Some Docker fixes #4632
Workflow file for this run
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| name: "CI (RHEL clone: gcc, oneAPI)" | |
| on: | |
| push: | |
| branches: | |
| - release | |
| pull_request: | |
| branches: | |
| - main | |
| tags: | |
| - "v*" | |
| merge_group: | |
| branches: | |
| - main | |
| workflow_dispatch: | |
| # Cancel superseded runs: a new commit on a pull request makes the | |
| # previous run's result irrelevant. Pushes to 'main' and 'release' are | |
| # left to finish, since they populate caches and publish artefacts. | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: ${{ github.event_name == 'pull_request' }} | |
| env: | |
| GITHUB_USER: ${{ github.actor }} | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| OMPI_ALLOW_RUN_AS_ROOT: 1 | |
| OMPI_ALLOW_RUN_AS_ROOT_CONFIRM: 1 | |
| PRTE_MCA_rmaps_default_mapping_policy: :oversubscribe | |
| PYTEST_ADDOPTS: "-W error" | |
| # Spack environment activation does not add the view's library | |
| # directories to the runtime linker search path, so packages that are | |
| # only present in the environment (not linked via RPATH into a | |
| # consuming package, e.g. mesa-glu's libGLU.so.1 for gmsh) are not | |
| # found at runtime without this. | |
| LD_LIBRARY_PATH: /opt/view/lib:/opt/view/lib64 | |
| jobs: | |
| ci-spack-build: | |
| name: AlmaLinux build and test | |
| runs-on: ubuntu-26.04 | |
| container: ghcr.io/almalinux/almalinux:10 | |
| strategy: | |
| # One compiler failing must not cancel the other: the legs share a | |
| # build cache, so a cancelled leg loses its diagnostics and its | |
| # pushed binaries. | |
| fail-fast: false | |
| matrix: | |
| compiler: ["gcc", "oneapi"] | |
| steps: | |
| - name: Install Spack requirements | |
| run: | | |
| dnf -y install file bzip2 ca-certificates git gzip patch python3 tar \ | |
| unzip xz zstd gcc gcc-c++ gcc-gfortran | |
| - name: Set up Spack | |
| uses: spack/setup-spack@16b756799ede8b28951287f89bcd3fdb32ec1ca3 # v3.0.0 | |
| with: | |
| spack_ref: v1.2.2 | |
| # spack-packages 'develop' at 2026-08-17. Bumping re-solves the | |
| # graph and can invalidate cached binaries; warm the cache first. | |
| packages_ref: 1ccf95574922e2a7f7ef0351bd67758ad4634b7a | |
| - name: Checkout DOLFINx | |
| uses: actions/checkout@v7 | |
| with: | |
| path: dolfinx-src | |
| - name: Create Spack environment | |
| run: spack env create py dolfinx-src/.github/workflows/spack-config/gh-actions-rh.yml | |
| - name: Add dependencies to environment | |
| run: | | |
| spack -e py add mpi petsc+mpi+shared+mumps+superlu-dist slepc parmetis pkgconfig \ | |
| hdf5+mpi boost pugixml spdlog | |
| spack -e py add python py-nanobind py-numpy py-mpi4py py-petsc4py py-slepc4py \ | |
| py-scikit-build-core@1+pyproject py-setuptools py-cffi | |
| spack -e py add py-pip cmake catch2 py-pytest py-pytest-xdist ninja | |
| spack -e py add py-gmsh ^gmsh~fltk~med~mmg+external ^opencascade~draw py-pyvista ^mesa~llvm \ | |
| py-networkx py-matplotlib py-pyamg py-numba ^llvm~clang~lldb~lld~offload~libomptarget~polly targets=x86 \ | |
| py-scipy | |
| # gmsh's compiled library dlopens libGLU.so.1 and several X11 | |
| # libraries unconditionally at runtime (its native file-chooser | |
| # and OpenGL-based drawing code are always built in), but the | |
| # gmsh Spack recipe only declares depends_on("glu"/"gl") when | |
| # +fltk is set. We build gmsh ~fltk, so Spack's dependency graph | |
| # never gets these libraries, and none of them are RPATH-linked | |
| # in by any package either — hence they must be added explicitly | |
| # here and put on LD_LIBRARY_PATH (see env above) so gmsh can | |
| # find them at runtime. | |
| spack -e py add mesa-glu libx11 libxcursor libxft libxinerama libxrender | |
| - if: matrix.compiler == 'oneapi' | |
| name: Add oneAPI compilers to environment | |
| run: spack -e py add intel-oneapi-compilers | |
| - name: Install Spack packages | |
| run: spack -e py install -j $(nproc) --use-buildcache auto | |
| - name: Push packages to Spack cache and update index | |
| env: | |
| GITHUB_USER: ${{ github.actor }} | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| spack debug report | |
| spack -d -e py buildcache push --base-image ghcr.io/almalinux/almalinux:10 --allow-missing --update-index local-buildcache | |
| if: ${{ !cancelled() }} | |
| - name: Load FEniCS testing environment variables | |
| run: cat dolfinx-src/.github/workflows/fenicsx-refs.env >> $GITHUB_ENV | |
| - name: Install FEniCS Python components | |
| run: | | |
| spack env activate py | |
| pip install git+https://github.com/${{ env.ufl_repository }}.git@${{ env.ufl_ref }} | |
| pip install git+https://github.com/${{ env.basix_repository }}.git@${{ env.basix_ref }} | |
| pip install git+https://github.com/${{ env.ffcx_repository }}.git@${{ env.ffcx_ref }} | |
| python -c "import basix, os, sys; sys.stdout.write(os.path.dirname(basix.__file__))" | |
| shell: spack-bash {0} | |
| - name: Configure and build C++ | |
| run: | | |
| spack env activate py | |
| cmake -Werror=dev --warn-uninitialized -G Ninja -DBUILD_TESTING=true -DCMAKE_BUILD_TYPE=Developer \ | |
| -DDOLFINX_ENABLE_PETSC=on -DDOLFINX_ENABLE_SLEPC=true \ | |
| -DDOLFINX_ENABLE_PARMETIS=true -DDOLFINX_ENABLE_SUPERLU_DIST=true -B build -S dolfinx-src/cpp/ | |
| cmake --build build | |
| shell: spack-bash {0} | |
| - name: Run tests without install (C++, serial and MPI np=2) | |
| run: | | |
| spack env activate py | |
| cd build | |
| ctest -V --output-on-failure -R unittests_np_1 | |
| ctest -V --output-on-failure -R unittests_np_2 | |
| shell: spack-bash {0} | |
| - name: Install C++ | |
| run: | | |
| spack env activate py | |
| cmake --build build --target install | |
| shell: spack-bash {0} | |
| - name: Build and run C++ regression tests (serial and MPI (np=2)) | |
| run: | | |
| spack env activate py | |
| cmake -Werror=dev --warn-uninitialized -G Ninja -DCMAKE_BUILD_TYPE=Developer -B build/demo/ -S dolfinx-src/cpp/demo/ | |
| cmake --build build/demo | |
| cd build/demo | |
| ctest -V --output-on-failure -R "demo_.*_np_1" | |
| ctest -V --output-on-failure -R "demo_.*_np_2" | |
| shell: spack-bash {0} | |
| - name: Build Python interface (editable install) | |
| run: | | |
| spack env activate py | |
| pip install --check-build-dependencies --no-build-isolation --config-settings=cmake.build-type=Developer --config-settings=build-dir="build" -e 'dolfinx-src/python/' | |
| shell: spack-bash {0} | |
| - name: Set default DOLFINx JIT options | |
| run: | | |
| mkdir -p ~/.config/dolfinx | |
| echo '{ "cffi_extra_compile_args": ["-g0", "-O0" ] }' > ~/.config/dolfinx/dolfinx_jit_options.json | |
| - name: Run demos (Python, serial and MPI) | |
| run: | | |
| spack env activate py | |
| python -m pytest -n auto -m serial --durations=10 dolfinx-src/python/demo/test.py | |
| # demo_navier-stokes.py deadlocks at np=2 in its MUMPS direct solve | |
| # (singular-system ICNTLs); it passes in the serial run above. | |
| # Deselected by name, not node id, whose path index follows glob order. | |
| python -m pytest -m mpi --num-proc=2 -k "not navier-stokes" dolfinx-src/python/demo/test.py | |
| shell: spack-bash {0} | |
| - name: Run Python unit tests (serial and MPI) | |
| run: | | |
| spack env activate py | |
| python -m pytest -n auto -m "not adios2" --durations=50 dolfinx-src/python/test/unit/ | |
| mpirun -np 2 python -m pytest -m "not adios2" dolfinx-src/python/test/unit/ | |
| shell: spack-bash {0} |