def test_3d(tempdir, cell_type, encoding):
filename = os.path.join(tempdir, "meshtags_3d.xdmf")
comm = MPI.COMM_WORLD
mesh = UnitCubeMesh(comm, 4, 4, 4, cell_type)
bottom_facets = locate_entities(mesh, 2, lambda x: np.isclose(x[1], 0.0))
bottom_values = np.full(bottom_facets.shape, 1, dtype=np.intc)
left_facets = locate_entities(mesh, 2, lambda x: np.isclose(x[0], 0.0))
left_values = np.full(left_facets.shape, 2, dtype=np.intc)
indices, pos = np.unique(np.hstack((bottom_facets, left_facets)), return_index=True)
mt = MeshTags(mesh, 2, indices, np.hstack((bottom_values, left_values))[pos])
mt.name = "facets"
top_lines = locate_entities(mesh, 1, lambda x: np.isclose(x[2], 1.0))
top_values = np.full(top_lines.shape, 3, dtype=np.intc)
right_lines = locate_entities(mesh, 1, lambda x: np.isclose(x[0], 1.0))
right_values = np.full(right_lines.shape, 4, dtype=np.intc)
indices, pos = np.unique(np.hstack((top_lines, right_lines)), return_index=True)
mt_lines = MeshTags(mesh, 1, indices, np.hstack((top_values, right_values))[pos])
mt_lines.name = "lines"
with XDMFFile(comm, filename, "w", encoding=encoding) as file:
mesh.topology.create_connectivity_all()
file.write_mesh(mesh)
file.write_meshtags(mt)
file.write_meshtags(mt_lines)
file.write_information("units", "mm")
with XDMFFile(comm, filename, "r", encoding=encoding) as file:
mesh_in = file.read_mesh()
mesh_in.topology.create_connectivity_all()
mt_in = file.read_meshtags(mesh_in, "facets")
mt_lines_in = file.read_meshtags(mesh_in, "lines")
units = file.read_information("units")
assert units == "mm"
assert mt_in.name == "facets"
assert mt_lines_in.name == "lines"
with XDMFFile(comm, os.path.join(tempdir, "meshtags_3d_out.xdmf"), "w", encoding=encoding) as file:
file.write_mesh(mesh_in)
file.write_meshtags(mt_lines_in)
file.write_meshtags(mt_in)
# Check number of owned and marked entities
lines_local = comm.allreduce((mt_lines.indices < mesh.topology.index_map(1).size_local).sum(), op=MPI.SUM)
lines_local_in = comm.allreduce(
(mt_lines_in.indices < mesh_in.topology.index_map(1).size_local).sum(), op=MPI.SUM)
assert lines_local == lines_local_in
# Check that only owned data is written to file
facets_local = comm.allreduce((mt.indices < mesh.topology.index_map(2).size_local).sum(), op=MPI.SUM)
parser = ElementTree.XMLParser()
tree = ElementTree.parse(os.path.join(tempdir, "meshtags_3d_out.xdmf"), parser)
num_lines = int(tree.findall(".//Grid[@Name='lines']/Topology")[0].get("NumberOfElements"))
num_facets = int(tree.findall(".//Grid[@Name='facets']/Topology")[0].get("NumberOfElements"))
assert(num_lines == lines_local)
assert(num_facets == facets_local)
def test_3d(tempdir, cell_type, encoding):
filename = os.path.join(tempdir, "meshtags_3d.xdmf")
comm = MPI.COMM_WORLD
mesh = UnitCubeMesh(comm, 4, 4, 4, cell_type)
bottom_facets = locate_entities(mesh, 2, lambda x: np.isclose(x[1], 0.0))
bottom_values = np.full(bottom_facets.shape, 1, dtype=np.intc)
left_facets = locate_entities(mesh, 2, lambda x: np.isclose(x[0], 0.0))
left_values = np.full(left_facets.shape, 2, dtype=np.intc)
indices, pos = np.unique(np.hstack((bottom_facets, left_facets)), return_index=True)
mt = MeshTags(mesh, 2, indices, np.hstack((bottom_values, left_values))[pos])
mt.name = "facets"
top_lines = locate_entities(mesh, 1, lambda x: np.isclose(x[2], 1.0))
top_values = np.full(top_lines.shape, 3, dtype=np.intc)
right_lines = locate_entities(mesh, 1, lambda x: np.isclose(x[0], 1.0))
right_values = np.full(right_lines.shape, 4, dtype=np.intc)
indices, pos = np.unique(np.hstack((top_lines, right_lines)), return_index=True)
mt_lines = MeshTags(mesh, 1, indices, np.hstack((top_values, right_values))[pos])
mt_lines.name = "lines"
with XDMFFile(comm, filename, "w", encoding=encoding) as file:
mesh.topology.create_connectivity_all()
file.write_mesh(mesh)
file.write_meshtags(mt)
file.write_meshtags(mt_lines)
with XDMFFile(comm, filename, "r", encoding=encoding) as file:
mesh_in = file.read_mesh()
mesh_in.topology.create_connectivity_all()
mt_in = file.read_meshtags(mesh_in, "facets")
mt_lines_in = file.read_meshtags(mesh_in, "lines")
assert mt_in.name == "facets"
assert mt_lines_in.name == "lines"
with XDMFFile(comm, os.path.join(tempdir, "meshtags_3d_out.xdmf"), "w", encoding=encoding) as file:
file.write_mesh(mesh_in)
file.write_meshtags(mt_lines_in)
file.write_meshtags(mt_in)
# Check number of owned and marked entities
lines_local = comm.allreduce((mt_lines.indices < mesh.topology.index_map(1).size_local).sum(), op=MPI.SUM)
lines_local_in = comm.allreduce(
(mt_lines_in.indices < mesh_in.topology.index_map(1).size_local).sum(), op=MPI.SUM)
assert lines_local == lines_local_in