches with [ meat-level > 0 ] [ set meat-age meat-age + 1 ] ;; 1. background only on empty ground update-background-color ;; 2. animal behavior ask mammals [ if family-avoid-timer > 0 [ set family-avoid-timer family-avoid-timer - 1 ] if not breeding-mode? [ wander-and-hunt ] if breeding-mode? [ seek-mate ] ] ask reptiles [ if family-avoid-timer > 0 [ set family-avoid-timer family-avoid-timer - 1 ] if not breeding-mode? [ wander-and-hunt ] if breeding-mode? [ seek-mate ] ] ;; 3. reproduction & infection handle-mating ask reptiles [ if [fungus-level] of patch-here > 0 and not infected? and post-kill-immunity = 0 [ set infected? true ] if infected? [ handle-infection ] ] ;; 4. plant & fungus growth ask patches with [ plant-mass > 0 ] [ grow-plants-on-patch ] spawn-plant-seeds ;diffuse-spores ask patches with [ fungus-level > 0 ] [ grow-fungus-on-patch ;grow-fungus-chemotactic ] ;; 5. visual updates ;ask mammals [ update-visuals ] ;ask reptiles [ update-visuals ] ask turtles [ update-visuals ] ;; finally, draw and advance time display tick ask turtles with [post-kill-immunity > 0] [ set post-kill-immunity post-kill-immunity - 1 ] end ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; 4. BACKGROUND UPDATE ;; ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; to update-background-color ask patches with [ plant-mass = 0 and fungus-level = 0 and meat-level = 0 ] [ set pcolor scale-color white LIGHT-LEVEL 0 1 ] end ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; 5. FORAGING & MOVEMENT ;; ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; to avoid-fungus-old ;; reptiles only if breed = reptiles [ let ahead patch-ahead 1 if ahead != nobody and [fungus-level] of ahead > 0 and random-float 1 < FUNGUS-AVOIDANCE [ let safe patches in-radius PERCEPTION-RADIUS with [fungus-level = 0] if any? safe [ face one-of safe ] ] ] end to avoid-fungus [orig-hdg] ;; reptiles only if breed = reptiles [ let ahead patch-ahead 1 if ahead != nobody and [fungus-level] of ahead > 0 and random-float 1 < FUNGUS-AVOIDANCE [ ;; pick one of three equally likely strategies let choice random 3 if choice = 0 [ ;; OPTION 1: head to any fungus-free plant patch in perception let safe-plants patches in-radius PERCEPTION-RADIUS with [ plant-mass > 0 and fungus-level = 0 ] if any? safe-plants [ face one-of safe-plants stop ] ;; if none, fall through to next options ] if choice = 1 [ ;; OPTION 2: just wander rt random 360 stop ] ;; OPTION 3: original detour logic let candidates neighbors4 with [ fungus-level = 0 and abs subtract-headings orig-hdg towards myself <= 90 ] if any? candidates [ let best min-one-of candidates [ abs subtract-headings orig-hdg towards myself ] face best stop ] ] ] end to wander-and-hunt show-turtle if has-moved? [ stop ] if breeding-mode? [ stop ] ;; 1) EAT UNDERFOOT: MEAT if [meat-level] of patch-here > 0 and [meat-age] of patch-here > 0 [ let eaten-m min (list FOOD-CONSUMPTION-RATE [meat-level] of patch-here) ask patch-here [ set meat-level meat-level - eaten-m if meat-level = 0 [ set meat-age 0 set pcolor scale-color white LIGHT-LEVEL 0 1 if [breed] of myself = mammals and random-float 1 < ROT-CHANCE [ set fungus-level 1 set pcolor violet ] ] ] set infected? false set energy energy + (MEAT-BONUS * eaten-m) if energy >= (body-size * tummy-size-factor) [ set breeding-mode? true stop ] set has-moved? true stop ] ;; 2) EAT UNDERFOOT: FUNGUS (mammals only) if breed = mammals and [fungus-level] of patch-here > 0 [ let eaten-f min (list FOOD-CONSUMPTION-RATE [fungus-level] of patch-here) ask patch-here [ set fungus-level fungus-level - eaten-f if fungus-level <= 0 [ set fungus-level 0 set pcolor scale-color white LIGHT-LEVEL 0 1 ] ] set fungus-consumed-by-mammals fungus-consumed-by-mammals + eaten-f set energy energy + eaten-f if energy >= (body-size * tummy-size-factor) [ set breeding-mode? true stop ] set has-moved? true stop ] ;; 3) EAT UNDERFOOT: PLANTS if [plant-mass] of patch-here > 0 [ let eaten-p min (list FOOD-CONSUMPTION-RATE [plant-mass] of patch-here) ask patch-here [ set plant-mass plant-mass - eaten-p if plant-mass <= 0 [ set plant-mass 0 set pcolor scale-color white LIGHT-LEVEL 0 1 ] ] if breed = mammals [ set plant-consumed-by-mammals plant-consumed-by-mammals + eaten-p ] if breed = reptiles [ set plant-consumed-by-reptiles plant-consumed-by-reptiles + eaten-p ] set energy energy + eaten-p if energy >= (body-size * tummy-size-factor) [ set breeding-mode? true stop ] set has-moved? true stop ] ;; 4) SPRINT / HUNT‑COOLDOWN if sprint-timer > 0 [ let spd BASE-SPEED if breed = reptiles [ set spd spd * REPTILE-SPEED-MULTIPLIER if infected? [ set spd spd * 0.5 ] ] fd spd * (1.2 + random-float 0.3) set sprint-timer sprint-timer - 1 if sprint-timer = 0 [ set cooldown-timer HUNT-COOLDOWN ] set has-moved? true stop ] if cooldown-timer > 0 [ set cooldown-timer cooldown-timer - 1 ] ;; 6) COMPUTE STEP SIZE let step-size BASE-SPEED if breed = reptiles [ set step-size step-size * REPTILE-SPEED-MULTIPLIER if infected? [ set step-size step-size * 0.5 ] ] if step-size <= 0 [ set step-size 0.1 ] ;; 7) FLEE THREATS let threats turtles in-radius PERCEPTION-RADIUS with [ self != myself and body-size > ([body-size] of myself) * 1.5 and not (breeding-mode? and [breeding-mode?] of myself and breed = [breed] of myself) ] if any? threats [ let threat min-one-of threats [distance myself] face threat rt 180 if can-move? step-size [ fd step-size ] set sprint-timer FLEE-DURATION set has-moved? true stop ] ;; 8) HUNT LIVE PREY (only off cooldown) if cooldown-timer = 0 and not (breed = reptiles and infected?) [ let prey turtles in-radius PERCEPTION-RADIUS with [ self != myself and body-size < ([body-size] of myself) * prey-size-frac-max and body-size > ([body-size] of myself) * prey-size-frac-min ] if any? prey [ let target one-of prey face target if breed = reptiles [ avoid-fungus heading ] let d distance target let kill-range max list step-size (body-size / 2) if d <= kill-range [ ask target [ kill-creature ] set post-kill-immunity PREDATION-IMMUNITY-TICKS set infected? false set cooldown-timer HUNT-COOLDOWN set has-moved? true stop ] if can-move? step-size [ fd step-size ] set has-moved? true stop ] ] ;; 9) FORAGE FOR MEAT IN VISION let meat-patches patches in-radius PERCEPTION-RADIUS with [ meat-level > 0 and meat-age > 0 ] if any? meat-patches [ let target-patch min-one-of meat-patches [distance myself] face target-patch if breed = reptiles [ avoid-fungus heading ] let d distance target-patch if can-move? step-size [ ifelse d <= step-size [ move-to target-patch ] [ fd step-size ] ] if patch-here = target-patch [ let eaten-m min (list FOOD-CONSUMPTION-RATE meat-level) ask patch-here [ set meat-level meat-level - eaten-m if meat-level = 0 [ set meat-age 0 set pcolor scale-color white LIGHT-LEVEL 0 1 if random-float 1 < ROT-CHANCE [ set fungus-level 1 set pcolor violet ] ] ] set energy energy + (MEAT-BONUS * eaten-m) if energy >= (body-size * tummy-size-factor) [ set breeding-mode? true stop ] if breed = mammals [ set meat-consumed-by-mammals meat-consumed-by-mammals + eaten-m ] if breed = reptiles [ set meat-consumed-by-reptiles meat-consumed-by-reptiles + eaten-m ] ] set has-moved? true stop ] ;; 10) FORAGE FOR FUNGUS (mammals only) if breed = mammals [ let fungus-patches patches in-radius PERCEPTION-RADIUS with [ fungus-level > 0 ] if any? fungus-patches [ let target-patch min-one-of fungus-patches [distance myself] face target-patch let d distance target-patch if can-move? step-size [ ifelse d <= step-size [ move-to target-patch ] [ fd step-size ] ] if patch-here = target-patch [ let eaten-f min (list FOOD-CONSUMPTION-RATE fungus-level) ask patch-here [ set fungus-level fungus-level - eaten-f if fungus-level <= 0 [ set fungus-level 0 set pcolor scale-color white LIGHT-LEVEL 0 1 ] ] set energy energy + eaten-f set fungus-consumed-by-mammals fungus-consumed-by-mammals + eaten-f if energy >= (body-size * tummy-size-factor) [ set breeding-mode? true stop ] ] set has-moved? true stop ] ] ;; 11) FORAGE FOR PLANTS let plant-patches patches in-radius PERCEPTION-RADIUS with [ plant-mass > 0 ] if any? plant-patches [ let target-patch min-one-of plant-patches [distance myself] face target-patch if breed = reptiles [ avoid-fungus heading ] let d distance target-patch if can-move? step-size [ ifelse d <= step-size [ move-to target-patch ] [ fd step-size ] ] if patch-here = target-patch [ let eaten-p min (list FOOD-CONSUMPTION-RATE plant-mass) ask patch-here [ set plant-mass plant-mass - eaten-p if plant-mass <= 0 [ set plant-mass 0 set pcolor scale-color white LIGHT-LEVEL 0 1 ] ] set energy energy + eaten-p if energy >= (body-size * tummy-size-factor) [ set breeding-mode? true stop ] if breed = mammals [ set plant-consumed-by-mammals plant-consumed-by-mammals + eaten-p ] if breed = reptiles [ set plant-consumed-by-reptiles plant-consumed-by-reptiles + eaten-p ] ] set has-moved? true stop ] ;; 12) RANDOM WANDER rt random 50 - 25 if can-move? step-size [ fd step-size ] set has-moved? true end ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; 6. REPRODUCTION & INFECTION ;; ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; to kill-creature ;; 1) build a pool of nearby patches let pool patches in-radius 1 ;; 2) decide how many meat‐pieces to drop let raw-pieces ceiling body-size let pieces min (list raw-pieces count pool) if pieces < raw-pieces [ set pool patches in-radius 2 set pieces min (list raw-pieces count pool) ] ;; 3) drop the meat on those patches ask n-of pieces pool [ set meat-level meat-level + 1 set meat-age 0 set pcolor red ] ;; 4) **now kill the turtle itself** die end to seek-mate show-turtle if not breeding-mode? [ stop ] ;; 1) FLEE any larger threat let threats turtles in-radius PERCEPTION-RADIUS with [ self != myself and body-size > ([body-size] of myself) * 1.5 and not (breeding-mode? and [breeding-mode?] of myself and breed = [breed] of myself) ] if any? threats [ let threat min-one-of threats [ distance myself ] face threat rt 180 ; Don't call avoid-fungus here because they'd rather risk infection than get eaten! let spd BASE-SPEED if breed = reptiles [ set spd spd * REPTILE-SPEED-MULTIPLIER if infected? [ set spd spd * 0.5 ] ] let flee-speed spd * (1.2 + random-float 0.3) if can-move? flee-speed [ fd flee-speed ] set has-moved? true stop ] ;; 2) FIND A PARTNER let partner min-one-of turtles with [ breed = [breed] of myself and breeding-mode? and self != myself ] [ distance myself ] if partner = nobody [ stop ] ;; 3) MOVE TOWARD THE PARTNER without overshooting face partner if breed = reptiles [ avoid-fungus heading ] let spd BASE-SPEED if breed = reptiles [ set spd spd * REPTILE-SPEED-MULTIPLIER if infected? [ set spd spd * 0.5 ] ] let d distance partner if d <= spd [ move-to partner set has-moved? true stop ] if can-move? spd [ fd spd ] set has-moved? true end to handle-mating ask mammals with [breeding-mode?] [ if any? other mammals-here with [breeding-mode?] [ reproduce-with one-of other mammals-here with [breeding-mode?] ] ] ask reptiles with [breeding-mode?] [ if any? other reptiles-here with [breeding-mode?] [ reproduce-with one-of other reptiles-here with [breeding-mode?] ] ] end to reproduce-with [mate] if not (breeding-mode? and [breeding-mode?] of mate) [ stop ] ;; determine brood size let num-offspring 0 if breed = mammals [ let r random-float 100 if r < 65 [ set num-offspring 1 ] if r >= 65 [ set num-offspring 2 ] ] if breed = reptiles [ let r random-float 100 if r < 40 [ set num-offspring 3 ] if r >= 40 and r < 65 [ set num-offspring 3 ] if r >= 65 and r < 90 [ set num-offspring 2 ] if r >= 90 [ set num-offspring 1 ] ] ;; build offspring-size list with a global minimum let size1 body-size let size2 [body-size] of mate let raw-smaller min (list size1 size2) let raw-larger max (list size1 size2) let frac OFFSPRING_SIZE_FRAC_DIFF let raw-s1 raw-smaller * (1 - frac) let raw-s4 raw-larger * (1 + frac) ;; now enforce the minimum let s1 max (list raw-s1 MINIMUM-SIZE) let s2 max (list raw-smaller MINIMUM-SIZE) let s3 max (list raw-larger MINIMUM-SIZE) let s4 max (list raw-s4 MINIMUM-SIZE) let possible-sizes (list s1 s2 s3 s4) ;; hatch hatch num-offspring [ set shape [shape] of myself set body-size one-of possible-sizes set size body-size set energy 0 set breeding-mode? false set infected? false set family-avoid-timer FAMILY-AVOIDANCE-DUR ;; color is handled in update-visuals set zcor 1 ] ;; reset parents & nudge apart set breeding-mode? false set energy 0 set family-avoid-timer FAMILY-AVOIDANCE-DUR ask mate [ set breeding-mode? false set energy 0 set family-avoid-timer FAMILY-AVOIDANCE-DUR ] rt 180 fd 1 ask mate [ rt 180 fd 1 ] ask turtles-here with [family-avoid-timer > 0] [ rt random 360 fd 1 ] end to handle-infection if random-float 1 < FUNGAL-DEATH-CHANCE [ kill-creature stop ] if random-float 1 < FUNGAL-RECOVERY-CHANCE [ set infected? false ] end to update-visuals ;; ensure visible and appropriately sized show-turtle set size max (list 1 body-size) ;; 1) infected reptiles → magenta, then stop if breed = reptiles and infected? [ set color magenta stop ] ;; 2) breeding turtles → orange for mammals, yellow for reptiles, then stop if breeding-mode? [ ifelse breed = mammals [ set color orange ] [ set color yellow ] stop ] ;; 3) everyone else → their base color set color base-color end ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; 7. PATCH PROCEDURES (slow growth baseline × 0.01) ;; ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; ;; PLANT GROWTH & SPREAD (uniform biomass, replaces fungus) to grow-plants-on-patch ;; ensure this patch remains a plant set plant-mass 1 set fungus-level 0 set pcolor green ;; chance to colonize a neighboring patch (replace fungus but not meat) if random-float 1 < (PLANT-GROWTH-RATE * LIGHT-LEVEL * 0.01) [ let targets neighbors with [ plant-mass = 0 and meat-level = 0 ] if any? targets [ ask one-of targets [ set plant-mass 1 set fungus-level 0 set pcolor green ] ] ] end ;; RANDOM NEW SEED SPAWNING (rare, global) to spawn-plant-seeds ;; on average once every SEED-SPAWN-PERIOD ticks, ;; pick one patch (even if it currently has fungus) to become plant if random SEED-SPAWN-PERIOD = 0 [ let target one-of patches with [ plant-mass = 0 and meat-level = 0 ] if target != nobody [ ask target [ set plant-mass 1 set fungus-level 0 set pcolor green ] ] ] end to grow-fungus-on-patch ;; turn this patch into fungus (clearing any plants) set fungus-level 1 set plant-mass 0 set pcolor violet ;; then possibly spread to an empty neighbor if random-float 1 < (FUNGAL-GROWTH-RATE * (1 - LIGHT-LEVEL) * 0.01) [ let empties neighbors with [ fungus-level = 0 and plant-mass = 0 and meat-level = 0 ] if any? empties [ ask one-of empties [ set fungus-level 1 set pcolor violet ] ] ] end @#$#@#$#@ GRAPHICS-WINDOW 12 10 1025 1024 -1 -1 5.0 1 10 1 1 1 0 1 1 1 -100 100 -100 100 1 1 1 ticks 30.0 SLIDER 1237 13 1409 46 INITIAL-MAMMALS INITIAL-MAMMALS 0 100 25.0 1 1 NIL HORIZONTAL SLIDER 1047 13 1219 46 INITIAL-REPTILES INITIAL-REPTILES 0 100 25.0 1 1 NIL HORIZONTAL SLIDER 1243 85 1451 118 FAMILY-AVOIDANCE-DUR FAMILY-AVOIDANCE-DUR 0 100 48.0 1 1 NIL HORIZONTAL SLIDER 1032 123 1227 156 FUNGAL-GROWTH-RATE FUNGAL-GROWTH-RATE 0 3 1.5 0.05 1 NIL HORIZONTAL SLIDER 1033 159 1262 192 FUNGAL-RECOVERY-CHANCE FUNGAL-RECOVERY-CHANCE 0 1 0.25 0.01 1 NIL HORIZONTAL SLIDER 1033 197 1336 230 FUNGAL-DEATH-CHANCE FUNGAL-DEATH-CHANCE 0.0 0.1 0.001 .001 1 NIL HORIZONTAL SLIDER 1232 123 1418 156 PLANT-GROWTH-RATE PLANT-GROWTH-RATE 0 3 1.5 .05 1 NIL HORIZONTAL SLIDER 1262 159 1462 192 SEED-SPAWN-PERIOD SEED-SPAWN-PERIOD 0 20 2.0 1 1 NIL HORIZONTAL BUTTON 1423 15 1487 48 Setup setup NIL 1 T OBSERVER NIL S NIL NIL 1 BUTTON 1494 14 1557 47 Go go T 1 T OBSERVER NIL G NIL NIL 1 SLIDER 1455 85 1627 118 LIGHT-LEVEL LIGHT-LEVEL 0 1 1.0 0.05 1 NIL HORIZONTAL SLIDER 1467 160 1642 193 PERCEPTION-RADIUS PERCEPTION-RADIUS 1 100 33.0 1 1 NIL HORIZONTAL SLIDER 1038 49 1218 82 INITIAL-PLANT-SEEDS INITIAL-PLANT-SEEDS 0 100 50.0 1 1 NIL HORIZONTAL SLIDER 1221 48 1417 81 INITIAL-FUNGAL-SPORES INITIAL-FUNGAL-SPORES 0 100 50.0 1 1 NIL HORIZONTAL SLIDER 1420 49 1647 82 OFFSPRING_SIZE_FRAC_DIFF OFFSPRING_SIZE_FRAC_DIFF 0 1 1.0 0.01 1 NIL HORIZONTAL PLOT 1033 336 1355 532 Animal Size Distributions Size Count 0.0 40.0 0.0 20.0 true true "" "histogram [body-size] of mammals\nhistogram [body-size] of reptiles\n" PENS "Mammals" 1.0 1 -8431303 true "" "histogram [body-size] of mammals" "Reptiles" 1.0 1 -4079321 true "" "histogram [body-size] of reptiles" PLOT 1362 336 1664 533 Population Counts Time Count 0.0 10.0 0.0 10.0 true true "" "" PENS "Mammals" 1.0 0 -10402772 true "" "plot count mammals" "Reptiles" 1.0 0 -4079321 true "" "plot count reptiles" "Infected Reptiles" 1.0 0 -7500403 true "" "plot count reptiles with [infected?]" PLOT 1032 536 1349 766 Plant & Fungus Biomass NIL NIL 0.0 10.0 0.0 10.0 true true "" "" PENS "Plant" 1.0 0 -13840069 true "" "plot sum [plant-mass] of patches" "Fungus" 1.0 0 -8630108 true "" "plot sum [fungus-level] of patches" MONITOR 1331 769 1388 814 Ticks ticks 17 1 11 MONITOR 1259 769 1328 814 Creatures count turtles 17 1 11 PLOT 1358 537 1660 767 Resource Consumption Time Consumption Count 0.0 10.0 0.0 10.0 true true "" "" PENS "Meat (Mammals)" 1.0 0 -1604481 true "" "plot meat-consumed-by-mammals" "Meat (Reptiles)" 1.0 0 -8053223 true "" "plot meat-consumed-by-reptiles" "Fungus (Mammals)" 1.0 0 -8630108 true "" "plot fungus-consumed-by-mammals" "Plant (Mammals)" 1.0 0 -13840069 true "" "plot plant-consumed-by-mammals" "Plant (Reptiles)" 1.0 0 -15575016 true "" "plot plant-consumed-by-reptiles" SLIDER 1423 123 1595 156 INITIAL-SIZE-FRAC INITIAL-SIZE-FRAC 0 2 1.1 .01 1 NIL HORIZONTAL SLIDER 1035 85 1241 118 FOOD-CONSUMPTION-RATE FOOD-CONSUMPTION-RATE 1 10 1.0 1 1 NIL HORIZONTAL SLIDER 1050 240 1222 273 prey-size-frac-min prey-size-frac-min 0 1 0.2 0.01 1 NIL HORIZONTAL SLIDER 1227 241 1399 274 prey-size-frac-max prey-size-frac-max 0 1 0.65 0.01 1 NIL HORIZONTAL SLIDER 1409 232 1581 265 ROT-CHANCE ROT-CHANCE 0 1 0.2 0.1 1 NIL HORIZONTAL SLIDER 1411 267 1583 300 MEAT-BONUS MEAT-BONUS 1 5 5.0 1 1 NIL HORIZONTAL SLIDER 1043 282 1220 315 FUNGUS-AVOIDANCE FUNGUS-AVOIDANCE 0 1 0.7 0.01 1 NIL HORIZONTAL SLIDER 1230 275 1402 308 chase-duration chase-duration 0 50 5.0 1 1 NIL HORIZONTAL SLIDER 1230 309 1402 342 flee-duration flee-duration 0 50 17.0 1 1 NIL HORIZONTAL SLIDER 1411 304 1583 337 HUNT-COOLDOWN HUNT-COOLDOWN 0 100 13.0 1 1 NIL HORIZONTAL MONITOR 1196 768 1255 813 Reptiles count reptiles 17 1 11 MONITOR 1126 769 1193 814 Mammals count mammals 17 1 11 MONITOR 1037 767 1114 812 # Sprinting count turtles with [ sprint-timer > 0 ] 17 1 11 @#$#@#$#@ WHAT IS IT? ----------- This model was inspired by the PBS Eons Youtube Video, 'Why Wasn't There A Second Age of Reptiles?', which explores how an asteroid impact ended the Age of Reptiles and ushered in the Age of Mammals, despite both mammals and reptiles surviving the catastrophe. The YouTube Video itself was inspired by papers by Arturo Casadevall and his colleagues. This model simulates interactions between mammals, reptiles, plants, fungus, and scavenged meat on a patch grid. Mammals and reptiles wander, forage, hunt live prey, and reproduce. Plants and fungus grow and spread, competing for patches, while meat is produced when creatures die and may rot into fungus. The simulation explores how these agents' behaviors and environmental factors (e.g., light level, growth rates) influence ecosystem dynamics. The overall goal of the model is to explore how resistance to fungal infections (mammals) can help a species thrive even with weaker starting attributes (smaller size, smaller offspring litter sizes, and slower speed) than a species that is vulnerable to fungal infections. HOW IT WORKS ------------ **Agents** - **Mammals** and **Reptiles** ("turtles") each have body size, energy, breeding mode, infection status, and timers (sprint, cooldown, immunity). - **Patches** track plant-mass, fungus-level, meat-level, and meat-age. **Movement & Foraging** 1. Agents eat food on their patch (meat x fungus chance, fungus for mammals, plants). 2. Sprint and cooldown timers govern chase and post-hunt rest. 3. Agents avoid fungus (reptiles) and flee larger threats. 4. Off-cooldown predators chase nearby prey; if within half predator's size, prey is killed (drops meat). 5. Agents detect meat, fungus, or plant patches within PERCEPTION-RADIUS, move toward them, and consume. 6. Random wandering when no other behavior applies. **Reproduction & Infection** - When an agents energy (body-size x tummy-size-factor), it enters breeding mode and seeks a same-breed partner. - Offspring inherit sizes within a range around parents, enforcing MINIMUM-SIZE. - Reptiles may become infected by fungus on their patch and can recover or die from infection. - After predation, predators gain temporary immunity from infection (post-kill-immunity). **Patch Dynamics** - **Plants** spread randomly outward, replace fungus, and spread to neighbors based on PLANT-GROWTH-RATE x LIGHT-LEVEL. - **Fungus** spreads randomly outward with FUNGAL-GROWTH-RATE x (1 - LIGHT-LEVEL). - **Meat** ages each tick; rot chance ROT-CHANCE converts meat to fungus when depleted. HOW TO USE IT ------------- 1. Adjust sliders and choosers: INITIAL-PLANT-SEEDS, INITIAL-FUNGAL-SPORES, INITIAL-MAMMALS, INITIAL-REPTILES, PLANT-GROWTH-RATE, FUNGAL-GROWTH-RATE, SEED-SPAWN-PERIOD, etc. 2. Press **SETUP** to initialize the world (also clears the last world). 3. Press **GO** to run the simulation. 4. Observe the Monitors for counts of mammals, reptiles, plant-covered patches, fungal patches, and meat. 5. Watch the Plots for population and resource level dynamics over time. THINGS TO NOTICE ---------------- - How do plant and fungus distributions change with LIGHT-LEVEL? - Do populations oscillate in response to prey/resource availability? - How does meat rot into fungus and feed back into the system? THINGS TO TRY ------------- - Vary PLANT-GROWTH-RATE and FUNGAL-GROWTH-RATE to shift competitive balance. - Increase PERCEPTION-RADIUS: does that stabilize or destabilize predator-prey cycles? - Is there a LIGHT-LEVEL where both mammals and reptiles have a 50-50 chance of rising to dominance? - Experiment with extreme initial size variability by varying INITIAL-SIZE-FRAC: do large initial mammal herds outcompete reptiles? Do "plagues" of mammals or reptiles take over and deplete all the fungus/plant resources? EXTENDING THE MODEL ------------------- - Add a water resource and thirst mechanics for agents. - Add hunger mechanics and starvation death. - Implement seasonal light-level changes to vary plant/fungus growth rates and/or a pre-programmed light-level scenario such as a period of darkness after the KT-boundary followed by normal light-dark cycles. - Model spatial heterogeneity (e.g., barriers, rivers) affecting movement and spread and potential for hiding/stalking. CREDITS AND REFERENCES ---------------------- Inspired by 'Why Wasn't There A Second Age of Reptiles?' (PBS Eons YouTube video), which explores how an asteroid impact ended the Age of Reptiles and ushered in the Age of Mammals: https://youtu.be/EPXbSx17030?si=Fyxivy_RZ_QL0p5W **Scientific Papers:** Casadevall, A. (2005). Fungal virulence,vertebrate endothermy, and dinosaur extinction: is there a connection? Fungal Genet Biol 42: 98-106, avail. ttps://www.sciencedirect.com/science/article/abs/pii/S1087184504001938?via%3Dihub. Casadevall, A. (2012). Fungi and the rise of mammals. PLoS Pathog.: 8(8):e1002808. Avail. https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1002808 h Casadevall, A. and Damman, C. (2020). Updating the fungal infection-mammalian selection hypothesis at the end of the Cretaceous Period. PLoS Pathog 16(7): e1008451. Avail: https://pmc.ncbi.nlm.nih.gov/articles/PMC7365386/ Additional inspiration from a YouTube video by Casadevall: https://www.youtube.com/watch?v=eaNcTM-f5y8 HOW TO CITE ----------- If you mention this model or NetLogo in a publication, please include: Hoopes, D. (2025). NetLogo KT-Extinction-Survival model. http://ccl.northwestern.edu/netlogo/models/KT-Extinction-Survival. Center for Connected Learning and Computer-Based Modeling, Northwestern University, Evanston, IL. 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 COPYRIGHT AND LICENSE --------------------- 2025 Desmond Hoopes. 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