def test_l2projection_bounded_3D(polynomial_order, lb, ub):
xmin, ymin, zmin = 0., 0., 0.
xmax, ymax, zmax = 1., 1., 1.
nx = 10
interpolate_expression = Ball(0.15, [0.5, 0.5, 0.5],
degree=3,
lb=lb,
ub=ub)
property_idx = 1
mesh = BoxMesh(Point(xmin, ymin, zmin), Point(xmax, ymax, zmax), nx, nx,
nx)
V = FunctionSpace(mesh, "DG", polynomial_order)
x = RegularBox(Point(0., 0., 0.), Point(1., 1.,
1.)).generate([100, 100, 100])
s = assign_particle_values(x, interpolate_expression)
# Just make a complicated particle, possibly with scalars and vectors mixed
p = particles(x, [s], mesh)
vh = Function(V)
lstsq_rho = l2projection(p, V, property_idx)
lstsq_rho.project(vh.cpp_object(), lb, ub)
# Assert if it stays within bounds
assert np.any(vh.vector().get_local() < ub + 1e-12)
assert np.any(vh.vector().get_local() > lb - 1e-12)
class BoxGrid(object):
def __init__(self, x0, x1, y0, y1, z0, z1, n, unstructured=False):
class Left(SubDomain):
def inside(self, x, on_boundary):
return near(x[0], x0)
class Right(SubDomain):
def inside(self, x, on_boundary):
return near(x[0], x1)
class Back(SubDomain):
def inside(self, x, on_boundary):
return near(x[1], y0)
class Front(SubDomain):
def inside(self, x, on_boundary):
return near(x[1], y1)
class Bottom(SubDomain):
def inside(self, x, on_boundary):
return near(x[2], z0)
class Top(SubDomain):
def inside(self, x, on_boundary):
return near(x[2], z1)
if unstructured:
self.geometry = Box(Point(x0, y0, z0), Point(x1, y1, z1))
self.mesh = generate_mesh(self.geometry, n)
else:
nx = int(round(n**(1./3.)*(x1 - x0)))
ny = int(round(n**(1./3.)*(y1 - y0)))
nz = int(round(n**(1./3.)*(z1 - z0)))
self.mesh = BoxMesh(Point(x0, y0, z0), Point(x1, y1, z1), nx, ny, nz)
self.domains = MeshFunction("size_t", self.mesh, self.mesh.topology().dim())
self.domains.set_all(0)
self.dx = Measure('dx', domain=self.mesh, subdomain_data=self.domains)
self.boundaries = MeshFunction("size_t", self.mesh, self.mesh.topology().dim()-1)
self.boundaries.set_all(0)
self.left = Left()
self.left.mark(self.boundaries, 1)
self.right = Right()
self.right.mark(self.boundaries, 2)
self.front = Front()
self.front.mark(self.boundaries, 3)
self.back = Back()
self.back.mark(self.boundaries, 4)
self.bottom = Bottom()
self.bottom.mark(self.boundaries, 5)
self.top = Top()
self.top.mark(self.boundaries, 6)
self.ds = Measure('ds', domain=self.mesh, subdomain_data=self.boundaries)
self.dS = Measure('dS', domain=self.mesh, subdomain_data=self.boundaries)
def test_mesh_generator_3d():
"""Basic functionality test."""
mesh = BoxMesh(Point(0.0, 0.0, 0.0), Point(1.0, 1.0, 1.0), 5, 5, 5)
for x in mesh.coordinates():
x[0] += 0.5 * x[1] + 0.2 * x[2]
w = RandomCell(mesh)
pts = w.generate(3)
assert len(pts) == mesh.num_cells() * 3
interpolate_expression = Expression("x[0] + x[1] + x[2]", degree=1)
s = assign_particle_values(pts, interpolate_expression, on_root=False)
assert np.linalg.norm(np.sum(pts, axis=1) - s) <= 1e-15
p = particles(pts, [s], mesh)
assert pts.shape == p.positions().shape
for i in range(10000):
s, t, u, v = w._random_bary(4)
assert s >= 0 and s <= 1
assert t >= 0 and t <= 1
assert u >= 0 and u <= 1
assert v >= 0 and v <= 1
def gen_mesh(n_gridpoints, dim):
if dim == 2:
#if(dolfin.__version__[2] <= 4):
# mesh = RectangleMesh(0,0,1,1,n_gridpoints,n_gridpoints,"left");
#else:
p0 = Point(0, 0)
p1 = Point(1, 1)
mesh = RectangleMesh(p0, p1, n_gridpoints, n_gridpoints, "left")
else:
p0 = Point(0, 0, 0)
p1 = Point(1, 1, 0)
mesh = BoxMesh(p0, p1, n_gridpoints, n_gridpoints, n_gridpoints)
return mesh
def test_l2_projection_3D(polynomial_order, in_expression):
xmin, ymin, zmin = 0.0, 0.0, 0.0
xmax, ymax, zmax = 1.0, 1.0, 1.0
nx = 25
property_idx = 1
mesh = BoxMesh(Point(xmin, ymin, zmin), Point(xmax, ymax, zmax), nx, nx,
nx)
interpolate_expression = Expression(in_expression, degree=3)
if len(interpolate_expression.ufl_shape) == 0:
V = FunctionSpace(mesh, "DG", polynomial_order)
elif len(interpolate_expression.ufl_shape) == 1:
V = VectorFunctionSpace(mesh, "DG", polynomial_order)
v_exact = Function(V)
v_exact.assign(interpolate_expression)
x = RandomBox(Point(0.0, 0.0, 0.0), Point(1.0, 1.0,
1.0)).generate([4, 4, 4])
s = assign_particle_values(x, interpolate_expression)
# Just make a complicated particle, possibly with scalars and vectors mixed
p = particles(x, [s], mesh)
# Do AddDelete sweep
AD = AddDelete(p, 13, 15, [v_exact])
AD.do_sweep()
vh = Function(V)
lstsq_vh = l2projection(p, V, property_idx)
lstsq_vh.project(vh.cpp_object())
error_sq = abs(assemble(dot(v_exact - vh, v_exact - vh) * dx))
if comm.Get_rank() == 0:
assert error_sq < 1e-13
def initMesh(self, n):
self.mesh = BoxMesh(Point(0., 0., 0.), Point(1., 1., 1.), n, n, n)
nx, ny, nz = 20, 20, 20
# Initial composition field
class StepFunction(UserExpression):
def eval_cell(self, values, x, cell):
c = Cell(mesh, cell.index)
if c.midpoint()[1] > db + 0.02*np.cos(np.pi*x[0]/float(lmbdax))*np.cos(np.pi*x[2]/float(lmbdaz)):
values[0] = 1.0
else:
values[0] = 0.0
mesh = BoxMesh.create(
comm, [Point(0.0, 0.0, 0.0), Point(float(lmbdax), 1.0, float(lmbdaz))],
[nx, ny, nz], CellType.Type.tetrahedron)
# Shift the mesh to line up with the initial step function condition
scale = db * (1.0 - db)
shift = Expression(("0.0", "x[1]*(H - x[1])/S*A*cos(pi/Lx*x[0])*cos(pi/Lz*x[2])", "0.0"),
A=0.02, Lx=lmbdax, Lz=lmbdaz, H=1.0, S=scale, degree=4)
V = VectorFunctionSpace(mesh, "CG", 1)
displacement = interpolate(shift, V)
ALE.move(mesh, displacement)
# Entrainment functional measures
de = 1
cf = MeshFunction("size_t", mesh, mesh.topology().dim(), 0)
CompiledSubDomain("x[1] > db - DOLFIN_EPS", db=db).mark(cf, de)
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 box():
return BoxMesh(MPI.comm_world, [numpy.array([0, 0, 0]),
numpy.array([2, 2, 2])], [2, 2, 5], CellType.tetrahedron,
cpp.mesh.GhostMode.none)
def create_mesh():
N = 20
x0, y0, z0 = -1.5, -1.5, -0.25
x1, y1, z1 = 1.5, 1.5, 0.25
# mesh = UnitCubeMesh.create(N, N, N//2, CellType.Type.hexahedron)
mesh = BoxMesh(Point(x0, y0, z0), Point(x1, y1, z1), N, N, N//2)
# mesh = UnitCubeMesh(N, N, N)
# mesh size is smaller near x=y=0
# mesh.coordinates()[:, :2] = mesh.coordinates()[:, :2]**2
# mesh size is smaller near z=0 and mapped to a [-1;0] domain along z
# mesh.coordinates()[:, 2] = -mesh.coordinates()[:, 2]**2
# left = CompiledSubDomain("near(x[0], side) && on_boundary", side = 0.0)
# right = CompiledSubDomain("near(x[0], side) && on_boundary", side = 1.0)
class Top(SubDomain):
def inside(self, x, on_boundary):
return near(x[2], z1) and on_boundary
class Bottom(SubDomain):
def inside(self, x, on_boundary):
return near(x[2], z0) and on_boundary
class Left(SubDomain):
def inside(self, x, on_boundary):
return near(x[0], x0) and on_boundary
class Right(SubDomain):
def inside(self, x, on_boundary):
return near(x[0], x1) and on_boundary
class Front(SubDomain):
def inside(self, x, on_boundary):
return near(x[1], y0) and on_boundary
class Back(SubDomain):
def inside(self, x, on_boundary):
return near(x[1], y1) and on_boundary
class Symmetry_x(SubDomain):
def inside(self, x, on_boundary):
return near(x[0], 0) and on_boundary
class Symmetry_y(SubDomain):
def inside(self, x, on_boundary):
return near(x[1], 0) and on_boundary
# exterior facets MeshFunction
boundaries = MeshFunction("size_t", mesh, mesh.topology().dim()-1)
boundaries.set_all(0)
Top().mark(boundaries, 1)
Bottom().mark(boundaries, 2)
Left().mark(boundaries, 3)
Right().mark(boundaries, 4)
Front().mark(boundaries, 5)
Back().mark(boundaries, 6)
# Symmetry_x().mark(boundaries, 2)
# Symmetry_y().mark(boundaries, 3)
subdomains = MeshFunction("size_t", mesh, mesh.topology().dim())
subdomains.set_all(0)
File("hyperelastic_cube.xml") << mesh
File("hyperelastic_cube_physical_region.xml") << subdomains
File("hyperelastic_cube_facet_region.xml") << boundaries
return (mesh, subdomains, boundaries)
#
U_exact = (
" U*sin(mode*pi*(x[0])) * cos(mode*pi*(x[1])) * cos(mode*pi*(x[2]))",
"-U*cos(mode*pi*(x[0])) * sin(mode*pi*(x[1])) * cos(mode*pi*(x[2]))",
" 0.",
)
u_exact = Expression(U_exact, degree=7, U=float(1.0), nu=float(nu), mode=mode)
f = Constant((0.0, 0.0, 0.0))
# 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)
basis = VectorSpaceBasis(nullspace_basis)
basis.orthonormalize()
_x = [basis[i] for i in range(6)]
nsp = PETSc.NullSpace()
nsp.create(_x)
return nsp
# Load mesh from file
# mesh = Mesh(MPI.comm_world)
# XDMFFile(MPI.comm_world, "../pulley.xdmf").read(mesh)
# mesh = UnitCubeMesh(2, 2, 2)
mesh = BoxMesh.create(
MPI.comm_world, [Point(0, 0, 0)._cpp_object,
Point(2, 1, 1)._cpp_object], [12, 12, 12],
CellType.Type.tetrahedron, dolfin.cpp.mesh.GhostMode.none)
cmap = dolfin.fem.create_coordinate_map(mesh.ufl_domain())
mesh.geometry.coord_mapping = cmap
# Function to mark inner surface of pulley
# def inner_surface(x, on_boundary):
# r = 3.75 - x[2]*0.17
# return (x[0]*x[0] + x[1]*x[1]) < r*r and on_boundary
def boundary(x, on_boundary):
return np.logical_or(x[:, 0] < np.finfo(float).eps,
x[:, 0] > 1.0 - np.finfo(float).eps)
basis = VectorSpaceBasis(nullspace_basis)
basis.orthonormalize()
_x = [basis[i] for i in range(6)]
nsp = PETSc.NullSpace()
nsp.create(_x)
return nsp
# Load mesh from file
# mesh = Mesh(MPI.comm_world)
# XDMFFile(MPI.comm_world, "../pulley.xdmf").read(mesh)
# mesh = UnitCubeMesh(2, 2, 2)
mesh = BoxMesh(MPI.comm_world,
[Point(0, 0, 0)._cpp_object,
Point(2, 1, 1)._cpp_object], [12, 12, 12],
CellType.Type.tetrahedron, dolfin.cpp.mesh.GhostMode.none)
cmap = dolfin.fem.create_coordinate_map(mesh.ufl_domain())
mesh.geometry.coord_mapping = cmap
# Function to mark inner surface of pulley
# def inner_surface(x, on_boundary):
# r = 3.75 - x[2]*0.17
# return (x[0]*x[0] + x[1]*x[1]) < r*r and on_boundary
def boundary(x, on_boundary):
return np.logical_or(x[:, 0] < 10.0 * np.finfo(float).eps,
x[:, 0] > 1.0 - 10.0 * np.finfo(float).eps)
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 get(self):
"""Built-in mesh."""
x = self.pad(self.values)
return BoxMesh(Point(-x[0] / 2.0, -x[1] / 2.0, -x[2] / 2.0),
Point(x[0] / 2.0, x[1] / 2.0, x[2] / 2.0), x[3], x[4],
x[5])
def box():
return BoxMesh.create(
MPI.comm_world,
[Point(0, 0, 0)._cpp_object,
Point(2, 2, 2)._cpp_object], [2, 2, 5], CellType.Type.tetrahedron,
cpp.mesh.GhostMode.none)
basis = VectorSpaceBasis(nullspace_basis)
basis.orthonormalize()
_x = [basis[i] for i in range(6)]
nsp = PETSc.NullSpace()
nsp.create(_x)
return nsp
# Load mesh from file
# mesh = Mesh(MPI.comm_world)
# XDMFFile(MPI.comm_world, "../pulley.xdmf").read(mesh)
# mesh = UnitCubeMesh(2, 2, 2)
mesh = BoxMesh(MPI.comm_world,
[np.array([0.0, 0.0, 0.0]),
np.array([2.0, 1.0, 1.0])], [12, 12, 12], CellType.tetrahedron,
dolfin.cpp.mesh.GhostMode.none)
cmap = dolfin.fem.create_coordinate_map(mesh.ufl_domain())
mesh.geometry.coord_mapping = cmap
# Function to mark inner surface of pulley
# def inner_surface(x, on_boundary):
# r = 3.75 - x[2]*0.17
# return (x[0]*x[0] + x[1]*x[1]) < r*r and on_boundary
def boundary(x):
return np.logical_or(x[:, 0] < 10.0 * np.finfo(float).eps,
x[:, 0] > 1.0 - 10.0 * np.finfo(float).eps)
def mesh(N=20, **params):
m = BoxMesh(Point(0, 0, 0), Point(L, 1, 1), N, N, N)
return m