diff options
Diffstat (limited to 'mesh_tissue/numba_functions.py')
| -rw-r--r-- | mesh_tissue/numba_functions.py | 44 |
1 files changed, 25 insertions, 19 deletions
diff --git a/mesh_tissue/numba_functions.py b/mesh_tissue/numba_functions.py index 1cb8e6b8..62c7dc22 100644 --- a/mesh_tissue/numba_functions.py +++ b/mesh_tissue/numba_functions.py @@ -16,25 +16,31 @@ # # ##### END GPL LICENSE BLOCK ##### -from numba import jit import numpy as np +try: + from numba import jit -@jit -def numba_reaction_diffusion(n_verts, a, b, diff_a, diff_b, f, k, dt, id0, id1, time_steps): - for i in range(time_steps): - lap_a = np.zeros(n_verts) - lap_b = np.zeros(n_verts) - lap_a0 = a[id1] - a[id0] # laplacian increment for first vertex of each edge - lap_b0 = b[id1] - b[id0] # laplacian increment for first vertex of each edge + @jit + def numba_reaction_diffusion(n_verts, n_edges, edge_verts, a, b, diff_a, diff_b, f, k, dt, time_steps): + arr = np.arange(n_edges)*2 + id0 = edge_verts[arr] # first vertex indices for each edge + id1 = edge_verts[arr+1] # second vertex indices for each edge + for i in range(time_steps): + lap_a = np.zeros(n_verts) + lap_b = np.zeros(n_verts) + lap_a0 = a[id1] - a[id0] # laplacian increment for first vertex of each edge + lap_b0 = b[id1] - b[id0] # laplacian increment for first vertex of each edge - for i, j, la0, lb0 in zip(id0,id1,lap_a0,lap_b0): - lap_a[i] += la0 - lap_b[i] += lb0 - lap_a[j] -= la0 - lap_b[j] -= lb0 - ab2 = a*b**2 - #a += eval("(diff_a*lap_a - ab2 + f*(1-a))*dt") - #b += eval("(diff_b*lap_b + ab2 - (k+f)*b)*dt") - a += (diff_a*lap_a - ab2 + f*(1-a))*dt - b += (diff_b*lap_b + ab2 - (k+f)*b)*dt - return a, b + for i, j, la0, lb0 in zip(id0,id1,lap_a0,lap_b0): + lap_a[i] += la0 + lap_b[i] += lb0 + lap_a[j] -= la0 + lap_b[j] -= lb0 + ab2 = a*b**2 + #a += eval("(diff_a*lap_a - ab2 + f*(1-a))*dt") + #b += eval("(diff_b*lap_b + ab2 - (k+f)*b)*dt") + a += (diff_a*lap_a - ab2 + f*(1-a))*dt + b += (diff_b*lap_b + ab2 - (k+f)*b)*dt + return a, b +except: + pass |