def run_with_params(Tb, mu_value, k_s, path):
run_time_init = clock()
mesh = BoxMesh(Point(0.0, 0.0, 0.0), Point(mesh_width, mesh_width, mesh_height), nx, ny, nz)
pbc = PeriodicBoundary()
WE = VectorElement('CG', mesh.ufl_cell(), 2)
SE = FiniteElement('CG', mesh.ufl_cell(), 1)
WSSS = FunctionSpace(mesh, MixedElement(WE, SE, SE, SE), constrained_domain=pbc)
# W = FunctionSpace(mesh, WE, constrained_domain=pbc)
# S = FunctionSpace(mesh, SE, constrained_domain=pbc)
W = WSSS.sub(0).collapse()
S = WSSS.sub(1).collapse()
temperature_vals = [27.0 + 273, Tb + 273, 1300.0 + 273, 1305.0 + 273]
temp_prof = TemperatureProfile(temperature_vals, element=S.ufl_element())
mu_a = mu_value # this was taken from the Blankenbach paper, can change
Ep = b / temp_prof.delta
mu_bot = exp(-Ep * (temp_prof.bottom * temp_prof.delta - 1573.0) + cc) * mu_a
# TODO: verify exponentiation
Ra = rho_0 * alpha * g * temp_prof.delta * h ** 3 / (kappa_0 * mu_a)
w0 = rho_0 * alpha * g * temp_prof.delta * h ** 2 / mu_a
tau = h / w0
p0 = mu_a * w0 / h
log(mu_a, mu_bot, Ra, w0, p0)
slip_vx = 1.6E-09 / w0 # Non-dimensional
slip_velocity = Constant((slip_vx, 0.0, 0.0))
zero_slip = Constant((0.0, 0.0, 0.0))
time_step = 3.0E11 / tau * 2
dt = Constant(time_step)
t_end = 3.0E15 / tau / 5.0 # Non-dimensional times
u = Function(WSSS)
# Instead of TrialFunctions, we use split(u) for our non-linear problem
v, p, T, Tf = split(u)
v_t, p_t, T_t, Tf_t = TestFunctions(WSSS)
T0 = interpolate(temp_prof, S)
mu_exp = Expression('exp(-Ep * (T_val * dTemp - 1573.0) + cc * x[2] / mesh_height)',
Ep=Ep, dTemp=temp_prof.delta, cc=cc, mesh_height=mesh_height, T_val=T0,
element=S.ufl_element())
Tf0 = interpolate(temp_prof, S)
mu = Function(S)
v0 = Function(W)
v_theta = (1.0 - theta) * v0 + theta * v
T_theta = (1.0 - theta) * T0 + theta * T
Tf_theta = (1.0 - theta) * Tf0 + theta * Tf
# TODO: Verify forms
r_v = (inner(sym(grad(v_t)), 2.0 * mu * sym(grad(v)))
- div(v_t) * p
- T * v_t[2]) * dx
r_p = p_t * div(v) * dx
heat_transfer = Constant(k_s) * (Tf_theta - T_theta) * dt
r_T = (T_t * ((T - T0) + dt * inner(v_theta, grad(T_theta))) # TODO: Inner vs dot
+ (dt / Ra) * inner(grad(T_t), grad(T_theta))
- T_t * heat_transfer) * dx
v_melt = Function(W)
z_hat = Constant((0.0, 0.0, 1.0))
# TODO: inner -> dot, take out Tf_t
r_Tf = (Tf_t * ((Tf - Tf0) + dt * inner(v_melt, grad(Tf_theta)))
+ Tf_t * heat_transfer) * dx
r = r_v + r_p + r_T + r_Tf
bcv0 = DirichletBC(WSSS.sub(0), zero_slip, top)
bcv1 = DirichletBC(WSSS.sub(0), slip_velocity, bottom)
bcv2 = DirichletBC(WSSS.sub(0).sub(1), Constant(0.0), back)
bcv3 = DirichletBC(WSSS.sub(0).sub(1), Constant(0.0), front)
bcp0 = DirichletBC(WSSS.sub(1), Constant(0.0), bottom)
bct0 = DirichletBC(WSSS.sub(2), Constant(temp_prof.surface), top)
bct1 = DirichletBC(WSSS.sub(2), Constant(temp_prof.bottom), bottom)
bctf1 = DirichletBC(WSSS.sub(3), Constant(temp_prof.bottom), bottom)
bcs = [bcv0, bcv1, bcv2, bcv3, bcp0, bct0, bct1, bctf1]
t = 0
count = 0
files = DefaultDictByKey(partial(create_xdmf, path))
while t < t_end:
mu.interpolate(mu_exp)
rhosolid = rho_0 * (1.0 - alpha * (T0 * temp_prof.delta - 1573.0))
deltarho = rhosolid - rho_melt
# TODO: project (accuracy) vs interpolate
assign(v_melt, project(v0 - darcy * (grad(p) * p0 / h - deltarho * z_hat * g) / w0, W))
# TODO: Written out one step later?
# v_melt.assign(v0 - darcy * (grad(p) * p0 / h - deltarho * yvec * g) / w0)
# TODO: use nP after to avoid projection?
solve(r == 0, u, bcs)
nV, nP, nT, nTf = u.split() # TODO: write with Tf, ... etc
if count % output_every == 0:
time_left(count, t_end / time_step, run_time_init) # TODO: timestep vs dt
# TODO: Make sure all writes are to the same function for each time step
files['T_fluid'].write(nTf, t)
files['p'].write(nP, t)
files['v_solid'].write(nV, t)
files['T_solid'].write(nT, t)
files['mu'].write(mu, t)
files['v_melt'].write(v_melt, t)
files['gradp'].write(project(grad(nP), W), t)
files['rho'].write(project(rhosolid, S), t)
files['Tf_grad'].write(project(grad(Tf), W), t)
files['advect'].write(project(dt * dot(v_melt, grad(nTf))), t)
files['ht'].write(project(heat_transfer, S), t)
assign(T0, nT)
assign(v0, nV)
assign(Tf0, nTf)
t += time_step
count += 1
log('Case mu={}, Tb={}, k={} complete. Run time = {:.2f} minutes'.format(mu_a, Tb, k_s, (clock() - run_time_init) / 60.0))
def run_with_params(Tb, mu_value, k_s, path):
run_time_init = clock()
mesh = BoxMesh(Point(0.0, 0.0, 0.0),
Point(mesh_width, mesh_width, mesh_height), nx, ny, nz)
pbc = PeriodicBoundary()
WE = VectorElement('CG', mesh.ufl_cell(), 2)
SE = FiniteElement('CG', mesh.ufl_cell(), 1)
WSSS = FunctionSpace(mesh,
MixedElement(WE, SE, SE, SE),
constrained_domain=pbc)
# W = FunctionSpace(mesh, WE, constrained_domain=pbc)
# S = FunctionSpace(mesh, SE, constrained_domain=pbc)
W = WSSS.sub(0).collapse()
S = WSSS.sub(1).collapse()
temperature_vals = [27.0 + 273, Tb + 273, 1300.0 + 273, 1305.0 + 273]
temp_prof = TemperatureProfile(temperature_vals, element=S.ufl_element())
mu_a = mu_value # this was taken from the Blankenbach paper, can change
Ep = b / temp_prof.delta
mu_bot = exp(-Ep *
(temp_prof.bottom * temp_prof.delta - 1573.0) + cc) * mu_a
# TODO: verify exponentiation
Ra = rho_0 * alpha * g * temp_prof.delta * h**3 / (kappa_0 * mu_a)
w0 = rho_0 * alpha * g * temp_prof.delta * h**2 / mu_a
tau = h / w0
p0 = mu_a * w0 / h
log(mu_a, mu_bot, Ra, w0, p0)
slip_vx = 1.6E-09 / w0 # Non-dimensional
slip_velocity = Constant((slip_vx, 0.0, 0.0))
zero_slip = Constant((0.0, 0.0, 0.0))
time_step = 3.0E11 / tau * 2
dt = Constant(time_step)
t_end = 3.0E15 / tau / 5.0 # Non-dimensional times
u = Function(WSSS)
# Instead of TrialFunctions, we use split(u) for our non-linear problem
v, p, T, Tf = split(u)
v_t, p_t, T_t, Tf_t = TestFunctions(WSSS)
T0 = interpolate(temp_prof, S)
mu_exp = Expression(
'exp(-Ep * (T_val * dTemp - 1573.0) + cc * x[2] / mesh_height)',
Ep=Ep,
dTemp=temp_prof.delta,
cc=cc,
mesh_height=mesh_height,
T_val=T0,
element=S.ufl_element())
Tf0 = interpolate(temp_prof, S)
mu = Function(S)
v0 = Function(W)
v_theta = (1.0 - theta) * v0 + theta * v
T_theta = (1.0 - theta) * T0 + theta * T
Tf_theta = (1.0 - theta) * Tf0 + theta * Tf
# TODO: Verify forms
r_v = (inner(sym(grad(v_t)), 2.0 * mu * sym(grad(v))) - div(v_t) * p -
T * v_t[2]) * dx
r_p = p_t * div(v) * dx
heat_transfer = Constant(k_s) * (Tf_theta - T_theta) * dt
r_T = (
T_t *
((T - T0) + dt * inner(v_theta, grad(T_theta))) # TODO: Inner vs dot
+
(dt / Ra) * inner(grad(T_t), grad(T_theta)) - T_t * heat_transfer) * dx
v_melt = Function(W)
z_hat = Constant((0.0, 0.0, 1.0))
# TODO: inner -> dot, take out Tf_t
r_Tf = (Tf_t * ((Tf - Tf0) + dt * inner(v_melt, grad(Tf_theta))) +
Tf_t * heat_transfer) * dx
r = r_v + r_p + r_T + r_Tf
bcv0 = DirichletBC(WSSS.sub(0), zero_slip, top)
bcv1 = DirichletBC(WSSS.sub(0), slip_velocity, bottom)
bcv2 = DirichletBC(WSSS.sub(0).sub(1), Constant(0.0), back)
bcv3 = DirichletBC(WSSS.sub(0).sub(1), Constant(0.0), front)
bcp0 = DirichletBC(WSSS.sub(1), Constant(0.0), bottom)
bct0 = DirichletBC(WSSS.sub(2), Constant(temp_prof.surface), top)
bct1 = DirichletBC(WSSS.sub(2), Constant(temp_prof.bottom), bottom)
bctf1 = DirichletBC(WSSS.sub(3), Constant(temp_prof.bottom), bottom)
bcs = [bcv0, bcv1, bcv2, bcv3, bcp0, bct0, bct1, bctf1]
t = 0
count = 0
files = DefaultDictByKey(partial(create_xdmf, path))
while t < t_end:
mu.interpolate(mu_exp)
rhosolid = rho_0 * (1.0 - alpha * (T0 * temp_prof.delta - 1573.0))
deltarho = rhosolid - rho_melt
# TODO: project (accuracy) vs interpolate
assign(
v_melt,
project(
v0 - darcy * (grad(p) * p0 / h - deltarho * z_hat * g) / w0,
W))
# TODO: Written out one step later?
# v_melt.assign(v0 - darcy * (grad(p) * p0 / h - deltarho * yvec * g) / w0)
# TODO: use nP after to avoid projection?
solve(r == 0, u, bcs)
nV, nP, nT, nTf = u.split() # TODO: write with Tf, ... etc
if count % output_every == 0:
time_left(count, t_end / time_step,
run_time_init) # TODO: timestep vs dt
# TODO: Make sure all writes are to the same function for each time step
files['T_fluid'].write(nTf, t)
files['p'].write(nP, t)
files['v_solid'].write(nV, t)
files['T_solid'].write(nT, t)
files['mu'].write(mu, t)
files['v_melt'].write(v_melt, t)
files['gradp'].write(project(grad(nP), W), t)
files['rho'].write(project(rhosolid, S), t)
files['Tf_grad'].write(project(grad(Tf), W), t)
files['advect'].write(project(dt * dot(v_melt, grad(nTf))), t)
files['ht'].write(project(heat_transfer, S), t)
assign(T0, nT)
assign(v0, nV)
assign(Tf0, nTf)
t += time_step
count += 1
log('Case mu={}, Tb={}, k={} complete. Run time = {:.2f} minutes'.format(
mu_a, Tb, k_s, (clock() - run_time_init) / 60.0))
# Create mesh
xmin, ymin, zmin = geometry["xmin"], geometry["ymin"], geometry["zmin"]
xmax, ymax, zmax = geometry["xmax"], geometry["ymax"], geometry["zmax"]
mesh = BoxMesh(MPI.comm_world, Point(xmin, ymin, zmin),
Point(xmax, ymax, zmax), nx, ny, nz)
pbc = PeriodicBoundary(geometry)
# xdmf output
xdmf_u = XDMFFile(mesh.mpi_comm(), outdir_base + "u.xdmf")
xdmf_p = XDMFFile(mesh.mpi_comm(), outdir_base + "p.xdmf")
xdmf_curl = XDMFFile(mesh.mpi_comm(), outdir_base + "curl.xdmf")
# Required elements
W_E_2 = VectorElement("DG", mesh.ufl_cell(), k)
T_E_2 = VectorElement("DG", mesh.ufl_cell(), 0)
Wbar_E_2 = VectorElement("DGT", mesh.ufl_cell(), kbar)
Wbar_E_2_H12 = VectorElement("CG", mesh.ufl_cell(), kbar)["facet"]
Q_E = FiniteElement("DG", mesh.ufl_cell(), k - 1)
Qbar_E = FiniteElement("DGT", mesh.ufl_cell(), k)
# Function spaces for projection
W_2 = FunctionSpace(mesh, W_E_2)
T_2 = FunctionSpace(mesh, T_E_2)
Wbar_2 = FunctionSpace(mesh, Wbar_E_2, constrained_domain=pbc)
Wbar_2_H12 = FunctionSpace(mesh, Wbar_E_2_H12, constrained_domain=pbc)
# Function spaces for Stokes
mixedL = FunctionSpace(mesh, MixedElement([W_E_2, Q_E]))
