Hi all,
I am trying to include a term to the weak form that involved integrating over parts of the domain surface. After some headaches with the actual problem, I boiled down the error to this MWE (slightly obscuring the mathematics):
import dolfinx as dfx
from mpi4py.MPI import COMM_WORLD as comm
import numpy as np
import ufl
def create_boundary_measure(mesh, marker):
tdim = mesh.topology.dim
fdim = tdim - 1
facets = dfx.mesh.locate_entities(mesh, fdim, marker)
facet_markers = np.full_like(facets, 42)
facet_tag = dfx.mesh.meshtags(mesh, fdim, facets, facet_markers)
ds = ufl.Measure("ds", domain=mesh, subdomain_data=facet_tag)
ds = ds(42)
return ds
mesh = dfx.mesh.create_rectangle(comm, ((0., 0.), (1, 42)), (128, 128))
V = dfx.fem.functionspace(mesh, "P1")
V0 = dfx.fem.functionspace(mesh, "P2")
v = ufl.TestFunction(V)
M = dfx.fem.Function(V)
M0 = dfx.fem.Function(V0)
vel = ufl.as_vector([dfx.fem.Function(V),
dfx.fem.Function(V)])
n = ufl.FacetNormal(mesh)
un_out = (ufl.dot(vel, n) + abs(ufl.dot(vel, n))) / 2.0 # type: ignore
form = -ufl.dot(ufl.nabla_grad(v), M * vel) * ufl.dx # type: ignore
form += ufl.dot(v, un_out * M) * ufl.ds # <- Apparently this term causes the issue in conjunction with.
form += v * (vel[1] * M0).dx(1) * ufl.dx
ds_outer = create_boundary_measure(mesh, lambda x: np.isclose(x[0], 1))
M_outer = dfx.fem.Constant(mesh, 0.5 * 1**2)
un_in = (ufl.dot(vel, n) - abs(ufl.dot(vel, n))) / 2.0 # type: ignore
form += ufl.inner(v, un_in * M_outer) * ds_outer # <- ... this term.
dfx.fem.form(form)
The error message is
Traceback (most recent call last):
File "/Users/---/Python/facet_measure_bug_MWE.py", line 57, in <module>
dfx.fem.form(form)
~~~~~~~~~~~~^^^^^^
File "/Users/---/.local/miniforge/envs/hurr_bl/lib/python3.13/site-packages/dolfinx/fem/forms.py", line 337, in form
return _create_form(form)
File "/Users/---/.local/miniforge/envs/hurr_bl/lib/python3.13/site-packages/dolfinx/fem/forms.py", line 331, in _create_form
return _form(form)
File "/Users/---/.local/miniforge/envs/hurr_bl/lib/python3.13/site-packages/dolfinx/fem/forms.py", line 249, in _form
assert all([d is data[0] for d in data])
~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
AssertionError
indicating some error related to integrating over different subdomains. This is not what I am intending, so I guess I do not understand how to construct the integral measure ds_outer properly.
Interestingly, if I comment-out either of the two lines containing the surface measures ufl.ds and ds_outer, the compilation runs through.
Is this intended behavior, and if so, how would I achieve and integration over the sub-portion of the surface?
Thanks in advance for your help!
Best,
Tom
PS: My env is
#
# Name Version Build Channel
adios2 2.10.2 mpi_openmpi_py313he8d0cd2_5 conda-forge
aiohappyeyeballs 2.6.1 pyhd8ed1ab_0 conda-forge
aiohttp 3.11.16 py313ha9b7d5b_0 conda-forge
aiosignal 1.3.2 pyhd8ed1ab_0 conda-forge
anyio 4.9.0 pyh29332c3_0 conda-forge
aom 3.9.1 h7bae524_0 conda-forge
appnope 0.1.4 pyhd8ed1ab_1 conda-forge
argon2-cffi 23.1.0 pyhd8ed1ab_1 conda-forge
argon2-cffi-bindings 21.2.0 py313h20a7fcf_5 conda-forge
arrow 1.3.0 pyhd8ed1ab_1 conda-forge
asttokens 3.0.0 pyhd8ed1ab_1 conda-forge
async-lru 2.0.5 pyh29332c3_0 conda-forge
attrs 25.3.0 pyh71513ae_0 conda-forge
babel 2.17.0 pyhd8ed1ab_0 conda-forge
beautifulsoup4 4.13.3 pyha770c72_0 conda-forge
bleach 6.2.0 pyh29332c3_4 conda-forge
bleach-with-css 6.2.0 h82add2a_4 conda-forge
blosc 1.21.6 h7dd00d9_1 conda-forge
brotli 1.1.0 hd74edd7_2 conda-forge
brotli-bin 1.1.0 hd74edd7_2 conda-forge
brotli-python 1.1.0 py313h3579c5c_2 conda-forge
bzip2 1.0.8 h99b78c6_7 conda-forge
c-ares 1.34.5 h5505292_0 conda-forge
c-blosc2 2.17.1 h9cbb436_0 conda-forge
ca-certificates 2025.4.26 hbd8a1cb_0 conda-forge
cached-property 1.5.2 hd8ed1ab_1 conda-forge
cached_property 1.5.2 pyha770c72_1 conda-forge
cairo 1.18.4 h6a3b0d2_0 conda-forge
cctools_osx-arm64 1010.6 h3b4f5d3_6 conda-forge
certifi 2025.4.26 pyhd8ed1ab_0 conda-forge
cffi 1.17.1 py313hc845a76_0 conda-forge
cftime 1.6.4.post1 pypi_0 pypi
charset-normalizer 3.4.1 pyhd8ed1ab_0 conda-forge
clang 18.1.8 default_h474c9e2_9 conda-forge
clang-18 18.1.8 default_hf90f093_9 conda-forge
clang_impl_osx-arm64 18.1.8 h2ae9ea5_24 conda-forge
clang_osx-arm64 18.1.8 h07b0088_24 conda-forge
clangxx 18.1.8 default_h1ffe849_9 conda-forge
colorama 0.4.6 pyhd8ed1ab_1 conda-forge
colorcet 3.1.0 pyhd8ed1ab_1 conda-forge
comm 0.2.2 pyhd8ed1ab_1 conda-forge
compiler-rt 18.1.8 h856b3c1_1 conda-forge
compiler-rt_osx-arm64 18.1.8 h832e737_1 conda-forge
contourpy 1.3.1 py313h0ebd0e5_0 conda-forge
coverage 7.8.0 py313ha9b7d5b_0 conda-forge
cycler 0.12.1 pyhd8ed1ab_1 conda-forge
cyrus-sasl 2.1.27 h60b93bd_7 conda-forge
dav1d 1.2.1 hb547adb_0 conda-forge
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debugpy 1.8.13 py313h928ef07_0 conda-forge
decorator 5.2.1 pyhd8ed1ab_0 conda-forge
defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge
dolfiny 0.9.0 pypi_0 pypi
double-conversion 3.3.1 h286801f_0 conda-forge
exceptiongroup 1.2.2 pyhd8ed1ab_1 conda-forge
executing 2.1.0 pyhd8ed1ab_1 conda-forge
expat 2.7.0 h286801f_0 conda-forge
fenics-basix 0.9.0 py313hd7981f8_2 conda-forge
fenics-basix-nanobind-abi 0.2.1.18 h9b63b7c_2 conda-forge
fenics-dolfinx 0.9.0 py313h7880e45_111 conda-forge
fenics-ffcx 0.9.0 pyh2e48890_0 conda-forge
fenics-libbasix 0.9.0 hf7ae0cd_2 conda-forge
fenics-libdolfinx 0.9.0 py313h113a825_111 conda-forge
fenics-ufcx 0.9.0 hb7f7608_0 conda-forge
fenics-ufl 2024.2.0 pyhd8ed1ab_1 conda-forge
ffmpeg 7.1.1 gpl_h583251a_104 conda-forge
fftw 3.3.10 mpi_openmpi_h260600c_10 conda-forge
fltk 1.3.10 h46aaf7c_0 conda-forge
fmt 11.1.4 h440487c_1 conda-forge
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fonts-conda-ecosystem 1 0 conda-forge
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fonttools 4.57.0 py313ha9b7d5b_0 conda-forge
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freeimage 3.18.0 h2e169f6_22 conda-forge
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gdk-pixbuf 2.42.12 h7ddc832_0 conda-forge
gmp 6.3.0 h7bae524_2 conda-forge
gmsh 4.13.1 h88a6c1f_1 conda-forge
graphite2 1.3.13 hebf3989_1003 conda-forge
h11 0.14.0 pyhd8ed1ab_1 conda-forge
h2 4.2.0 pyhd8ed1ab_0 conda-forge
h5py 3.13.0 mpi_openmpi_py313hd9536a5_0 conda-forge
harfbuzz 11.0.1 h371b746_0 conda-forge
hdf4 4.2.15 h2ee6834_7 conda-forge
hdf5 1.14.3 mpi_openmpi_h91eef8b_9 conda-forge
hpack 4.1.0 pyhd8ed1ab_0 conda-forge
httpcore 1.0.7 pyh29332c3_1 conda-forge
httpx 0.28.1 pyhd8ed1ab_0 conda-forge
hyperframe 6.1.0 pyhd8ed1ab_0 conda-forge
hypre 2.32.0 mpi_openmpi_h19a00c9_1 conda-forge
icu 75.1 hfee45f7_0 conda-forge
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imageio 2.37.0 pyhfb79c49_0 conda-forge
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jinja2 3.1.6 pyhd8ed1ab_0 conda-forge
json5 0.12.0 pyhd8ed1ab_0 conda-forge
jsoncpp 1.9.6 h726d253_1 conda-forge
jsonpointer 3.0.0 py313h8f79df9_1 conda-forge
jsonschema 4.23.0 pyhd8ed1ab_1 conda-forge
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jsonschema-with-format-nongpl 4.23.0 hd8ed1ab_1 conda-forge
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lerc 4.0.0 h9a09cb3_0 conda-forge
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