def velocities(X, **params):
v0, v1 = [], []
for x0 in X:
setup = Howorka.Setup(x0=x0, **params)
f, v, dv = velocity_iteration(setup, 6)
assert np.linalg.norm(1e12*f[-1]) < 1e-3
#assert np.linalg.norm(dv[-1]) < 1e-3*np.linalg.norm(dv[0])
v0.append(list(v[0]))
v1.append(list(v[-1]))
return dict(v0=v0, v1=v1)
def nonzero_velocities_2D(V, **params):
setup = Howorka.Setup(**params)
gamma = friction(setup)
print "friction gamma", gamma
# determine F(0), only once
if not 0. in V:
V.append(0.)
V.sort()
F = [None]*len(V)
i0 = V.index(0.)
F[i0] = velo2force_2D(0., setup)
F0 = F[i0]
print "F(0)", F0
for i, v in enumerate(V):
if not i == i0:
print "\n--- Velocity %d ---" %(i+1,)
F[i] = velo2force_2D(v, setup)
print "Velocity", v
print "Force (exact)", F[i]
print "Force (linear)", F0 - gamma*v
return F, gamma, F0
F0 = F[i0]
print "F(0)", F0
for i, v in enumerate(V):
if not i == i0:
print "\n--- Velocity %d ---" %(i+1,)
F[i] = velo2force_2D(v, setup)
print "Velocity", v
print "Force (exact)", F[i]
print "Force (linear)", F0 - gamma*v
return F, gamma, F0
params = user_params(dim=3, Nmax=1.5e5, h=1., dnaqsdamp=0.25,
x0=[0.2,0.,4.01], Qmol=-1., bulkcon=300.)
setup = Howorka.Setup(**params)
setup.prerefine()
velo2force_3D([0., 0.1, 0.2], setup)
do_v2f = False
redo_v2f = False
if do_v2f:
if redo_v2f:
params = user_params(dim=2, Nmax=2e4, h=.5, dnaqsdamp=0.25,
x0=[0.,0.,4.5], Qmol=-1., bulkcon=300.)
V = list(np.linspace(-1., 1., 3))
F, gamma, F0 = nonzero_velocities_2D(V, **params)
fields.save_entries("howorka_velo2force_3", params, V=V, F=F, gamma=gamma, F0=F0)
fields.update()
dolfin.interactive()