def test_save_mesh_value_collection(tempdir, encoding, data_type):
dtype_str, dtype = data_type
mesh = UnitCubeMesh(MPI.comm_world, 4, 4, 4)
tdim = mesh.topology.dim
meshfn = MeshFunction(dtype_str, mesh, mesh.topology.dim, False)
meshfn.rename("volume_marker")
for c in Cells(mesh):
if c.midpoint()[1] > 0.1:
meshfn[c] = dtype(1)
if c.midpoint()[1] > 0.9:
meshfn[c] = dtype(2)
for mvc_dim in range(0, tdim + 1):
mvc = MeshValueCollection(dtype_str, mesh, mvc_dim)
tag = "dim_%d_marker" % mvc_dim
mvc.rename(tag)
mesh.init(mvc_dim, tdim)
for e in MeshEntities(mesh, mvc_dim):
if (e.midpoint()[0] > 0.5):
mvc.set_value(e.index(), dtype(1))
filename = os.path.join(tempdir, "mvc_%d.xdmf" % mvc_dim)
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as xdmf:
xdmf.write(meshfn)
xdmf.write(mvc)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
read_function = getattr(xdmf, "read_mvc_" + dtype_str)
mvc = read_function(mesh, tag)
def test_save_3D_facet_function(tempdir, encoding, data_type):
dtype_str, dtype = data_type
mesh = UnitCubeMesh(MPI.comm_world, 4, 4, 4)
mf = MeshFunction(dtype_str, mesh, mesh.topology.dim - 1, 0)
mf.rename("facets")
if (MPI.size(mesh.mpi_comm()) == 1):
for facet in Facets(mesh):
mf[facet] = dtype(facet.index())
else:
for facet in Facets(mesh):
mf[facet] = dtype(facet.global_index())
filename = os.path.join(tempdir, "mf_facet_3D_%s.xdmf" % dtype_str)
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as xdmf:
xdmf.write(mf)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
read_function = getattr(xdmf, "read_mf_" + dtype_str)
mf_in = read_function(mesh, "facets")
diff = 0
for facet in Facets(mesh):
diff += (mf_in[facet] - mf[facet])
assert diff == 0
def test_save_2D_facet_function(tempdir, encoding, data_type):
if invalid_config(encoding):
pytest.skip("XDMF unsupported in current configuration")
dtype_str, dtype = data_type
mesh = UnitSquareMesh(MPI.comm_world, 32, 32)
mf = MeshFunction(dtype_str, mesh, mesh.topology.dim - 1, 0)
mf.rename("facets")
if (MPI.size(mesh.mpi_comm()) == 1):
for facet in Facets(mesh):
mf[facet] = dtype(facet.index())
else:
for facet in Facets(mesh):
mf[facet] = dtype(facet.global_index())
filename = os.path.join(tempdir, "mf_facet_2D_%s.xdmf" % dtype_str)
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as xdmf:
xdmf.write(mf)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
read_function = getattr(xdmf, "read_mf_" + dtype_str)
mf_in = read_function(mesh, "facets")
diff = 0
for facet in Facets(mesh):
diff += (mf_in[facet] - mf[facet])
assert diff == 0
def test_save_3D_cell_function(tempdir, encoding, data_type):
if invalid_config(encoding):
pytest.skip("XDMF unsupported in current configuration")
dtype_str, dtype = data_type
mesh = UnitCubeMesh(MPI.comm_world, 4, 4, 4)
mf = MeshFunction(dtype_str, mesh, mesh.topology.dim, 0)
mf.rename("cells")
for cell in Cells(mesh):
mf[cell] = dtype(cell.index())
filename = os.path.join(tempdir, "mf_3D_%s.xdmf" % dtype_str)
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as file:
file.write(mf)
# mf_in = MeshFunction(dtype_str, mesh, mesh.topology.dim, 0)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
read_function = getattr(xdmf, "read_mf_" + dtype_str)
mf_in = read_function(mesh, "cells")
diff = 0
for cell in Cells(mesh):
diff += (mf_in[cell] - mf[cell])
assert diff == 0
def test_save_3D_edge_function(tempdir, encoding, data_type):
dtype_str, dtype = data_type
mesh = UnitCubeMesh(MPI.comm_world, 4, 4, 4)
mf = MeshFunction(dtype_str, mesh, 1, 0)
mf.rename("edges")
for edge in Edges(mesh):
mf[edge] = dtype(edge.index())
filename = os.path.join(tempdir, "mf_edge_3D_%s.xdmf" % dtype_str)
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as file:
file.write(mf)
def test_multiple_datasets(tempdir, encoding):
mesh = UnitSquareMesh(MPI.comm_world, 2, 2)
cf0 = MeshFunction('size_t', mesh, 2, 11)
cf0.rename('cf0')
cf1 = MeshFunction('size_t', mesh, 2, 22)
cf1.rename('cf1')
filename = os.path.join(tempdir, "multiple_mf.xdmf")
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as xdmf:
xdmf.write(mesh)
xdmf.write(cf0)
xdmf.write(cf1)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
mesh = xdmf.read_mesh(MPI.comm_world, cpp.mesh.GhostMode.none)
cf0 = xdmf.read_mf_size_t(mesh, "cf0")
cf1 = xdmf.read_mf_size_t(mesh, "cf1")
assert (cf0[0] == 11 and cf1[0] == 22)
def test_save_2D_vertex_function(tempdir, encoding, data_type):
dtype_str, dtype = data_type
mesh = UnitSquareMesh(MPI.comm_world, 32, 32)
mf = MeshFunction(dtype_str, mesh, 0, 0)
mf.rename("vertices")
for vertex in Vertices(mesh):
mf[vertex] = dtype(vertex.global_index())
filename = os.path.join(tempdir, "mf_vertex_2D_%s.xdmf" % dtype_str)
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as file:
file.write(mf)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
read_function = getattr(xdmf, "read_mf_" + dtype_str)
mf_in = read_function(mesh, "vertices")
diff = 0
for v in Vertices(mesh):
diff += (mf_in[v] - mf[v])
assert diff == 0
def test_save_2D_cell_function(tempdir, encoding, data_type):
dtype_str, dtype = data_type
filename = os.path.join(tempdir, "mf_2D_%s.xdmf" % dtype_str)
mesh = UnitSquareMesh(MPI.comm_world, 32, 32)
mf = MeshFunction(dtype_str, mesh, mesh.topology.dim, 0)
mf.rename("cells")
for cell in Cells(mesh):
mf[cell] = dtype(cell.index())
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as file:
file.write(mf)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
read_function = getattr(xdmf, "read_mf_" + dtype_str)
mf_in = read_function(mesh, "cells")
diff = 0
for cell in Cells(mesh):
diff += (mf_in[cell] - mf[cell])
assert diff == 0
def test_append_and_load_mesh_functions(tempdir, encoding, data_type):
if invalid_config(encoding):
pytest.skip("XDMF unsupported in current configuration")
dtype_str, dtype = data_type
meshes = [
UnitSquareMesh(MPI.comm_world, 12, 12),
UnitCubeMesh(MPI.comm_world, 2, 2, 2)
]
for mesh in meshes:
dim = mesh.topology.dim
vf = MeshFunction(dtype_str, mesh, 0, 0)
vf.rename("vertices")
ff = MeshFunction(dtype_str, mesh, mesh.topology.dim - 1, 0)
ff.rename("facets")
cf = MeshFunction(dtype_str, mesh, mesh.topology.dim, 0)
cf.rename("cells")
if (MPI.size(mesh.mpi_comm()) == 1):
for vertex in Vertices(mesh):
vf[vertex] = dtype(vertex.index())
for facet in Facets(mesh):
ff[facet] = dtype(facet.index())
for cell in Cells(mesh):
cf[cell] = dtype(cell.index())
else:
for vertex in Vertices(mesh):
vf[vertex] = dtype(vertex.global_index())
for facet in Facets(mesh):
ff[facet] = dtype(facet.global_index())
for cell in Cells(mesh):
cf[cell] = dtype(cell.global_index())
filename = os.path.join(tempdir, "appended_mf_%dD.xdmf" % dim)
with XDMFFile(mesh.mpi_comm(), filename, encoding=encoding) as xdmf:
xdmf.write(mesh)
xdmf.write(vf)
xdmf.write(ff)
xdmf.write(cf)
with XDMFFile(mesh.mpi_comm(), filename) as xdmf:
read_function = getattr(xdmf, "read_mf_" + dtype_str)
vf_in = read_function(mesh, "vertices")
ff_in = read_function(mesh, "facets")
cf_in = read_function(mesh, "cells")
diff = 0
for vertex in Vertices(mesh):
diff += (vf_in[vertex] - vf[vertex])
for facet in Facets(mesh):
diff += (ff_in[facet] - ff[facet])
for cell in Cells(mesh):
diff += (cf_in[cell] - cf[cell])
assert diff == 0
