# Crowding test
# This tests excluded volume with reactions for surface-bound molecules

graphics opengl_better

light room ambient 0 0 0
light 0 position -1 1 1 0
light 0 diffuse 0.5 0.5 0.5
light 0 ambient 0.5 0.5 0.5
light 0 specular 0.5 0.5 0.5


dim 3

boundaries x 0 20
boundaries y 0 20
boundaries z 0 20

frame_thickness 0

time_start 0
time_stop 100
time_step 0.005

species red green

difc red(all) 1
difc green(all) 0.5

display_size red(all) 0.5
color red(all) red
display_size green(all) 1
color green(all) green

reaction rxn1 red(up) + red(up) -> red(up) + red(up)
binding_radius rxn1 1
product_placement rxn1 bounce

reaction rxn2 red(up) + green(up) -> red(up) + green(up)
binding_radius rxn2 1.5
product_placement rxn2 bounce
reaction_probability rxn2 0.99

reaction rxn2a red(up) + green(up) -> green(up) + green(up)
binding_radius rxn2a 1.5
product_placement rxn2a bounce 2
reaction_probability rxn2a 0.1

reaction rxn3 green(up) + green(up) -> green(up) + green(up)
binding_radius rxn3 2
product_placement rxn3 bounce

start_surface ball
polygon both face
color both darkgrey
panel sphere 10 10 10  10  20 20
end_surface

surface_mol 250 red(up) ball sphere all
surface_mol 5 green(up) ball sphere all

text_display time red(up) green(up)


end_file