except:
import traceback
print traceback.format_exc()
logger.info("skipped plotting since matplotlib is not available...")
# plot sample solution
if PLOT_SOLUTION:
# get random field sample and evaluate solution (direct and parametric)
RV_samples = coeff_field.sample_rvs()
ref_maxm = w_history[-1].max_order
sub_spaces = w[Multiindex()].basis.num_sub_spaces
degree = w[Multiindex()].basis.degree
maxh = w[Multiindex()].basis.minh
projection_basis = get_projection_basis(mesh0, maxh=maxh, degree=degree, sub_spaces=sub_spaces)
sample_sol_param = compute_parametric_sample_solution(RV_samples, coeff_field, w, projection_basis)
sample_sol_direct = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, ref_maxm, projection_basis)
sol_variance = compute_solution_variance(coeff_field, w, projection_basis)
# # debug---
# if not True:
# for mu in w.active_indices():
# for i, wi in enumerate(w_history):
# if i == len(w_history) - 1 or True:
# plot(wi[mu]._fefunc, title="parametric solution " + str(mu) + " iteration " + str(i), axes=True)
## plot(wi[mu]._fefunc.function_space().mesh(), title="parametric solution " + str(mu) + " iteration " + str(i), axes=True)
# interactive()
# # ---debug
mesh_param = sample_sol_param._fefunc.function_space().mesh()
mesh_direct = sample_sol_direct._fefunc.function_space().mesh()
wireframe = True
if not MAYAVI_PLOTTING:
viz_p = plot(sample_sol_param._fefunc, title="parametric solution", mode="displacement", mesh=mesh_param, wireframe=wireframe)#, rescale=False)
def run_SFEM(opts, conf):
# propagate config values
for sec in conf.keys():
if sec == "LOGGING":
continue
secconf = conf[sec]
for key, val in secconf.iteritems():
print "CONF_" + key + "= secconf['" + key + "'] =", secconf[key]
exec "CONF_" + key + "= secconf['" + key + "']"
# setup logging
print "LOG_LEVEL = logging." + conf["LOGGING"]["level"]
exec "LOG_LEVEL = logging." + conf["LOGGING"]["level"]
setup_logging(LOG_LEVEL, logfile=CONF_experiment_name + "_SFEM")
# determine path of this module
path = os.path.dirname(__file__)
# ============================================================
# PART A: Simulation Options
# ============================================================
# flags for residual, projection, new mi refinement
REFINEMENT = {"RES":CONF_refine_residual, "PROJ":CONF_refine_projection, "MI":CONF_refine_Lambda}
# ============================================================
# PART B: Problem Setup
# ============================================================
# define initial multiindices
mis = [Multiindex(mis) for mis in MultiindexSet.createCompleteOrderSet(CONF_initial_Lambda, 1)]
# setup domain and meshes
mesh0, boundaries, dim = SampleDomain.setupDomain(CONF_domain, initial_mesh_N=CONF_initial_mesh_N)
#meshes = SampleProblem.setupMeshes(mesh0, len(mis), num_refine=10, randref=(0.4, 0.3))
meshes = SampleProblem.setupMeshes(mesh0, len(mis), num_refine=0)
# define coefficient field
# NOTE: for proper treatment of corner points, see elasticity_residual_estimator
coeff_types = ("EF-square-cos", "EF-square-sin", "monomials", "constant")
from itertools import count
if CONF_mu is not None:
muparam = (CONF_mu, (0 for _ in count()))
else:
muparam = None
coeff_field = SampleProblem.setupCF(coeff_types[CONF_coeff_type], decayexp=CONF_decay_exp, gamma=CONF_gamma,
freqscale=CONF_freq_scale, freqskip=CONF_freq_skip, rvtype="uniform", scale=CONF_coeff_scale, secondparam=muparam)
# setup boundary conditions and pde
pde, Dirichlet_boundary, uD, Neumann_boundary, g, f = SampleProblem.setupPDE(CONF_boundary_type, CONF_domain, CONF_problem_type, boundaries, coeff_field)
# define multioperator
A = MultiOperator(coeff_field, pde.assemble_operator, pde.assemble_operator_inner_dofs, assembly_type=eval("ASSEMBLY_TYPE." + CONF_assembly_type))
# setup initial solution multivector
w = SampleProblem.setupMultiVector(dict([(mu, m) for mu, m in zip(mis, meshes)]), functools.partial(setup_vector, pde=pde, degree=CONF_FEM_degree))
logger.info("active indices of w after initialisation: %s", w.active_indices())
sim_stats = None
w_history = []
if opts.continueSFEM:
try:
logger.info("CONTINUIING EXPERIMENT: loading previous data of %s...", CONF_experiment_name)
import pickle
LOAD_SOLUTION = os.path.join(opts.basedir, CONF_experiment_name)
logger.info("loading solutions from %s" % os.path.join(LOAD_SOLUTION, 'SFEM-SOLUTIONS.pkl'))
# load solutions
with open(os.path.join(LOAD_SOLUTION, 'SFEM-SOLUTIONS.pkl'), 'rb') as fin:
w_history = pickle.load(fin)
# convert to MultiVectorWithProjection
for i, mv in enumerate(w_history):
w_history[i] = MultiVectorWithProjection(cache_active=True, multivector=w_history[i])
# load simulation data
logger.info("loading statistics from %s" % os.path.join(LOAD_SOLUTION, 'SIM-STATS.pkl'))
with open(os.path.join(LOAD_SOLUTION, 'SIM-STATS.pkl'), 'rb') as fin:
sim_stats = pickle.load(fin)
logger.info("active indices of w after initialisation: %s", w_history[-1].active_indices())
w0 = w_history[-1]
except:
logger.warn("FAILED LOADING EXPERIMENT %s --- STARTING NEW DATA", CONF_experiment_name)
w0 = w
else:
w0 = w
# ============================================================
# PART C: Adaptive Algorithm
# ============================================================
# refinement loop
# ===============
w, sim_stats = AdaptiveSolver(A, coeff_field, pde, mis, w0, mesh0, CONF_FEM_degree, gamma=CONF_gamma, cQ=CONF_cQ, ceta=CONF_ceta,
# marking parameters
theta_eta=CONF_theta_eta, theta_zeta=CONF_theta_zeta, min_zeta=CONF_min_zeta,
maxh=CONF_maxh, newmi_add_maxm=CONF_newmi_add_maxm, theta_delta=CONF_theta_delta,
marking_strategy=CONF_marking_strategy, max_Lambda_frac=CONF_max_Lambda_frac,
# residual error evaluation
quadrature_degree=CONF_quadrature_degree,
# projection error evaluation
projection_degree_increase=CONF_projection_degree_increase, refine_projection_mesh=CONF_refine_projection_mesh,
# pcg solver
pcg_eps=CONF_pcg_eps, pcg_maxiter=CONF_pcg_maxiter,
# adaptive algorithm threshold
error_eps=CONF_error_eps,
# refinements
max_refinements=CONF_iterations, max_dof=CONF_max_dof,
do_refinement=REFINEMENT, do_uniform_refinement=CONF_uniform_refinement,
w_history=w_history,
sim_stats=sim_stats)
from operator import itemgetter
active_mi = [(mu, w[mu]._fefunc.function_space().mesh().num_cells()) for mu in w.active_indices()]
active_mi = sorted(active_mi, key=itemgetter(1), reverse=True)
logger.info("==== FINAL MESHES ====")
for mu in active_mi:
logger.info("--- %s has %s cells", mu[0], mu[1])
print "ACTIVE MI:", active_mi
print
# memory usage info
import resource
logger.info("\n======================================\nMEMORY USED: " + str(resource.getrusage(resource.RUSAGE_SELF).ru_maxrss) + "\n======================================\n")
# ============================================================
# PART D: Export of Solutions and Simulation Data
# ============================================================
# flag for final solution export
if opts.saveData:
import pickle
SAVE_SOLUTION = os.path.join(opts.basedir, CONF_experiment_name)
try:
os.makedirs(SAVE_SOLUTION)
except:
pass
logger.info("saving solutions into %s" % os.path.join(SAVE_SOLUTION, 'SFEM-SOLUTIONS.pkl'))
# save solutions
with open(os.path.join(SAVE_SOLUTION, 'SFEM-SOLUTIONS.pkl'), 'wb') as fout:
pickle.dump(w_history, fout)
# save simulation data
sim_stats[0]["OPTS"] = opts
sim_stats[0]["CONF"] = conf
logger.info("saving statistics into %s" % os.path.join(SAVE_SOLUTION, 'SIM-STATS.pkl'))
with open(os.path.join(SAVE_SOLUTION, 'SIM-STATS.pkl'), 'wb') as fout:
pickle.dump(sim_stats, fout)
# ============================================================
# PART E: Plotting
# ============================================================
# plot residuals
if opts.plotEstimator and len(sim_stats) > 1:
try:
from matplotlib.pyplot import figure, show, legend
X = [s["DOFS"] for s in sim_stats]
print "DOFS", X
L2 = [s["L2"] for s in sim_stats]
H1 = [s["H1"] for s in sim_stats]
errest = [sqrt(s["EST"]) for s in sim_stats]
res_part = [s["RES-PART"] for s in sim_stats]
proj_part = [s["PROJ-PART"] for s in sim_stats]
pcg_part = [s["PCG-PART"] for s in sim_stats]
_reserrmu = [s["RES-mu"] for s in sim_stats]
_projerrmu = [s["PROJ-mu"] for s in sim_stats]
proj_max_zeta = [s["PROJ-MAX-ZETA"] for s in sim_stats]
proj_max_inactive_zeta = [s["PROJ-MAX-INACTIVE-ZETA"] for s in sim_stats]
try:
proj_inactive_zeta = sorted([v for v in sim_stats[-2]["PROJ-INACTIVE-ZETA"].values()], reverse=True)
except:
proj_inactive_zeta = None
mi = [s["MI"] for s in sim_stats]
num_mi = [len(m) for m in mi]
time_pcg = [s["TIME-PCG"] for s in sim_stats]
time_estimator = [s["TIME-ESTIMATOR"] for s in sim_stats]
time_inactive_mi = [s["TIME-INACTIVE-MI"] for s in sim_stats]
time_marking = [s["TIME-MARKING"] for s in sim_stats]
reserrmu = defaultdict(list)
for rem in _reserrmu:
for mu, v in rem:
reserrmu[mu].append(v)
projerrmu = defaultdict(list)
for pem in _projerrmu:
for mu, v in pem:
projerrmu[mu].append(v)
print "errest", errest
# --------
# figure 2
# --------
fig2 = figure()
fig2.suptitle("error estimator")
ax = fig2.add_subplot(111)
ax.loglog(X, errest, '-g<', label='error estimator')
legend(loc='upper right')
# --------
# figure 3a
# --------
if opts.plotEstimatorAll:
max_mu_plotting = 7
fig3 = figure()
fig3.suptitle("residual contributions")
ax = fig3.add_subplot(111)
for i, muv in enumerate(reserrmu.iteritems()):
mu, v = muv
if i < max_mu_plotting:
mu, v = muv
ms = str(mu)
ms = ms[ms.find('=') + 1:-1]
ax.loglog(X[-len(v):], v, '-g<', label=ms)
legend(loc='upper right')
# --------
# figure 3b
# --------
if opts.plotEstimatorAll:
fig3b = figure()
fig3b.suptitle("projection contributions")
ax = fig3b.add_subplot(111)
for i, muv in enumerate(projerrmu.iteritems()):
mu, v = muv
if max(v) > 1e-10 and i < max_mu_plotting:
ms = str(mu)
ms = ms[ms.find('=') + 1:-1]
ax.loglog(X[-len(v):], v, '-g<', label=ms)
legend(loc='upper right')
# --------
# figure 4
# --------
if opts.plotEstimatorAll:
fig4 = figure()
fig4.suptitle("projection $\zeta$")
ax = fig4.add_subplot(111)
ax.loglog(X[1:], proj_max_zeta[1:], '-g<', label='max active $\zeta$')
ax.loglog(X[1:], proj_max_inactive_zeta[1:], '-b^', label='max inactive $\zeta$')
legend(loc='upper right')
# --------
# figure 5
# --------
fig5 = figure()
fig5.suptitle("timings")
ax = fig5.add_subplot(111)
ax.loglog(X, time_pcg, '-g<', label='pcg')
ax.loglog(X, time_estimator, '-b^', label='estimator')
ax.loglog(X, time_inactive_mi, '-c+', label='inactive_mi')
ax.loglog(X, time_marking, '-ro', label='marking')
legend(loc='upper right')
# --------
# figure 6
# --------
if opts.plotEstimatorAll:
fig6 = figure()
fig6.suptitle("projection error")
ax = fig6.add_subplot(111)
ax.loglog(X[1:], proj_part[1:], '-.m>', label='projection part')
legend(loc='upper right')
# --------
# figure 7
# --------
if opts.plotEstimatorAll and proj_inactive_zeta is not None:
fig7 = figure()
fig7.suptitle("inactive multiindex $\zeta$")
ax = fig7.add_subplot(111)
ax.loglog(range(len(proj_inactive_zeta)), proj_inactive_zeta, '-.m>', label='inactive $\zeta$')
legend(loc='lower right')
# --------
# figure 1
# --------
fig1 = figure()
fig1.suptitle("residual estimator")
ax = fig1.add_subplot(111)
if REFINEMENT["MI"]:
ax.loglog(X, num_mi, '--y+', label='active mi')
ax.loglog(X, errest, '-g<', label='error estimator')
ax.loglog(X, res_part, '-.cx', label='residual part')
ax.loglog(X[1:], proj_part[1:], '-.m>', label='projection part')
ax.loglog(X, pcg_part, '-.b>', label='pcg part')
legend(loc='upper right')
show() # this invalidates the figure instances...
except:
import traceback
print traceback.format_exc()
logger.info("skipped plotting since matplotlib is not available...")
# plot final meshes
if opts.plotMesh:
USE_MAYAVI = Plotter.hasMayavi() and False
w = w_history[-1]
for mu, vec in w.iteritems():
if USE_MAYAVI:
# mesh
# Plotter.figure(bgcolor=(1, 1, 1))
# mesh = vec.basis.mesh
# Plotter.plotMesh(mesh.coordinates(), mesh.cells(), representation='mesh')
# Plotter.axes()
# Plotter.labels()
# Plotter.title(str(mu))
# function
Plotter.figure(bgcolor=(1, 1, 1))
mesh = vec.basis.mesh
Plotter.plotMesh(mesh.coordinates(), mesh.cells(), vec.coeffs)
Plotter.axes()
Plotter.labels()
Plotter.title(str(mu))
else:
viz_mesh = plot(vec.basis.mesh, title="mesh " + str(mu), interactive=False)
# if SAVE_SOLUTION != '':
# viz_mesh.write_png(SAVE_SOLUTION + '/mesh' + str(mu) + '.png')
# viz_mesh.write_ps(SAVE_SOLUTION + '/mesh' + str(mu), format='pdf')
# vec.plot(title=str(mu), interactive=False)
if USE_MAYAVI:
Plotter.show(stop=True)
Plotter.close(allfig=True)
else:
interactive()
# plot sample solution
if opts.plotSolution:
w = w_history[-1]
# get random field sample and evaluate solution (direct and parametric)
RV_samples = coeff_field.sample_rvs()
ref_maxm = w_history[-1].max_order
sub_spaces = w[Multiindex()].basis.num_sub_spaces
degree = w[Multiindex()].basis.degree
maxh = min(w[Multiindex()].basis.minh / 4, CONF_max_h)
maxh = w[Multiindex()].basis.minh
projection_basis = get_projection_basis(mesh0, maxh=maxh, degree=degree, sub_spaces=sub_spaces)
sample_sol_param = compute_parametric_sample_solution(RV_samples, coeff_field, w, projection_basis)
sample_sol_direct = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, ref_maxm, projection_basis)
sol_variance = compute_solution_variance(coeff_field, w, projection_basis)
# plot
print sub_spaces
if sub_spaces == 0:
viz_p = plot(sample_sol_param._fefunc, title="parametric solution")
viz_d = plot(sample_sol_direct._fefunc, title="direct solution")
if ref_maxm > 0:
viz_v = plot(sol_variance._fefunc, title="solution variance")
# debug---
if not True:
for mu in w.active_indices():
for i, wi in enumerate(w_history):
if i == len(w_history) - 1 or True:
plot(wi[mu]._fefunc, title="parametric solution " + str(mu) + " iteration " + str(i))
# plot(wi[mu]._fefunc.function_space().mesh(), title="parametric solution " + str(mu) + " iteration " + str(i), axes=True)
interactive()
# ---debug
# for mu in w.active_indices():
# plot(w[mu]._fefunc, title="parametric solution " + str(mu))
else:
mesh_param = sample_sol_param._fefunc.function_space().mesh()
mesh_direct = sample_sol_direct._fefunc.function_space().mesh()
wireframe = True
viz_p = plot(sample_sol_param._fefunc, title="parametric solution", mode="displacement", mesh=mesh_param, wireframe=wireframe)#, rescale=False)
viz_d = plot(sample_sol_direct._fefunc, title="direct solution", mode="displacement", mesh=mesh_direct, wireframe=wireframe)#, rescale=False)
# for mu in w.active_indices():
# viz_p = plot(w[mu]._fefunc, title="parametric solution: " + str(mu), mode="displacement", mesh=mesh_param, wireframe=wireframe)
interactive()
if opts.plotFlux:
w = w_history[-1]
# get random field sample and evaluate solution (direct and parametric)
RV_samples = coeff_field.sample_rvs()
ref_maxm = w_history[-1].max_order
sub_spaces = w[Multiindex()].basis.num_sub_spaces
degree = w[Multiindex()].basis.degree
maxh = min(w[Multiindex()].basis.minh / 4, CONF_max_h)
maxh = w[Multiindex()].basis.minh
projection_basis = get_projection_basis(mesh0, maxh=maxh, degree=degree, sub_spaces=sub_spaces)
vec_projection_basis = get_projection_basis(mesh0, maxh=maxh, degree=degree, sub_spaces=2)
sample_sol_param = compute_parametric_sample_solution(RV_samples, coeff_field, w, projection_basis)
sample_sol_direct = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, ref_maxm, projection_basis)
sol_variance = compute_solution_variance(coeff_field, w, projection_basis)
sol_param_flux = compute_solution_flux(pde, RV_samples, coeff_field, sample_sol_param, ref_maxm, projection_basis, vec_projection_basis)
sol_direct_flux = compute_solution_flux(pde, RV_samples, coeff_field, sample_sol_direct, ref_maxm, projection_basis, vec_projection_basis)
# plot
if sub_spaces == 0:
#viz_p = plot(sol_param_flux._fefunc, title="parametric solution flux")
flux_x, flux_y = sol_param_flux._fefunc.split(deepcopy=True)
viz_x = plot(flux_x, title="parametric solution flux x")
viz_y = plot(flux_y, title="parametric solution flux y")
flux_x, flux_y = sol_direct_flux._fefunc.split(deepcopy=True)
viz_x = plot(flux_x, title="direct solution flux x")
viz_y = plot(flux_y, title="direct solution flux y")
else:
raise Exception("not implemented");
interactive()
def run_mc(err, w, pde, A, coeff_field, mesh0, ref_maxm, MC_N, MC_HMAX, param_sol_cache=None, direct_sol_cache=None, stored_rv_samples=None, quadrature_degree = -1):
# create reference mesh and function space
sub_spaces = w[Multiindex()].basis.num_sub_spaces
degree = w[Multiindex()].basis.degree
projection_basis = get_projection_basis(mesh0, mesh_refinements=0, degree=degree, sub_spaces=sub_spaces)
logger.info("projection_basis dim = %i \t hmin of mi[0] = %s, reference mesh = (%s, %s)", projection_basis.dim, w[Multiindex()].basis.minh, projection_basis.minh, projection_basis.maxh)
# get realization of coefficient field
err_L2, err_H1 = 0, 0
# set quadrature degree
if quadrature_degree > -1:
quadrature_degree_old = parameters["form_compiler"]["quadrature_degree"]
parameters["form_compiler"]["quadrature_degree"] = quadrature_degree
logger.debug("MC error sampling quadrature order = " + str(quadrature_degree))
# setup caches for sample solutions
# param_sol_cache = None #param_sol_cache or MCCache()
# direct_sol_cache = None #direct_sol_cache or MCCache()
logger.info("---- MC caches %s/%s ----", param_sol_cache, direct_sol_cache)
# main MC loop
for i in range(MC_N):
logger.info("---- MC Iteration %i/%i ----", i + 1 , MC_N)
# create new samples if required or reuse existing samples
if stored_rv_samples is None or len(stored_rv_samples) <= i:
sample_rvs = coeff_field.sample_rvs()
RV_samples = [sample_rvs[j] for j in range(max(w.max_order, ref_maxm))]
if stored_rv_samples is not None:
stored_rv_samples.append(RV_samples)
else:
RV_samples = stored_rv_samples[i]
logger.info("-- RV_samples: %s", RV_samples)
# evaluate solutions
with timing(msg="parameteric sample solution", logfunc=logger.info):
sample_sol_param = compute_parametric_sample_solution(RV_samples, coeff_field, w, projection_basis, param_sol_cache)
with timing(msg="direct sample solution", logfunc=logger.info):
sample_sol_direct = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, ref_maxm, projection_basis, direct_sol_cache)
# evaluate errors
with timing(msg="L2_err_1", logfunc=logger.info):
cerr_L2 = error_norm(sample_sol_param._fefunc, sample_sol_direct._fefunc, "L2")
with timing(msg="H1A_err_1", logfunc=logger.info):
cerr_H1 = error_norm(sample_sol_param._fefunc, sample_sol_direct._fefunc, pde.energy_norm)
# cerr_H1 = errornorm(sample_sol_param._fefunc, sample_sol_direct._fefunc, "H1")
logger.debug("-- current error L2 = %s H1A = %s", cerr_L2, cerr_H1)
err_L2 += 1.0 / MC_N * cerr_L2
err_H1 += 1.0 / MC_N * cerr_H1
if i + 1 == MC_N:
# deterministic part
with timing(msg="direct a0", logfunc=logger.info):
sample_sol_direct_a0 = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, 0, projection_basis, direct_sol_cache)
with timing(msg="L2_err_2", logfunc=logger.info):
L2_a0 = error_norm(sample_sol_param._fefunc, sample_sol_direct_a0._fefunc, "L2")
with timing(msg="H1A_err_2", logfunc=logger.info):
H1_a0 = error_norm(sample_sol_param._fefunc, sample_sol_direct_a0._fefunc, pde.energy_norm)
# H1_a0 = errornorm(sample_sol_param._fefunc, sample_sol_direct_a0._fefunc, "H1")
logger.debug("-- DETERMINISTIC error L2 = %s H1A = %s", L2_a0, H1_a0)
# stochastic part
sample_sol_direct_am = sample_sol_direct - sample_sol_direct_a0
logger.debug("-- STOCHASTIC norm L2 = %s H1 = %s", sample_sol_direct_am.norm("L2"), sample_sol_direct_am.norm("H1"))
# restore quadrature degree
if quadrature_degree > -1:
parameters["form_compiler"]["quadrature_degree"] = quadrature_degree_old
logger.info("MC Error: L2: %s, H1A: %s", err_L2, err_H1)
err.append((err_L2, err_H1, L2_a0, H1_a0))
def run_SFEM(opts, conf):
# propagate config values
_G = globals()
for sec in conf.keys():
if sec == "LOGGING":
continue
secconf = conf[sec]
for key, val in secconf.iteritems():
print "CONF_" + key + "= secconf['" + key + "'] =", secconf[key]
_G["CONF_" + key] = secconf[key]
# setup logging
_G["LOG_LEVEL"] = eval("logging." + conf["LOGGING"]["level"])
exec "LOG_LEVEL = logging." + conf["LOGGING"]["level"]
setup_logging(LOG_LEVEL, logfile=CONF_experiment_name + "_SFEM-P{0}".format(CONF_FEM_degree))
# determine path of this module
path = os.path.dirname(__file__)
# ============================================================
# PART A: Simulation Options
# ============================================================
# flags for residual and tail refinement
REFINEMENT = {"RES":CONF_refine_residual, "TAIL":CONF_refine_tail, "OSC":CONF_refine_osc}
# ============================================================
# PART B: Problem Setup
# ============================================================
# define initial multiindices
mis = [Multiindex(mis) for mis in MultiindexSet.createCompleteOrderSet(CONF_initial_Lambda, 1)]
# setup domain and meshes
mesh0, boundaries, dim = SampleDomain.setupDomain(CONF_domain, initial_mesh_N=CONF_initial_mesh_N)
#meshes = SampleProblem.setupMesh(mesh0, num_refine=10, randref=(0.4, 0.3))
mesh0 = SampleProblem.setupMesh(mesh0, num_refine=0)
# define coefficient field
# NOTE: for proper treatment of corner points, see elasticity_residual_estimator
coeff_types = ("EF-square-cos", "EF-square-sin", "monomials", "constant")
from itertools import count
if CONF_mu is not None:
muparam = (CONF_mu, (0 for _ in count()))
else:
muparam = None
coeff_field = SampleProblem.setupCF(coeff_types[CONF_coeff_type], decayexp=CONF_decay_exp, gamma=CONF_gamma,
freqscale=CONF_freq_scale, freqskip=CONF_freq_skip, rvtype="uniform", scale=CONF_coeff_scale, secondparam=muparam)
# setup boundary conditions and pde
pde, Dirichlet_boundary, uD, Neumann_boundary, g, f = SampleProblem.setupPDE(CONF_boundary_type, CONF_domain, CONF_problem_type, boundaries, coeff_field)
# define multioperator
A = MultiOperator(coeff_field, pde.assemble_operator, pde.assemble_operator_inner_dofs)
# setup initial solution multivector
w = SampleProblem.setupMultiVector(mis, pde, mesh0, CONF_FEM_degree)
logger.info("active indices of w after initialisation: %s", w.active_indices())
sim_stats = None
w_history = []
PATH_SOLUTION = os.path.join(opts.basedir, CONF_experiment_name)
try:
os.makedirs(PATH_SOLUTION)
except:
pass
FILE_SOLUTION = 'SFEM2-SOLUTIONS-P{0}.pkl'.format(CONF_FEM_degree)
FILE_STATS = 'SIM2-STATS-P{0}.pkl'.format(CONF_FEM_degree)
if opts.continueSFEM:
try:
logger.info("CONTINUING EXPERIMENT: loading previous data of %s...", CONF_experiment_name)
import pickle
logger.info("loading solutions from %s" % os.path.join(PATH_SOLUTION, FILE_SOLUTION))
# load solutions
with open(os.path.join(PATH_SOLUTION, FILE_SOLUTION), 'rb') as fin:
w_history = pickle.load(fin)
# convert to MultiVectorWithProjection
for i, mv in enumerate(w_history):
w_history[i] = MultiVectorSharedBasis(multivector=w_history[i])
# load simulation data
logger.info("loading statistics from %s" % os.path.join(PATH_SOLUTION, FILE_STATS))
with open(os.path.join(PATH_SOLUTION, FILE_STATS), 'rb') as fin:
sim_stats = pickle.load(fin)
logger.info("active indices of w after initialisation: %s", w_history[-1].active_indices())
w0 = w_history[-1]
except:
logger.warn("FAILED LOADING EXPERIMENT %s --- STARTING NEW DATA", CONF_experiment_name)
w0 = w
else:
w0 = w
# ============================================================
# PART C: Adaptive Algorithm
# ============================================================
# refinement loop
# ===============
w, sim_stats = AdaptiveSolver(A, coeff_field, pde, mis, w0, mesh0, CONF_FEM_degree,
# marking parameters
rho=CONF_rho, # tail factor
theta_x=CONF_theta_x, # residual marking bulk parameter
theta_y=CONF_theta_y, # tail bound marking bulk paramter
maxh=CONF_maxh, # maximal mesh width for coefficient maximum norm evaluation
add_maxm=CONF_add_maxm, # maximal search length for new new
# error estimator evaluation
estimator_type=CONF_estimator_type,
quadrature_degree=CONF_quadrature_degree,
# pcg solver
pcg_eps=CONF_pcg_eps, pcg_maxiter=CONF_pcg_maxiter,
# adaptive algorithm threshold
error_eps=CONF_error_eps,
# refinements
max_refinements=CONF_iterations, max_dof=CONF_max_dof,
do_refinement=REFINEMENT, do_uniform_refinement=CONF_uniform_refinement, refine_osc_factor=CONF_refine_osc_factor,
w_history=w_history,
sim_stats=sim_stats)
from operator import itemgetter
active_mi = [(mu, w[mu]._fefunc.function_space().mesh().num_cells()) for mu in w.active_indices()]
active_mi = sorted(active_mi, key=itemgetter(1), reverse=True)
logger.info("==== FINAL MESHES ====")
for mu in active_mi:
logger.info("--- %s has %s cells", mu[0], mu[1])
print "ACTIVE MI:", active_mi
print
# memory usage info
import resource
logger.info("\n======================================\nMEMORY USED: " + str(resource.getrusage(resource.RUSAGE_SELF).ru_maxrss) + "\n======================================\n")
# ============================================================
# PART D: Export of Solutions and Simulation Data
# ============================================================
# flag for final solution export
if opts.saveData:
import pickle
try:
os.makedirs(PATH_SOLUTION)
except:
pass
logger.info("saving solutions into %s" % os.path.join(PATH_SOLUTION, FILE_SOLUTION))
# save solutions
with open(os.path.join(PATH_SOLUTION, FILE_SOLUTION), 'wb') as fout:
pickle.dump(w_history, fout)
# save simulation data
sim_stats[0]["OPTS"] = opts
sim_stats[0]["CONF"] = conf
logger.info("saving statistics into %s" % os.path.join(PATH_SOLUTION, FILE_STATS))
with open(os.path.join(PATH_SOLUTION, FILE_STATS), 'wb') as fout:
pickle.dump(sim_stats, fout)
# ============================================================
# PART E: Plotting
# ============================================================
# plot residuals
if opts.plotEstimator and len(sim_stats) > 1:
try:
from matplotlib.pyplot import figure, show, legend
X = [s["DOFS"] for s in sim_stats]
print "DOFS", X
err_est = [s["ERROR-EST"] for s in sim_stats]
err_res = [s["ERROR-RES"] for s in sim_stats]
err_tail = [s["ERROR-TAIL"] for s in sim_stats]
res_L2 = [s["RESIDUAL-L2"] for s in sim_stats]
res_H1A = [s["RESIDUAL-H1A"] for s in sim_stats]
mi = [s["MI"] for s in sim_stats]
num_mi = [len(m) for m in mi]
# --------
# figure 1
# --------
fig1 = figure()
fig1.suptitle("residual estimator")
ax = fig1.add_subplot(111)
if REFINEMENT["TAIL"]:
ax.loglog(X, num_mi, '--y+', label='active mi')
ax.loglog(X, err_est, '-g<', label='error estimator')
ax.loglog(X, err_res, '-.cx', label='residual')
ax.loglog(X, err_tail, '-.m>', label='tail')
legend(loc='upper right')
print "RESIDUAL L2", res_L2
print "RESIDUAL H1A", res_H1A
print "EST", err_est
print "RES", err_res
print "TAIL", err_tail
show() # this invalidates the figure instances...
except:
import traceback
print traceback.format_exc()
logger.info("skipped plotting since matplotlib is not available...")
# plot final meshes
if opts.plotMesh:
w = w_history[-1]
viz_mesh = plot(w.basis.basis.mesh, title="shared mesh", interactive=False)
interactive()
# plot sample solution
if opts.plotSolution:
w = w_history[-1]
# get random field sample and evaluate solution (direct and parametric)
RV_samples = coeff_field.sample_rvs()
ref_maxm = w_history[-1].max_order
sub_spaces = w[Multiindex()].basis.num_sub_spaces
degree = w[Multiindex()].basis.degree
maxh = min(w[Multiindex()].basis.minh / 4, CONF_maxh)
maxh = w[Multiindex()].basis.minh
projection_basis = get_projection_basis(mesh0, maxh=maxh, degree=degree, sub_spaces=sub_spaces)
sample_sol_param = compute_parametric_sample_solution(RV_samples, coeff_field, w, projection_basis)
sample_sol_direct = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, ref_maxm, projection_basis)
sol_variance = compute_solution_variance(coeff_field, w, projection_basis)
# plot
print sub_spaces
if sub_spaces == 0:
viz_p = plot(sample_sol_param._fefunc, title="parametric solution")
viz_d = plot(sample_sol_direct._fefunc, title="direct solution")
if ref_maxm > 0:
viz_v = plot(sol_variance._fefunc, title="solution variance")
else:
mesh_param = sample_sol_param._fefunc.function_space().mesh()
mesh_direct = sample_sol_direct._fefunc.function_space().mesh()
wireframe = True
viz_p = plot(sample_sol_param._fefunc, title="parametric solution", mode="displacement", mesh=mesh_param, wireframe=wireframe)#, rescale=False)
viz_d = plot(sample_sol_direct._fefunc, title="direct solution", mode="displacement", mesh=mesh_direct, wireframe=wireframe)#, rescale=False)
interactive()
def run_mc(w, err, pde):
import time
from dolfin import norm
# create reference mesh and function space
projection_basis = get_projection_basis(mesh0, maxh=min(w[Multiindex()].basis.minh / 4, MC_HMAX))
logger.debug("hmin of mi[0] = %s, reference mesh = (%s, %s)", w[Multiindex()].basis.minh, projection_basis.minh, projection_basis.maxh)
# get realization of coefficient field
err_L2, err_H1 = 0, 0
for i in range(MC_N):
logger.info("---- MC Iteration %i/%i ----", i + 1 , MC_N)
RV_samples = coeff_field.sample_rvs()
logger.debug("-- RV_samples: %s", [RV_samples[j] for j in range(w.max_order)])
t1 = time.time()
sample_sol_param = compute_parametric_sample_solution(RV_samples, coeff_field, w, projection_basis)
t2 = time.time()
sample_sol_direct = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, 2 * w.max_order, projection_basis)
t3 = time.time()
cerr_L2 = errornorm(sample_sol_param._fefunc, sample_sol_direct._fefunc, "L2")
cerr_H1 = errornorm(sample_sol_param._fefunc, sample_sol_direct._fefunc, "H1")
logger.debug("-- current error L2 = %s H1 = %s", cerr_L2, cerr_H1)
err_L2 += 1.0 / MC_N * cerr_L2
err_H1 += 1.0 / MC_N * cerr_H1
if i + 1 == MC_N:
# error function
errf = sample_sol_param - sample_sol_direct
# deterministic part
sample_sol_direct_a0 = compute_direct_sample_solution(pde, RV_samples, coeff_field, A, 0, projection_basis)
L2_a0 = errornorm(sample_sol_param._fefunc, sample_sol_direct_a0._fefunc, "L2")
H1_a0 = errornorm(sample_sol_param._fefunc, sample_sol_direct_a0._fefunc, "H1")
logger.info("-- DETERMINISTIC error L2 = %s H1 = %s", L2_a0, H1_a0)
# stochastic part
sample_sol_direct_am = sample_sol_direct - sample_sol_direct_a0
# L2_am = errornorm(sample_sol_param._fefunc, sample_sol_direct_am._fefunc, "L2")
# H1_am = errornorm(sample_sol_param._fefunc, sample_sol_direct_am._fefunc, "H1")
logger.info("-- STOCHASTIC norm L2 = %s H1 = %s", sample_sol_direct_am.norm("L2"), sample_sol_direct_am.norm("H1"))
if MC_PLOT:
sample_sol_param.plot(title="param")
sample_sol_direct.plot(title="direct")
errf.plot(title="|param-direct| error")
sample_sol_direct_am.plot(title="direct stochastic part")
fc = get_coeff_realisation(RV_samples, coeff_field, w.max_order, projection_basis)
fc.plot(title="coeff")
sol_variance = compute_solution_variance(coeff_field, w, projection_basis)
sol_variance.plot(title="sol variance")
interactive()
#coeff_variance = compute_solution_variance(coeff_field, w0, proj_basis)
#sol_variance.plot(title="variance")
t4 = time.time()
logger.info("TIMING: param: %s, direct %s, error %s", t2 - t1, t3 - t2, t4 - t3)
logger.info("MC Error: L2: %s, H1: %s", err_L2, err_H1)
err.append((err_L2, err_H1))