def test_projection_iga_fem(self):
from sfepy.discrete import FieldVariable
from sfepy.discrete.fem import FEDomain, Field
from sfepy.discrete.iga.domain import IGDomain
from sfepy.mesh.mesh_generators import gen_block_mesh
from sfepy.discrete.iga.domain_generators import gen_patch_block_domain
from sfepy.discrete.projections import (make_l2_projection,
make_l2_projection_data)
shape = [10, 12, 12]
dims = [5, 6, 6]
centre = [0, 0, 0]
degrees = [2, 2, 2]
nurbs, bmesh, regions = gen_patch_block_domain(dims, shape, centre,
degrees,
cp_mode='greville',
name='iga')
ig_domain = IGDomain('iga', nurbs, bmesh, regions=regions)
ig_omega = ig_domain.create_region('Omega', 'all')
ig_field = Field.from_args('iga', nm.float64, 1, ig_omega,
approx_order='iga', poly_space_base='iga')
ig_u = FieldVariable('ig_u', 'parameter', ig_field,
primary_var_name='(set-to-None)')
mesh = gen_block_mesh(dims, shape, centre, name='fem')
fe_domain = FEDomain('fem', mesh)
fe_omega = fe_domain.create_region('Omega', 'all')
fe_field = Field.from_args('fem', nm.float64, 1, fe_omega,
approx_order=2)
fe_u = FieldVariable('fe_u', 'parameter', fe_field,
primary_var_name='(set-to-None)')
def _eval_data(ts, coors, mode, **kwargs):
return nm.prod(coors**2, axis=1)[:, None, None]
make_l2_projection_data(ig_u, _eval_data)
make_l2_projection(fe_u, ig_u) # This calls ig_u.evaluate_at().
coors = 0.5 * nm.random.rand(20, 3) * dims
ig_vals = ig_u.evaluate_at(coors)
fe_vals = fe_u.evaluate_at(coors)
ok = nm.allclose(ig_vals, fe_vals, rtol=0.0, atol=1e-12)
if not ok:
self.report('iga-fem projection failed!')
self.report('coors:')
self.report(coors)
self.report('iga fem diff:')
self.report(nm.c_[ig_vals, fe_vals, nm.abs(ig_vals - fe_vals)])
return ok
def test_projection_iga_fem(self):
from sfepy.discrete import FieldVariable
from sfepy.discrete.fem import FEDomain, Field
from sfepy.discrete.iga.domain import IGDomain
from sfepy.mesh.mesh_generators import gen_block_mesh
from sfepy.discrete.iga.domain_generators import gen_patch_block_domain
from sfepy.discrete.projections import (make_l2_projection,
make_l2_projection_data)
shape = [10, 12, 12]
dims = [5, 6, 6]
centre = [0, 0, 0]
degrees = [2, 2, 2]
nurbs, bmesh, regions = gen_patch_block_domain(dims, shape, centre,
degrees,
cp_mode='greville',
name='iga')
ig_domain = IGDomain('iga', nurbs, bmesh, regions=regions)
ig_omega = ig_domain.create_region('Omega', 'all')
ig_field = Field.from_args('iga', nm.float64, 1, ig_omega,
approx_order='iga', poly_space_base='iga')
ig_u = FieldVariable('ig_u', 'parameter', ig_field,
primary_var_name='(set-to-None)')
mesh = gen_block_mesh(dims, shape, centre, name='fem')
fe_domain = FEDomain('fem', mesh)
fe_omega = fe_domain.create_region('Omega', 'all')
fe_field = Field.from_args('fem', nm.float64, 1, fe_omega,
approx_order=2)
fe_u = FieldVariable('fe_u', 'parameter', fe_field,
primary_var_name='(set-to-None)')
def _eval_data(ts, coors, mode, **kwargs):
return nm.prod(coors**2, axis=1)[:, None, None]
make_l2_projection_data(ig_u, _eval_data)
make_l2_projection(fe_u, ig_u) # This calls ig_u.evaluate_at().
coors = 0.5 * nm.random.rand(20, 3) * dims
ig_vals = ig_u.evaluate_at(coors)
fe_vals = fe_u.evaluate_at(coors)
ok = nm.allclose(ig_vals, fe_vals, rtol=0.0, atol=1e-12)
if not ok:
self.report('iga-fem projection failed!')
self.report('coors:')
self.report(coors)
self.report('iga fem diff:')
self.report(nm.c_[ig_vals, fe_vals, nm.abs(ig_vals - fe_vals)])
return ok
def test_ref_coors_iga(self):
from sfepy.discrete.iga.domain import IGDomain
domain = IGDomain.from_file(
op.join(sfepy.data_dir, 'meshes/iga/block2d.iga'))
omega = domain.create_region('Omega', 'all')
field = Field.from_args('iga',
nm.float64,
'scalar',
omega,
approx_order='iga',
poly_space_base='iga')
mcoors = field.nurbs.cps
conn = field.get_econn('volume', field.region)
bbox = domain.eval_mesh.get_bounding_box()
ray = nm.linspace(bbox[0, 0], bbox[1, 0], 11)
coors = nm.c_[ray, ray]
ref_coors, cells, status = gi.get_ref_coors(field,
coors,
strategy='general',
close_limit=0.0,
verbose=False)
self.report(ref_coors)
self.report(cells)
self.report(status)
ok = nm.all(status == 0)
ctx = field.create_basis_context()
for ic, cell in enumerate(cells):
ctx.iel = cell
bf = ctx.evaluate(ref_coors[ic:ic + 1])
cell_coors = mcoors[conn[cell]]
coor = nm.dot(bf, cell_coors).ravel()
_ok = nm.allclose(coor, coors[ic], atol=1e-14, rtol=0.0)
if not _ok:
self.report('point %d:' % ic)
self.report(' - wrong reference coordinates %s!' %
ref_coors[ic])
self.report(' - given point: %s' % coors[ic])
self.report(' - found point: %s' % coor)
ok = ok and _ok
return ok
def test_ref_coors_iga(self):
from sfepy.discrete.iga.domain import IGDomain
domain = IGDomain.from_file(op.join(sfepy.data_dir,
'meshes/iga/block2d.iga'))
omega = domain.create_region('Omega', 'all')
field = Field.from_args('iga', nm.float64, 'scalar', omega,
approx_order='iga', poly_space_base='iga')
mcoors = field.nurbs.cps
conn = field.get_econn('volume', field.region)
bbox = domain.eval_mesh.get_bounding_box()
ray = nm.linspace(bbox[0, 0], bbox[1, 0], 11)
coors = nm.c_[ray, ray]
ref_coors, cells, status = gi.get_ref_coors(field, coors,
strategy='general',
close_limit=0.0,
verbose=False)
self.report(ref_coors)
self.report(cells)
self.report(status)
ok = nm.all(status == 0)
ctx = field.create_basis_context()
for ic, cell in enumerate(cells):
ctx.iel = cell
bf = ctx.evaluate(ref_coors[ic:ic+1])
cell_coors = mcoors[conn[cell]]
coor = nm.dot(bf, cell_coors).ravel()
_ok = nm.allclose(coor, coors[ic], atol=1e-14, rtol=0.0)
if not _ok:
self.report('point %d:' % ic)
self.report(' - wrong reference coordinates %s!'
% ref_coors[ic])
self.report(' - given point: %s' % coors[ic])
self.report(' - found point: %s' % coor)
ok = ok and _ok
return ok
def from_conf(conf, init_fields=True, init_equations=True,
init_solvers=True):
if conf.options.get('absolute_mesh_path', False):
conf_dir = None
else:
conf_dir = op.dirname(conf.funmod.__file__)
functions = Functions.from_conf(conf.functions)
if conf.get('filename_mesh') is not None:
from sfepy.discrete.fem.domain import FEDomain
mesh = Mesh.from_file(conf.filename_mesh, prefix_dir=conf_dir)
domain = FEDomain(mesh.name, mesh)
if conf.options.get('ulf', False):
domain.mesh.coors_act = domain.mesh.coors.copy()
elif conf.get('filename_domain') is not None:
from sfepy.discrete.iga.domain import IGDomain
domain = IGDomain.from_file(conf.filename_domain)
else:
raise ValueError('missing filename_mesh or filename_domain!')
obj = Problem('problem_from_conf', conf=conf, functions=functions,
domain=domain, auto_conf=False, auto_solvers=False)
obj.set_regions(conf.regions, obj.functions)
obj.clear_equations()
if init_fields:
obj.set_fields(conf.fields)
if init_equations:
obj.set_equations(conf.equations, user={'ts' : obj.ts})
if init_solvers:
obj.set_solvers(conf.solvers, conf.options)
return obj
def from_conf(conf, init_fields=True, init_equations=True,
init_solvers=True):
if conf.options.get('absolute_mesh_path', False):
conf_dir = None
else:
conf_dir = op.dirname(conf.funmod.__file__)
functions = Functions.from_conf(conf.functions)
if conf.get('filename_mesh') is not None:
from sfepy.discrete.fem.domain import FEDomain
mesh = Mesh.from_file(conf.filename_mesh, prefix_dir=conf_dir)
domain = FEDomain(mesh.name, mesh)
if conf.options.get('ulf', False):
domain.mesh.coors_act = domain.mesh.coors.copy()
elif conf.get('filename_domain') is not None:
from sfepy.discrete.iga.domain import IGDomain
domain = IGDomain.from_file(conf.filename_domain)
else:
raise ValueError('missing filename_mesh or filename_domain!')
obj = Problem('problem_from_conf', conf=conf, functions=functions,
domain=domain, auto_conf=False, auto_solvers=False)
obj.set_regions(conf.regions, obj.functions)
obj.clear_equations()
if init_fields:
obj.set_fields(conf.fields)
if init_equations:
obj.set_equations(conf.equations, user={'ts' : obj.ts})
if init_solvers:
obj.set_solvers(conf.solvers, conf.options)
return obj
def test_hdf5_meshio(self):
try:
from igakit import igalib
except ImportError:
self.report('hdf5_meshio not-tested (missing igalib module)!')
return True
import tempfile
import numpy as nm
import scipy.sparse as sps
from sfepy.discrete.fem.meshio import HDF5MeshIO
from sfepy.base.base import Struct
from sfepy.base.ioutils import Cached, Uncached, SoftLink, \
DataSoftLink
from sfepy.discrete.iga.domain import IGDomain
from sfepy.discrete.iga.domain_generators import gen_patch_block_domain
from sfepy.solvers.ts import TimeStepper
from sfepy.discrete.fem import Mesh
conf_dir = op.dirname(__file__)
mesh0 = Mesh.from_file(data_dir +
'/meshes/various_formats/small3d.mesh',
prefix_dir=conf_dir)
shape = [4, 4, 4]
dims = [5, 5, 5]
centre = [0, 0, 0]
degrees = [2, 2, 2]
nurbs, bmesh, regions = gen_patch_block_domain(dims,
shape,
centre,
degrees,
cp_mode='greville',
name='iga')
ig_domain = IGDomain('iga', nurbs, bmesh, regions=regions)
int_ar = nm.arange(4)
data = {
'list':
range(4),
'mesh1':
mesh0,
'mesh2':
mesh0,
'mesh3':
Uncached(mesh0),
'mesh4':
SoftLink('/step0/__cdata/data/data/mesh2'),
'mesh5':
DataSoftLink('Mesh', '/step0/__cdata/data/data/mesh1/data'),
'mesh6':
DataSoftLink('Mesh', '/step0/__cdata/data/data/mesh2/data', mesh0),
'mesh7':
DataSoftLink('Mesh', '/step0/__cdata/data/data/mesh1/data', True),
'iga':
ig_domain,
'cached1':
Cached(1),
'cached2':
Cached(int_ar),
'cached3':
Cached(int_ar),
'types': (True, False, None),
'tuple': ('first string', 'druhý UTF8 řetězec'),
'struct':
Struct(double=nm.arange(4, dtype=float),
int=nm.array([2, 3, 4, 7]),
sparse=sps.csr_matrix(
nm.array([1, 0, 0, 5]).reshape((2, 2))))
}
with tempfile.NamedTemporaryFile(suffix='.h5', delete=False) as fil:
io = HDF5MeshIO(fil.name)
ts = TimeStepper(0, 1., 0.1, 10)
io.write(fil.name,
mesh0, {
'cdata':
Struct(mode='custom', data=data, unpack_markers=False)
},
ts=ts)
ts.advance()
mesh = io.read()
data['problem_mesh'] = DataSoftLink('Mesh', '/mesh', mesh)
io.write(fil.name,
mesh0, {
'cdata':
Struct(mode='custom', data=data, unpack_markers=True)
},
ts=ts)
cache = {'/mesh': mesh}
fout = io.read_data(0, cache=cache)
fout2 = io.read_data(1, cache=cache)
out = fout['cdata']
out2 = fout2['cdata']
assert_(out['mesh7'] is out2['mesh7'],
'These two meshes should be in fact the same object')
assert_(out['mesh6'] is out2['mesh6'],
'These two meshes should be in fact the same object')
assert_(out['mesh5'] is not out2['mesh5'],
'These two meshes shouldn'
't be in fact the same object')
assert_(out['mesh1'] is out['mesh2'],
'These two meshes should be in fact the same object')
assert_(out['mesh1'] is out['mesh2'],
'These two meshes should be in fact the same object')
assert_(out['mesh4'] is out['mesh2'],
'These two meshes should be in fact the same object')
assert_(out['mesh5'] is not out['mesh2'],
'These two meshes shouldn'
't be in fact the same object')
assert_(out['mesh6'] is out['mesh2'],
'These two meshes should be in fact the same object')
assert_(out['mesh7'] is not out['mesh2'],
'These two meshes shouldn'
't be in fact the same object')
assert_(out['mesh3'] is not out['mesh2'],
'These two meshes should be different objects')
assert_(out['cached2'] is out['cached3'],
'These two array should be the same object')
assert_(out2['problem_mesh'] is mesh,
'These two meshes should be the same objects')
assert_(self._compare_meshes(out['mesh1'], mesh0),
'Failed to restore mesh')
assert_(self._compare_meshes(out['mesh3'], mesh0),
'Failed to restore mesh')
assert_((
out['struct'].sparse == data['struct'].sparse).todense().all(),
'Sparse matrix restore failed')
ts.advance()
io.write(fil.name,
mesh0, {
'cdata':
Struct(mode='custom',
data=[
DataSoftLink(
'Mesh',
'/step0/__cdata/data/data/mesh1/data',
mesh0), mesh0
])
},
ts=ts)
out3 = io.read_data(2)['cdata']
assert_(out3[0] is out3[1])
os.remove(fil.name)
#this property is not restored
del data['iga'].nurbs.nurbs
#not supporting comparison
del data['iga']._bnf
del out2['iga']._bnf
#restoration of this property fails
del data['iga'].vertex_set_bcs
del out2['iga'].vertex_set_bcs
#these soflink has no information how to unpack, so it must be
#done manually
data['mesh4'] = mesh0
data['mesh5'] = mesh0
data['mesh7'] = mesh0
for key, val in six.iteritems(out2):
self.report('comparing:', key)
self.assert_equal(val, data[key])
return True
def main():
parser = ArgumentParser(description=__doc__.rstrip(),
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-o',
'--output-dir',
default='.',
help=helps['output_dir'])
parser.add_argument('--R1',
metavar='R1',
action='store',
dest='R1',
default='0.5',
help=helps['R1'])
parser.add_argument('--R2',
metavar='R2',
action='store',
dest='R2',
default='1.0',
help=helps['R2'])
parser.add_argument('--C1',
metavar='C1',
action='store',
dest='C1',
default='0.0,0.0',
help=helps['C1'])
parser.add_argument('--C2',
metavar='C2',
action='store',
dest='C2',
default='0.0,0.0',
help=helps['C2'])
parser.add_argument('--order',
metavar='int',
type=int,
action='store',
dest='order',
default=2,
help=helps['order'])
parser.add_argument('-v',
'--viewpatch',
action='store_true',
dest='viewpatch',
default=False,
help=helps['viewpatch'])
options = parser.parse_args()
# Creation of the NURBS-patch with igakit
R1 = eval(options.R1)
R2 = eval(options.R2)
C1 = list(eval(options.C1))
C2 = list(eval(options.C2))
order = options.order
viewpatch = options.viewpatch
create_patch(R1, R2, C1, C2, order=order, viewpatch=viewpatch)
# Setting a Domain instance
filename_domain = data_dir + '/meshes/iga/concentric_circles.iga'
domain = IGDomain.from_file(filename_domain)
# Sub-domains
omega = domain.create_region('Omega', 'all')
Gamma_out = domain.create_region('Gamma_out',
'vertices of set xi01',
kind='facet')
Gamma_in = domain.create_region('Gamma_in',
'vertices of set xi00',
kind='facet')
# Field (featuring order elevation)
order_increase = order - domain.nurbs.degrees[0]
order_increase *= int(order_increase > 0)
field = Field.from_args('fu',
nm.float64,
'scalar',
omega,
approx_order='iga',
space='H1',
poly_space_base='iga')
# Variables
u = FieldVariable('u', 'unknown', field) # unknown function
v = FieldVariable('v', 'test', field,
primary_var_name='u') # test function
# Integral
integral = Integral('i', order=2 * field.approx_order)
# Term
t = Term.new('dw_laplace( v, u )', integral, omega, v=v, u=u)
# Equation
eq = Equation('laplace', t)
eqs = Equations([eq])
# Boundary Conditions
u_in = EssentialBC('u_in', Gamma_in, {'u.all': 7.0})
u_out = EssentialBC('u_out', Gamma_out, {'u.all': 3.0})
# solvers
ls = ScipyDirect({})
nls_status = IndexedStruct()
nls = Newton({}, lin_solver=ls, status=nls_status)
# problem instance
pb = Problem('potential', equations=eqs, active_only=True)
# Set boundary conditions
pb.set_bcs(ebcs=Conditions([u_in, u_out]))
# solving
pb.set_solver(nls)
status = IndexedStruct()
state = pb.solve(status=status, save_results=True, verbose=True)
# Saving the results to a classic VTK file
filename = os.path.join(options.output_dir, 'concentric_circles.vtk')
ensure_path(filename)
pb.save_state(filename, state)