def get_std_wave_fun(pb, options):
stiffness = pb.evaluate('ev_volume_integrate_mat.2.Omega(m.D, u)',
mode='el_avg', copy_materials=False, verbose=False)
young, poisson = mc.youngpoisson_from_stiffness(stiffness,
plane=options.plane)
density = pb.evaluate('ev_volume_integrate_mat.2.Omega(m.density, u)',
mode='el_avg', copy_materials=False, verbose=False)
lam, mu = mc.lame_from_youngpoisson(young, poisson,
plane=options.plane)
alam = nm.average(lam)
amu = nm.average(mu)
adensity = nm.average(density)
cp = nm.sqrt((alam + 2.0 * amu) / adensity)
cs = nm.sqrt(amu / adensity)
output('average p-wave speed:', cp)
output('average shear wave speed:', cs)
log_names = [r'$\omega_p$', r'$\omega_s$']
log_plot_kwargs = [{'ls' : '--', 'color' : 'k'},
{'ls' : '--', 'color' : 'gray'}]
if options.mode == 'omega':
fun = lambda wmag, wdir: (cp * wmag, cs * wmag)
else:
fun = lambda wmag, wdir: (wmag / cp, wmag / cs)
return fun, log_names, log_plot_kwargs
def get_std_wave_fun(pb, options):
stiffness = pb.evaluate('ev_volume_integrate_mat.2.Omega(m.D, u)',
mode='el_avg', copy_materials=False, verbose=False)
young, poisson = mc.youngpoisson_from_stiffness(stiffness,
plane=options.plane)
density = pb.evaluate('ev_volume_integrate_mat.2.Omega(m.density, u)',
mode='el_avg', copy_materials=False, verbose=False)
lam, mu = mc.lame_from_youngpoisson(young, poisson,
plane=options.plane)
alam = nm.average(lam)
amu = nm.average(mu)
adensity = nm.average(density)
cp = nm.sqrt((alam + 2.0 * amu) / adensity)
cs = nm.sqrt(amu / adensity)
output('average p-wave speed:', cp)
output('average shear wave speed:', cs)
log_names = [r'$\omega_p$', r'$\omega_s$']
log_plot_kwargs = [{'ls' : '--', 'color' : 'k'},
{'ls' : '--', 'color' : 'gray'}]
if options.mode == 'omega':
fun = lambda wmag, wdir: (cp * wmag, cs * wmag)
else:
fun = lambda wmag, wdir: (wmag / cp, wmag / cs)
return fun, log_names, log_plot_kwargs
def test_conversion_functions(self):
import numpy as nm
import sfepy.mechanics.matcoefs as mc
ok = True
lam = 1.0
mu = 1.5
ec = mc.ElasticConstants(lam=lam, mu=mu)
young, poisson, bulk = ec.get(['young', 'poisson', 'bulk'])
lam = nm.array([lam] * 3)
mu = nm.array([mu] * 3)
young = nm.array([young] * 3)
poisson = nm.array([poisson] * 3)
_lam, _mu = mc.lame_from_youngpoisson(young, poisson)
_ok = (nm.allclose(lam, _lam, rtol=0.0, atol=1e-14) and
nm.allclose(mu, _mu, rtol=0.0, atol=1e-14))
self.report('lame_from_youngpoisson():', _ok)
if not _ok:
self.report('correct:', lam, mu)
self.report(' got:', _lam, _mu)
ok = ok and _ok
_bulk = mc.bulk_from_youngpoisson(young, poisson)
_ok = nm.allclose(bulk, _bulk, rtol=0.0, atol=1e-14)
self.report('bulk_from_youngpoisson():', _ok)
if not _ok:
self.report('correct:', bulk)
self.report(' got:', _bulk)
ok = ok and _ok
_bulk = mc.bulk_from_lame(lam, mu)
_ok = nm.allclose(bulk, _bulk, rtol=0.0, atol=1e-14)
self.report('bulk_from_lame():', _ok)
if not _ok:
self.report('correct:', bulk)
self.report(' got:', _bulk)
ok = ok and _ok
return ok
def test_conversion_functions(self):
import numpy as nm
import sfepy.mechanics.matcoefs as mc
ok = True
lam = 1.0
mu = 1.5
ec = mc.ElasticConstants(lam=lam, mu=mu)
young, poisson, bulk = ec.get(['young', 'poisson', 'bulk'])
lam = nm.array([lam] * 3)
mu = nm.array([mu] * 3)
young = nm.array([young] * 3)
poisson = nm.array([poisson] * 3)
_lam, _mu = mc.lame_from_youngpoisson(young, poisson)
_ok = (nm.allclose(lam, _lam, rtol=0.0, atol=1e-14) and
nm.allclose(mu, _mu, rtol=0.0, atol=1e-14))
self.report('lame_from_youngpoisson():', _ok)
if not _ok:
self.report('correct:', lam, mu)
self.report(' got:', _lam, _mu)
ok = ok and _ok
_bulk = mc.bulk_from_youngpoisson(young, poisson)
_ok = nm.allclose(bulk, _bulk, rtol=0.0, atol=1e-14)
self.report('bulk_from_youngpoisson():', _ok)
if not _ok:
self.report('correct:', bulk)
self.report(' got:', _bulk)
ok = ok and _ok
_bulk = mc.bulk_from_lame(lam, mu)
_ok = nm.allclose(bulk, _bulk, rtol=0.0, atol=1e-14)
self.report('bulk_from_lame():', _ok)
if not _ok:
self.report('correct:', bulk)
self.report(' got:', _bulk)
ok = ok and _ok
return ok
import numpy as nm
import sfepy.mechanics.matcoefs as mc
from sfepy.discrete.fem.meshio import UserMeshIO
from sfepy.mesh.mesh_generators import gen_block_mesh
plane = 'strain'
dim = 3
# Material parameters.
E = 200e9
nu = 0.3
rho = 7800.0
lam, mu = mc.lame_from_youngpoisson(E, nu, plane=plane)
# Longitudinal and shear wave propagation speeds.
cl = nm.sqrt((lam + 2.0 * mu) / rho)
cs = nm.sqrt(mu / rho)
# Initial velocity.
v0 = 1.0
# Mesh dimensions and discretization.
d = 2.5e-3
if dim == 3:
L = 4 * d
dims = [L, d, d]
shape = [21, 6, 6]
#shape = [101, 26, 26]
def main():
# Aluminium and epoxy.
default_pars = '70e9,0.35,2.799e3, 3.8e9,0.27,1.142e3'
default_solver_conf = ("kind='eig.scipy',method='eigh',tol=1.0e-5,"
"maxiter=1000,which='LM',sigma=0.0")
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('--pars',
metavar='young1,poisson1,density1'
',young2,poisson2,density2',
action='store',
dest='pars',
default=default_pars,
help=helps['pars'])
parser.add_argument('--conf',
metavar='filename',
action='store',
dest='conf',
default=None,
help=helps['conf'])
parser.add_argument('--mesh-size',
type=float,
metavar='float',
action='store',
dest='mesh_size',
default=None,
help=helps['mesh_size'])
parser.add_argument('--unit-multipliers',
metavar='c_time,c_length,c_mass',
action='store',
dest='unit_multipliers',
default='1.0,1.0,1.0',
help=helps['unit_multipliers'])
parser.add_argument('--plane',
action='store',
dest='plane',
choices=['strain', 'stress'],
default='strain',
help=helps['plane'])
parser.add_argument('--wave-dir',
metavar='float,float[,float]',
action='store',
dest='wave_dir',
default='1.0,0.0,0.0',
help=helps['wave_dir'])
parser.add_argument('--mode',
action='store',
dest='mode',
choices=['omega', 'kappa'],
default='omega',
help=helps['mode'])
parser.add_argument('--range',
metavar='start,stop,count',
action='store',
dest='range',
default='10,100,10',
help=helps['range'])
parser.add_argument('--order',
metavar='int',
type=int,
action='store',
dest='order',
default=1,
help=helps['order'])
parser.add_argument('--refine',
metavar='int',
type=int,
action='store',
dest='refine',
default=0,
help=helps['refine'])
parser.add_argument('-n',
'--n-eigs',
metavar='int',
type=int,
action='store',
dest='n_eigs',
default=6,
help=helps['n_eigs'])
parser.add_argument('--eigs-only',
action='store_true',
dest='eigs_only',
default=False,
help=helps['eigs_only'])
parser.add_argument('--solver-conf',
metavar='dict-like',
action='store',
dest='solver_conf',
default=default_solver_conf,
help=helps['solver_conf'])
parser.add_argument('--save-materials',
action='store_true',
dest='save_materials',
default=False,
help=helps['save_materials'])
parser.add_argument('--log-std-waves',
action='store_true',
dest='log_std_waves',
default=False,
help=helps['log_std_waves'])
parser.add_argument('--silent',
action='store_true',
dest='silent',
default=False,
help=helps['silent'])
parser.add_argument('-c',
'--clear',
action='store_true',
dest='clear',
default=False,
help=helps['clear'])
parser.add_argument('-o',
'--output-dir',
metavar='path',
action='store',
dest='output_dir',
default='output',
help=helps['output_dir'])
parser.add_argument('mesh_filename',
default='',
help=helps['mesh_filename'])
options = parser.parse_args()
output_dir = options.output_dir
output.set_output(filename=os.path.join(output_dir, 'output_log.txt'),
combined=options.silent == False)
if options.conf is not None:
mod = import_file(options.conf)
apply_units = mod.apply_units
define = mod.define
set_wave_dir = mod.set_wave_dir
else:
apply_units = apply_units_le
define = define_le
set_wave_dir = set_wave_dir_le
options.pars = [float(ii) for ii in options.pars.split(',')]
options.unit_multipliers = [
float(ii) for ii in options.unit_multipliers.split(',')
]
options.wave_dir = [float(ii) for ii in options.wave_dir.split(',')]
aux = options.range.split(',')
options.range = [float(aux[0]), float(aux[1]), int(aux[2])]
options.solver_conf = dict_from_string(options.solver_conf)
if options.clear:
remove_files_patterns(output_dir, ['*.h5', '*.vtk', '*.txt'],
ignores=['output_log.txt'],
verbose=True)
filename = os.path.join(output_dir, 'options.txt')
ensure_path(filename)
save_options(filename, [('options', vars(options))])
pars = apply_units(options.pars, options.unit_multipliers)
output('material parameters with applied unit multipliers:')
output(pars)
if options.mode == 'omega':
rng = copy(options.range)
rng[:2] = apply_unit_multipliers(options.range[:2],
['wave_number', 'wave_number'],
options.unit_multipliers)
output('wave number range with applied unit multipliers:', rng)
else:
rng = copy(options.range)
rng[:2] = apply_unit_multipliers(options.range[:2],
['frequency', 'frequency'],
options.unit_multipliers)
output('frequency range with applied unit multipliers:', rng)
define_problem = functools.partial(define,
filename_mesh=options.mesh_filename,
pars=pars,
approx_order=options.order,
refinement_level=options.refine,
solver_conf=options.solver_conf,
plane=options.plane)
conf = ProblemConf.from_dict(define_problem(), sys.modules[__name__])
pb = Problem.from_conf(conf)
dim = pb.domain.shape.dim
if dim != 2:
options.plane = 'strain'
wdir = nm.asarray(options.wave_dir[:dim], dtype=nm.float64)
wdir = wdir / nm.linalg.norm(wdir)
stepper = TimeStepper(rng[0], rng[1], dt=None, n_step=rng[2])
bbox = pb.domain.mesh.get_bounding_box()
size = (bbox[1] - bbox[0]).max()
scaling0 = apply_unit_multipliers([1.0], ['length'],
options.unit_multipliers)[0]
scaling = scaling0
if options.mesh_size is not None:
scaling *= options.mesh_size / size
output('scaling factor of periodic cell mesh coordinates:', scaling)
output('new mesh size with applied unit multipliers:', scaling * size)
pb.domain.mesh.coors[:] *= scaling
pb.set_mesh_coors(pb.domain.mesh.coors, update_fields=True)
bzone = 2.0 * nm.pi / (scaling * size)
output('1. Brillouin zone size:', bzone * scaling0)
output('1. Brillouin zone size with applied unit multipliers:', bzone)
pb.time_update()
pb.update_materials()
if options.save_materials or options.log_std_waves:
stiffness = pb.evaluate('ev_integrate_mat.2.Omega(m.D, u)',
mode='el_avg',
copy_materials=False,
verbose=False)
young, poisson = mc.youngpoisson_from_stiffness(stiffness,
plane=options.plane)
density = pb.evaluate('ev_integrate_mat.2.Omega(m.density, u)',
mode='el_avg',
copy_materials=False,
verbose=False)
if options.save_materials:
out = {}
out['young'] = Struct(name='young',
mode='cell',
data=young[..., None, None])
out['poisson'] = Struct(name='poisson',
mode='cell',
data=poisson[..., None, None])
out['density'] = Struct(name='density', mode='cell', data=density)
materials_filename = os.path.join(output_dir, 'materials.vtk')
pb.save_state(materials_filename, out=out)
# Set the normalized wave vector direction to the material(s).
set_wave_dir(pb.get_materials(), wdir)
conf = pb.solver_confs['eig']
eig_solver = Solver.any_from_conf(conf)
# Assemble the matrices.
mtx_m = pb.mtx_a.copy()
eq_m = pb.equations['M']
mtx_m = eq_m.evaluate(mode='weak', dw_mode='matrix', asm_obj=mtx_m)
mtx_m.eliminate_zeros()
mtx_k = pb.mtx_a.copy()
eq_k = pb.equations['K']
mtx_k = eq_k.evaluate(mode='weak', dw_mode='matrix', asm_obj=mtx_k)
mtx_k.eliminate_zeros()
mtx_s = pb.mtx_a.copy()
eq_s = pb.equations['S']
mtx_s = eq_s.evaluate(mode='weak', dw_mode='matrix', asm_obj=mtx_s)
mtx_s.eliminate_zeros()
mtx_r = pb.mtx_a.copy()
eq_r = pb.equations['R']
mtx_r = eq_r.evaluate(mode='weak', dw_mode='matrix', asm_obj=mtx_r)
mtx_r.eliminate_zeros()
output('symmetry checks of real blocks:')
output('M - M^T:', _max_diff_csr(mtx_m, mtx_m.T))
output('K - K^T:', _max_diff_csr(mtx_k, mtx_k.T))
output('S - S^T:', _max_diff_csr(mtx_s, mtx_s.T))
output('R + R^T:', _max_diff_csr(mtx_r, -mtx_r.T))
n_eigs = options.n_eigs
if options.n_eigs > mtx_k.shape[0]:
options.n_eigs = mtx_k.shape[0]
n_eigs = None
if options.mode == 'omega':
eigenshapes_filename = os.path.join(
output_dir, 'frequency-eigenshapes-%s.vtk' % stepper.suffix)
extra = []
extra_plot_kwargs = []
if options.log_std_waves:
lam, mu = mc.lame_from_youngpoisson(young,
poisson,
plane=options.plane)
alam = nm.average(lam)
amu = nm.average(mu)
adensity = nm.average(density)
cp = nm.sqrt((alam + 2.0 * amu) / adensity)
cs = nm.sqrt(amu / adensity)
output('average p-wave speed:', cp)
output('average shear wave speed:', cs)
extra = [r'$\omega_p$', r'$\omega_s$']
extra_plot_kwargs = [{
'ls': '--',
'color': 'k'
}, {
'ls': '--',
'color': 'gray'
}]
log = Log(
[[r'$\lambda_{%d}$' % ii for ii in range(options.n_eigs)],
[r'$\omega_{%d}$' % ii for ii in range(options.n_eigs)] + extra],
plot_kwargs=[{}, [{}] * options.n_eigs + extra_plot_kwargs],
yscales=['linear', 'linear'],
xlabels=[r'$\kappa$', r'$\kappa$'],
ylabels=[r'eigenvalues $\lambda_i$', r'frequencies $\omega_i$'],
log_filename=os.path.join(output_dir, 'frequencies.txt'),
aggregate=1000,
sleep=0.1)
for iv, wmag in stepper:
output('step %d: wave vector %s' % (iv, wmag * wdir))
mtx_a = mtx_k + wmag**2 * mtx_s + (1j * wmag) * mtx_r
mtx_b = mtx_m
output('A - A^H:', _max_diff_csr(mtx_a, mtx_a.H))
if options.eigs_only:
eigs = eig_solver(mtx_a,
mtx_b,
n_eigs=n_eigs,
eigenvectors=False)
svecs = None
else:
eigs, svecs = eig_solver(mtx_a,
mtx_b,
n_eigs=options.n_eigs,
eigenvectors=True)
omegas = nm.sqrt(eigs)
output('eigs, omegas:\n', nm.c_[eigs, omegas])
out = tuple(eigs) + tuple(omegas)
if options.log_std_waves:
out = out + (cp * wmag, cs * wmag)
log(*out, x=[wmag, wmag])
save_eigenvectors(eigenshapes_filename % iv, svecs, pb)
log(save_figure=os.path.join(output_dir, 'frequencies.png'))
log(finished=True)
else:
import scipy.sparse as sps
from sksparse.cholmod import cholesky
eigenshapes_filename = os.path.join(
output_dir, 'wave-number-eigenshapes-%s.vtk' % stepper.suffix)
factor = cholesky(mtx_s)
perm = factor.P()
ir = nm.arange(len(perm))
mtx_p = sps.coo_matrix((nm.ones_like(perm), (ir, perm)))
mtx_l = mtx_p.T * factor.L()
mtx_eye = sps.eye(mtx_l.shape[0], dtype=nm.float64)
output('S - LL^T:', _max_diff_csr(mtx_s, mtx_l * mtx_l.T))
log = Log([[r'$\kappa_{%d}$' % ii for ii in range(options.n_eigs)]],
plot_kwargs=[{
'ls': 'None',
'marker': 'o'
}],
yscales=['linear'],
xlabels=[r'$\omega$'],
ylabels=[r'wave numbers $\kappa_i$'],
log_filename=os.path.join(output_dir, 'wave-numbers.txt'),
aggregate=1000,
sleep=0.1)
for io, omega in stepper:
output('step %d: frequency %s' % (io, omega))
mtx_a = sps.bmat([[mtx_k - omega**2 * mtx_m, None],
[None, mtx_eye]])
mtx_b = sps.bmat([[1j * mtx_r, mtx_l], [mtx_l.T, None]])
output('A - A^T:', _max_diff_csr(mtx_a, mtx_a.T))
output('A - A^H:', _max_diff_csr(mtx_a, mtx_a.T))
output('B - B^H:', _max_diff_csr(mtx_b, mtx_b.H))
if options.eigs_only:
eigs = eig_solver(mtx_a,
mtx_b,
n_eigs=n_eigs,
eigenvectors=False)
svecs = None
else:
eigs, svecs = eig_solver(mtx_a,
mtx_b,
n_eigs=options.n_eigs,
eigenvectors=True)
kappas = eigs
output('kappas:\n', kappas[:, None])
out = tuple(kappas)
log(*out, x=[omega])
save_eigenvectors(eigenshapes_filename % io, svecs, pb)
log(save_figure=os.path.join(output_dir, 'wave-numbers.png'))
log(finished=True)
from sfepy.mechanics.matcoefs import lame_from_youngpoisson
from sfepy.discrete.fem.utils import refine_mesh
from sfepy import data_dir
filename_mesh = data_dir + '/meshes/2d/simple_square.mesh'
young = 2000.0 # Young's modulus [MPa]
poisson = 0.4 # Poisson's ratio
from sfepy.mechanics.matcoefs import ElasticConstants, ElasticTensor
elas = ElasticConstants(young=2000., poisson=.4)
bulk, mu = elas.get(['bulk', 'mu'])
elasTensor = ElasticTensor(bulk=bulk, mu=mu, plane='strain')
materials = {
'Asphalt' : ({
'lam' : lame_from_youngpoisson(young, poisson)[0],
'mu' : lame_from_youngpoisson(young, poisson)[1],
'Voight' : elasTensor.voight,
'Mandel' : elasTensor.mandel,
},),
'Load' : ({'.val' : [0.0, -1000.0]},),
}
regions = {
'Omega' : 'all',
'Omega1' : 'cells of group 1',
'Omega2' : 'cells of group 2',
'Left' : ('vertices in (x < 0.0001)', 'facet'),
'Right' : ('vertices in (x > 0.9999)', 'facet'),
'Bottom' : ('vertices in (y < 0.0001)', 'facet'),
'Top' : ('vertices in (y > 0.9999)', 'facet'),
poisson = 0.4 # Poisson's ratio
options = {
'output_dir': output_dir,
}
regions = {
'Omega': ('all', {}),
'Left': ('nodes in (x < 0.001)', {}),
'Bottom': ('nodes in (y < 0.001)', {}),
'Top': ('node 2', {}),
}
materials = {
'Asphalt': ({
'lam': lame_from_youngpoisson(young, poisson)[0],
'mu': lame_from_youngpoisson(young, poisson)[1],
}, ),
'Load': ({
'.val': [0.0, -1000.0]
}, ),
}
fields = {
'displacement': ('real', 'vector', 'Omega', 1),
}
equations = {
'balance_of_forces':
"""dw_lin_elastic_iso.2.Omega(Asphalt.lam, Asphalt.mu, v, u )
= dw_point_load.0.Top(Load.val, v)""",
import numpy as nm
import sfepy.mechanics.matcoefs as mc
from sfepy.discrete.fem.meshio import UserMeshIO
from sfepy.mesh.mesh_generators import gen_block_mesh
plane = 'strain'
dim = 3
# Material parameters.
E = 200e9
nu = 0.3
rho = 7800.0
lam, mu = mc.lame_from_youngpoisson(E, nu, plane=plane)
# Longitudinal and shear wave propagation speeds.
cl = nm.sqrt((lam + 2.0 * mu) / rho)
cs = nm.sqrt(mu / rho)
# Initial velocity.
v0 = 1.0
# Mesh dimensions and discretization.
d = 2.5e-3
if dim == 3:
L = 4 * d
dims = [L, d, d]
shape = [21, 6, 6]
#shape = [101, 26, 26]