if edgefields:
fh.write("CELL_DATA {0}\n".format(elems.shape[0]))
for n,f in edgefields:
PUTFIELD(n,f)
fh.close()
if __name__=="__main__":
from dolfin import UnitSquareMesh, Function, FunctionSpace, VectorFunctionSpace, TensorFunctionSpace, Expression
mesh = UnitSquareMesh(10,10)
S=FunctionSpace(mesh,"DG",0)
V=VectorFunctionSpace(mesh,"DG",0)
T=TensorFunctionSpace(mesh,"DG",0)
Tsym = TensorFunctionSpace(mesh,"DG",0,symmetry=True)
s = Function(S)
s.interpolate(Expression('x[0]',element=S.ufl_element()))
v = Function(V)
v.interpolate(Expression(('x[0]','x[1]'),element=V.ufl_element()))
t = Function(T)
t.interpolate(Expression(( ('x[0]','1.0'),('2.0','x[1]')),element=T.ufl_element()))
ts = Function(Tsym)
ts.interpolate(Expression(( ('x[0]','1.0'),('x[1]',)),element=Tsym.ufl_element()))
write_vtk_f("test.vtk",cellfunctions={'s':s,'v':v,'t':t,'tsym':ts})
class MeshMotion(AbstractMeshMotion):
def __init__(self, V, subdomains, shape_parametrization_expression):
# Store dolfin data structure related to the geometrical parametrization
self.mesh = subdomains.mesh()
self.subdomains = subdomains
self.reference_coordinates = self.mesh.coordinates().copy()
self.deformation_V = VectorFunctionSpace(self.mesh, "Lagrange", 1)
self.subdomain_id_to_deformation_dofs = dict() # from int to list
for cell in cells(self.mesh):
subdomain_id = int(
self.subdomains[cell]
) - 1 # tuple start from 0, while subdomains from 1
if subdomain_id not in self.subdomain_id_to_deformation_dofs:
self.subdomain_id_to_deformation_dofs[subdomain_id] = list()
dofs = self.deformation_V.dofmap().cell_dofs(cell.index())
for dof in dofs:
global_dof = self.deformation_V.dofmap().local_to_global_index(
dof)
if (self.deformation_V.dofmap().ownership_range()[0] <=
global_dof and global_dof <
self.deformation_V.dofmap().ownership_range()[1]):
self.subdomain_id_to_deformation_dofs[subdomain_id].append(
dof)
# In parallel some subdomains may not be present on all processors. Fill in
# the dict with empty lists if that is the case
mpi_comm = self.mesh.mpi_comm()
min_subdomain_id = mpi_comm.allreduce(min(
self.subdomain_id_to_deformation_dofs.keys()),
op=MIN)
max_subdomain_id = mpi_comm.allreduce(max(
self.subdomain_id_to_deformation_dofs.keys()),
op=MAX)
for subdomain_id in range(min_subdomain_id, max_subdomain_id + 1):
if subdomain_id not in self.subdomain_id_to_deformation_dofs:
self.subdomain_id_to_deformation_dofs[subdomain_id] = list()
# Subdomain numbering is contiguous
assert min(self.subdomain_id_to_deformation_dofs.keys()) == 0
assert len(self.subdomain_id_to_deformation_dofs.keys()) == max(
self.subdomain_id_to_deformation_dofs.keys()) + 1
# Store the shape parametrization expression
self.shape_parametrization_expression = shape_parametrization_expression
assert len(self.shape_parametrization_expression) == len(
self.subdomain_id_to_deformation_dofs.keys())
# Prepare storage for displacement expression, computed by init()
self.displacement_expression = list()
def init(self, problem):
if len(self.displacement_expression
) == 0: # avoid initialize multiple times
# Preprocess the shape parametrization expression to convert it in the displacement expression
# This cannot be done during __init__ because at construction time the number
# of parameters is still unknown
# Declare first some sympy simbolic quantities, needed by ccode
from rbnics.shape_parametrization.utils.symbolic import sympy_symbolic_coordinates
x = sympy_symbolic_coordinates(self.mesh.geometry().dim(),
MatrixSymbol)
mu = MatrixSymbol("mu", len(problem.mu), 1)
# Then carry out the proprocessing
for shape_parametrization_expression_on_subdomain in self.shape_parametrization_expression:
displacement_expression_on_subdomain = list()
assert len(shape_parametrization_expression_on_subdomain
) == self.mesh.geometry().dim()
for (
component, shape_parametrization_component_on_subdomain
) in enumerate(shape_parametrization_expression_on_subdomain):
# convert from shape parametrization T to displacement d = T - I
displacement_expression_component_on_subdomain = sympify(
shape_parametrization_component_on_subdomain +
" - x[" + str(component) + "]",
locals={
"x": x,
"mu": mu
})
displacement_expression_on_subdomain.append(
ccode(displacement_expression_component_on_subdomain).
replace(", 0]", "]"), )
self.displacement_expression.append(
ParametrizedExpression(
problem,
tuple(displacement_expression_on_subdomain),
mu=problem.mu,
element=self.deformation_V.ufl_element(),
domain=self.mesh))
def move_mesh(self):
displacement = self.compute_displacement()
ALE.move(self.mesh, displacement)
def reset_reference(self):
self.mesh.coordinates()[:] = self.reference_coordinates
# Auxiliary method to deform the domain
def compute_displacement(self):
displacement = Function(self.deformation_V)
assert len(self.displacement_expression) == len(
self.shape_parametrization_expression)
for (subdomain, displacement_expression_on_subdomain) in enumerate(
self.displacement_expression):
displacement_function_on_subdomain = Function(self.deformation_V)
LagrangeInterpolator.interpolate(
displacement_function_on_subdomain,
displacement_expression_on_subdomain)
subdomain_dofs = self.subdomain_id_to_deformation_dofs[subdomain]
displacement.vector(
)[subdomain_dofs] = displacement_function_on_subdomain.vector(
)[subdomain_dofs]
return displacement