Test for 3D Netgen hierarchies and other new features #3764
8064 tests run, 7273 passed, 786 skipped, 5 failed.
Annotations
Check failure on line 430 in tests/regression/test_netgen.py
github-actions / Firedrake real
test_netgen.test_netgen_dg_labels_2D
AttributeError: 'MeshTopology' object has no attribute 'labels'. Did you mean: 'layers'?
Raw output
def test_netgen_dg_labels_2D():
from netgen.occ import WorkPlane, OCCGeometry, Glue
wp = WorkPlane()
inner = wp.Rectangle(1,1).Face()
inner.name = "inner"
inner.col = (1,0,0)
outer = wp.Rectangle(2,2).Face()
outer.name = "outer"
outer.col = (0,1,0)
outer = outer - inner
shape = Glue([inner, outer])
shape.edges.name = "rect"
geo = OCCGeometry(shape, dim=2)
ngmesh = geo.GenerateMesh(maxh=0.1)
mesh = Mesh(ngmesh)
R = FunctionSpace(mesh, "R", 0)
u = Function(R).assign(1)
> assert(abs(assemble(u*dx(mesh.labels[(2, "inner")]))-1) < 1e-10)
tests/regression/test_netgen.py:430:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = Mesh(VectorElement(FiniteElement('Lagrange', triangle, 1), dim=2), 603)
name = 'labels'
def __getattr__(self, name):
> val = getattr(self._topology, name)
E AttributeError: 'MeshTopology' object has no attribute 'labels'. Did you mean: 'layers'?
firedrake/mesh.py:2735: AttributeError
Check failure on line 451 in tests/regression/test_netgen.py
github-actions / Firedrake real
test_netgen.test_netgen_dg_labels_3D
AttributeError: 'MeshTopology' object has no attribute 'labels'. Did you mean: 'layers'?
Raw output
def test_netgen_dg_labels_3D():
from netgen.occ import Box, OCCGeometry, Glue
inner = Box((0,0,0), (1,1,1))
inner.name = "inner"
inner.col = (1,0,0)
outer = Box((0,0,0), (2,2,2))
outer.name = "outer"
outer.col = (0,1,0)
outer = outer - inner
shape = Glue([inner, outer])
shape.edges.name = "rect"
geo = OCCGeometry(shape)
ngmesh = geo.GenerateMesh(maxh=0.1)
mesh = Mesh(ngmesh)
R = FunctionSpace(mesh, "R", 0)
u = Function(R).assign(1)
> assert(abs(assemble(u*dx(mesh.labels[(3, "inner")]))-1) < 1e-10)
tests/regression/test_netgen.py:451:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = Mesh(VectorElement(FiniteElement('Lagrange', tetrahedron, 1), dim=3), 607)
name = 'labels'
def __getattr__(self, name):
> val = getattr(self._topology, name)
E AttributeError: 'MeshTopology' object has no attribute 'labels'. Did you mean: 'layers'?
firedrake/mesh.py:2735: AttributeError
Check failure on line 458 in tests/regression/test_netgen.py
github-actions / Firedrake real
test_netgen.test_netgen_dg_labels_facets
NameError: name 'X' is not defined
Raw output
def test_netgen_dg_labels_facets():
from netgen.occ import Rectangle, OCCGeometry, Glue
outer = Rectangle(1, 1).Face()
outer.edges.name="outer"
> outer.edges.Max(X).name = "r"
E NameError: name 'X' is not defined
tests/regression/test_netgen.py:458: NameError
Check failure on line 59 in tests/multigrid/test_netgen_gmg.py
github-actions / Firedrake real
test_netgen_gmg.test_netgen_mg_sphere
NotImplementedError: Netgen hierachies are only implemented for 2D meshes.
Raw output
@pytest.mark.skipcomplex
def test_netgen_mg_sphere():
ngmesh = create_netgen_mesh_sphere()
mesh = Mesh(ngmesh)
> nh = MeshHierarchy(mesh, 2, netgen_flags={"degree": 3, "nested": True})
tests/multigrid/test_netgen_gmg.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
firedrake/mg/mesh.py:129: in MeshHierarchy
return NetgenHierarchy(mesh, refinement_levels, flags=netgen_flags)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
mesh = Mesh(VectorElement(FiniteElement('Lagrange', tetrahedron, 1), dim=3), 5317)
levs = 2, flags = {'degree': 3, 'nested': True}
def NetgenHierarchy(mesh, levs, flags):
'''
This function creates a Firedrake mesh hierarchy from Netgen/NGSolve meshes.
:arg mesh: the Netgen/NGSolve mesh
:arg levs: the number of levels in the hierarchy
:arg netgen_flags: either a bool or a dictionray containing options for Netgen.
If not False the hierachy is constructed using ngsPETSc, if None hierarchy
constructed in a standard manner. Netgen flags includes:
-degree, either an integer denoting the degree of curvature of all levels of
the mesh or a list of levs+1 integers denoting the degree of curvature of
each level of the mesh.
-tol, geometric tollerance adopted in snapToNetgenDMPlex.
-refinement_type, the refinment type to be used: uniform (default), Alfeld
'''
if mesh.geometric_dimension() == 3:
> raise NotImplementedError("Netgen hierachies are only implemented for 2D meshes.")
E NotImplementedError: Netgen hierachies are only implemented for 2D meshes.
../firedrake_venv/src/ngsPETSc/ngsPETSc/utils/firedrake/hierarchies.py:115: NotImplementedError
Check failure on line 1 in tests/multigrid/test_netgen_gmg.py
github-actions / Firedrake real
test_netgen_gmg.test_netgen_mg_sphere_parallel
subprocess.CalledProcessError: Command '['mpiexec', '-n', '1', '-genv', '_PYTEST_MPI_CHILD_PROCESS', '1', 'python', '-m', 'pytest', '--runxfail', '-s', '-q', '/__w/firedrake/firedrake/tests/multigrid/test_netgen_gmg.py::test_netgen_mg_sphere_parallel', ':', '-n', '2', 'python', '-m', 'pytest', '--runxfail', '-s', '-q', '/__w/firedrake/firedrake/tests/multigrid/test_netgen_gmg.py::test_netgen_mg_sphere_parallel', '--tb=no', '--no-summary', '--no-header', '--disable-warnings', '--show-capture=no']' returned non-zero exit status 1.
Raw output
args = (), kwargs = {}
def parallel_callback(*args, **kwargs):
> subprocess.run(cmd, check=True)
../firedrake_venv/src/pytest-mpi/pytest_mpi.py:192:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['mpiexec', '-n', '1', '-genv', '_PYTEST_MPI_CHILD_PROCESS', '1', ...],)
kwargs = {}
process = <Popen: returncode: 1 args: ['mpiexec', '-n', '1', '-genv', '_PYTEST_MPI_CHI...>
stdout = None, stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them,
or pass capture_output=True to capture both.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['mpiexec', '-n', '1', '-genv', '_PYTEST_MPI_CHILD_PROCESS', '1', 'python', '-m', 'pytest', '--runxfail', '-s', '-q', '/__w/firedrake/firedrake/tests/multigrid/test_netgen_gmg.py::test_netgen_mg_sphere_parallel', ':', '-n', '2', 'python', '-m', 'pytest', '--runxfail', '-s', '-q', '/__w/firedrake/firedrake/tests/multigrid/test_netgen_gmg.py::test_netgen_mg_sphere_parallel', '--tb=no', '--no-summary', '--no-header', '--disable-warnings', '--show-capture=no']' returned non-zero exit status 1.
/usr/lib/python3.12/subprocess.py:571: CalledProcessError