[define world type (2D or 3D)]
2D

[define world size - in the form of (x, y, z) - if the world type is set to 2D then Y is forced to 1]
20, 20, 20

[define diffusion grid resolution (the target size of each subvolume in the extracellular diffusion grid, in the same units as the world size)]
2.5

[define chemical species - in the form of (chemical_id, extracellular_diffusion_rate, extracellular_degradation_rate]
0,     20, 0.013
1,     20, 0.013
00,    20, 0.013
01,    20, 0.013
10,    20, 0.013
11,    20, 0.013
010,   10, 0.0
100,   10, 0.0
110,   10, 0.0
111,   10, 0.0
1010,  10, 0.0
00100, 10, 0.0
01111, 10, 0.0
11100, 10, 0.0
toxic,  1, 0.0

[define chemical species which can diffuse through cell membranes]
0, 1, 00, 01, 10, 11

[chemical sources - in the form of (x_position, y_position, z_position = chemical_id, rate)]
0, 0, 0 = 0, 100.0
0, 0, 0 = 1, 100.0
0, 0, 0 = 00, 100.0
0, 0, 0 = 01, 100.0
0, 0, 0 = 10, 100.0
0, 0, 0 = 11, 100.0

[define reaction_network - in the form of (reactants -> products, rate)]
10 + 0 + 0 -> 100 + 0, 0.02
11 + 0 + 1 -> 110 + 1, 0.02
111 + 00 -> 11100, 0.003
111 + 00 + 0 -> 11100 + 0, 0.005
1 + 11 -> 111, 0.003
1 + 11 + 010 -> 111 + 010, 0.005
0 + 10 -> 010, 0.003
0 + 10 + 11100 -> 010 + 11100, 0.005
10 + 10 -> 1010, 0.005
10 + 10 + 1010 -> 1010 + 1010, 0.03
00 + 100 -> 00100, 0.001
00 + 100 + 1010 -> 00100 + 1010, 0.02
00100 -> toxic, 0.05
11100 + toxic -> toxic, 0.05

[define population size]
100

[define colour threshold]
2.0

[define pause length before simulation starts (in milliseconds)]
20000

[define camera parameters]
frames_per_second = 10
frame_interval (how many iterations between each frame) = 50
video_file_name = raf_sets.avi

[define data sample period]
1