def evaluateEstimator(cls, w, coeff_field, pde, f, quadrature_degree= -1, osc_quadrature_degree = 15):
"""Evaluate patch local equilibration estimator for all active mu of w."""
# TODO: determine oscillations of coeff_field and calculate with projected coefficients?!
# use uBLAS backend for conversion to scipy sparse matrices
backup_backend = parameters.linear_algebra_backend
parameters.linear_algebra_backend = "uBLAS"
# determine rhs oscillations
mu0 = Multiindex()
mesh = w[mu0]._fefunc.function_space().mesh()
degree = element_degree(w[mu0]._fefunc)
DG0 = FunctionSpace(mesh, 'DG', 0)
# DG0_dofs = dict([(c.index(),DG0.dofmap().cell_dofs(c.index())[0]) for c in cells(mesh)])
dg0 = TestFunction(DG0)
osc_global, osc_local, Pf = evaluate_oscillations(f, mesh, degree - 1, dg0, osc_quadrature_degree)
# evaluate global equilibration estimators
eta_local = MultiVector()
eta = {}
for mu in w.active_indices():
eta[mu], eta_local[mu] = cls._evaluateLocalEstimator(mu, w, coeff_field, pde, Pf, quadrature_degree)
global_eta = sqrt(sum([v ** 2 for v in eta.values()]))
# restore backend and return estimator
parameters.linear_algebra_backend = backup_backend
return global_eta, eta, eta_local, osc_global, osc_local
def _evaluateLocalEstimator(cls, mu, w, coeff_field, pde, f, quadrature_degree, epsilon=1e-5):
"""Evaluation of patch local equilibrated estimator."""
# prepare numerical flux and f
sigma_mu, f_mu = evaluate_numerical_flux(w, mu, coeff_field, f)
# ###################
# ## MIXED PROBLEM ##
# ###################
# get setup data for mixed problem
V = w[mu]._fefunc.function_space()
mesh = V.mesh()
mesh.init()
degree = element_degree(w[mu]._fefunc)
# data for nodal bases
V_dm = V.dofmap()
V_dofs = dict([(i, V_dm.cell_dofs(i)) for i in range(mesh.num_cells())])
V1 = FunctionSpace(mesh, 'CG', 1) # V1 is to define nodal base functions
phi_z = Function(V1)
phi_coeffs = np.ndarray(V1.dim())
vertex_dof_map = V1.dofmap().vertex_to_dof_map(mesh)
# vertex_dof_map = vertex_to_dof_map(V1)
dof_list = vertex_dof_map.tolist()
# DG0 localisation
DG0 = FunctionSpace(mesh, 'DG', 0)
DG0_dofs = dict([(c.index(),DG0.dofmap().cell_dofs(c.index())[0]) for c in cells(mesh)])
dg0 = TestFunction(DG0)
# characteristic function of patch
xi_z = Function(DG0)
xi_coeffs = np.ndarray(DG0.dim())
# mesh data
h = CellSize(mesh)
n = FacetNormal(mesh)
cf = CellFunction('size_t', mesh)
# setup error estimator vector
eq_est = np.zeros(DG0.dim())
# setup global equilibrated flux vector
DG = VectorFunctionSpace(mesh, "DG", degree)
DG_dofmap = DG.dofmap()
# define form functions
tau = TrialFunction(DG)
v = TestFunction(DG)
# define global tau
tau_global = Function(DG)
tau_global.vector()[:] = 0.0
# iterate vertices
for vertex in vertices(mesh):
# get patch cell indices
vid = vertex.index()
patch_cid, FF_inner, FF_boundary = get_vertex_patch(vid, mesh, layers=1)
# set nodal base function
phi_coeffs[:] = 0
phi_coeffs[dof_list.index(vid)] = 1
phi_z.vector()[:] = phi_coeffs
# set characteristic function and mark patch
cf.set_all(0)
xi_coeffs[:] = 0
for cid in patch_cid:
xi_coeffs[DG0_dofs[int(cid)]] = 1
cf[int(cid)] = 1
xi_z.vector()[:] = xi_coeffs
# determine local dofs
lDG_cell_dofs = dict([(cid, DG_dofmap.cell_dofs(cid)) for cid in patch_cid])
lDG_dofs = [cd.tolist() for cd in lDG_cell_dofs.values()]
lDG_dofs = list(iter.chain(*lDG_dofs))
# print "\nlocal DG subspace has dimension", len(lDG_dofs), "degree", degree, "cells", len(patch_cid), patch_cid
# print "local DG_cell_dofs", lDG_cell_dofs
# print "local DG_dofs", lDG_dofs
# create patch measures
dx = Measure('dx')[cf]
dS = Measure('dS')[FF_inner]
# define forms
alpha = Constant(1 / epsilon) / h
a = inner(tau,v) * phi_z * dx(1) + alpha * div(tau) * div(v) * dx(1) + avg(alpha) * jump(tau,n) * jump(v,n) * dS(1)\
+ avg(alpha) * jump(xi_z * tau,n) * jump(v,n) * dS(2)
L = -alpha * (div(sigma_mu) + f) * div(v) * phi_z * dx(1)\
- avg(alpha) * jump(sigma_mu,n) * jump(v,n) * avg(phi_z)*dS(1)
# print "L2 f + div(sigma)", assemble((f + div(sigma)) * (f + div(sigma)) * dx(0))
# assemble forms
lhs = assemble(a, form_compiler_parameters={'quadrature_degree': quadrature_degree})
rhs = assemble(L, form_compiler_parameters={'quadrature_degree': quadrature_degree})
# convert DOLFIN representation to scipy sparse arrays
rows, cols, values = lhs.data()
lhsA = sps.csr_matrix((values, cols, rows)).tocoo()
# slice sparse matrix and solve linear problem
lhsA = coo_submatrix_pull(lhsA, lDG_dofs, lDG_dofs)
lx = spsolve(lhsA, rhs.array()[lDG_dofs])
# print ">>> local solution lx", type(lx), lx
local_tau = Function(DG)
local_tau.vector()[lDG_dofs] = lx
# print "div(tau)", assemble(inner(div(local_tau),div(local_tau))*dx(1))
# add up local fluxes
tau_global.vector()[lDG_dofs] += lx
# evaluate estimator
# maybe TODO: re-define measure dx
eq_est = assemble( inner(tau_global, tau_global) * dg0 * (dx(0)+dx(1)),\
form_compiler_parameters={'quadrature_degree': quadrature_degree})
# reorder according to cell ids
eq_est = eq_est[DG0_dofs.values()].array()
global_est = np.sqrt(np.sum(eq_est))
# eq_est_global = assemble( inner(tau_global, tau_global) * (dx(0)+dx(1)), form_compiler_parameters={'quadrature_degree': quadrature_degree} )
# global_est2 = np.sqrt(np.sum(eq_est_global))
return global_est, FlatVector(np.sqrt(eq_est))#, tau_global
def _evaluateGlobalMixedEstimator(cls, mu, w, coeff_field, pde, f, quadrature_degree, vectorspace_type='BDM'):
"""Evaluation of global mixed equilibrated estimator."""
# set quadrature degree
# quadrature_degree_old = parameters["form_compiler"]["quadrature_degree"]
# parameters["form_compiler"]["quadrature_degree"] = quadrature_degree
# logger.debug("residual quadrature order = " + str(quadrature_degree))
# prepare numerical flux and f
sigma_mu, f_mu = evaluate_numerical_flux(w, mu, coeff_field, f)
# ###################
# ## MIXED PROBLEM ##
# ###################
# get setup data for mixed problem
V = w[mu]._fefunc.function_space()
mesh = V.mesh()
degree = element_degree(w[mu]._fefunc)
# create function spaces
DG0 = FunctionSpace(mesh, 'DG', 0)
DG0_dofs = [DG0.dofmap().cell_dofs(c.index())[0] for c in cells(mesh)]
RT = FunctionSpace(mesh, vectorspace_type, degree)
W = RT * DG0
# setup boundary conditions
# bcs = pde.create_dirichlet_bcs(W.sub(1))
# debug ===
# from dolfin import DOLFIN_EPS, DirichletBC
# def boundary(x):
# return x[0] < DOLFIN_EPS or x[0] > 1.0 + DOLFIN_EPS or x[1] < DOLFIN_EPS or x[1] > 1.0 + DOLFIN_EPS
# bcs = [DirichletBC(W.sub(1), Constant(0.0), boundary)]
# === debug
# create trial and test functions
(sigma, u) = TrialFunctions(W)
(tau, v) = TestFunctions(W)
# define variational form
a_eq = (dot(sigma, tau) + div(tau) * u + div(sigma) * v) * dx
L_eq = (- f_mu * v + dot(sigma_mu, tau)) * dx
# compute solution
w_eq = Function(W)
solve(a_eq == L_eq, w_eq)
(sigma_mixed, u_mixed) = w_eq.split()
# #############################
# ## EQUILIBRATION ESTIMATOR ##
# #############################
# evaluate error estimator
dg0 = TestFunction(DG0)
eta_mu = inner(sigma_mu, sigma_mu) * dg0 * dx
eta_T = assemble(eta_mu, form_compiler_parameters={'quadrature_degree': quadrature_degree})
eta_T = np.array([sqrt(e) for e in eta_T])
# evaluate global error
eta = sqrt(sum(i**2 for i in eta_T))
# reorder array entries for local estimators
eta_T = eta_T[DG0_dofs]
# restore quadrature degree
# parameters["form_compiler"]["quadrature_degree"] = quadrature_degree_old
return eta, FlatVector(eta_T)
def test_helper():
assert_equal(fem.make_list(1), [1])
assert_equal(fem.make_list([2]), [2])
assert_equal(fem.make_list([1, 2]), [1, 2])
assert_equal(fem.make_list([5], 3), [5, 5, 5])
assert_equal(fem.make_list([1, 2], 3), [1, 2])
mesh = UnitSquare(3, 3)
V1 = dolfin.FunctionSpace(mesh, "Lagrange", 1)
V1v = dolfin.VectorFunctionSpace(mesh, "Lagrange", 1)
V2 = dolfin.FunctionSpace(mesh, "Lagrange", 2)
V2v = dolfin.VectorFunctionSpace(mesh, "Lagrange", 2)
assert_zero_func(fem.zero_function(V1), V1)
assert_zero_func(fem.zero_function(V1v), V1v)
assert_zero_func(fem.zero_function(V2), V2)
assert_zero_func(fem.zero_function(V2v), V2v)
assert_equal(fem.element_degree(dolfin.Function(V1)), 1)
assert_equal(fem.element_degree(dolfin.TestFunction(V1)), 1)
assert_equal(fem.element_degree(dolfin.TrialFunction(V1)), 1)
assert_equal(fem.element_degree(dolfin.Function(V1v)), 1)
assert_equal(fem.element_degree(dolfin.TestFunction(V1v)), 1)
assert_equal(fem.element_degree(dolfin.TrialFunction(V1v)), 1)
assert_equal(fem.element_degree(dolfin.Function(V2)), 2)
assert_equal(fem.element_degree(dolfin.TestFunction(V2)), 2)
assert_equal(fem.element_degree(dolfin.TrialFunction(V2)), 2)
assert_equal(fem.element_degree(dolfin.Function(V2v)), 2)
assert_equal(fem.element_degree(dolfin.TestFunction(V2v)), 2)
assert_equal(fem.element_degree(dolfin.TrialFunction(V2v)), 2)
