linux python-package.yml #22
Workflow file for this run
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| # This workflow will install Python dependencies, run tests and lint with a variety of Python versions | |
| # For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python | |
| name: Python package | |
| on: | |
| push: | |
| branches: [ "main" ] | |
| pull_request: | |
| branches: [ "main" ] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11"] | |
| steps: | |
| # - uses: actions/checkout@v3 | |
| # - name: Set up Python ${{ matrix.python-version }} | |
| # uses: actions/setup-python@v3 | |
| # with: | |
| # python-version: ${{ matrix.python-version }} | |
| # architecture: x64 | |
| # cache: 'pip' | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| architecture: x64 | |
| miniconda-version: "latest" | |
| channels: bioconda, conda-forge, defaults | |
| use-only-tar-bz2: true # IMPORTANT: This needs to be set for caching to work properly! | |
| auto-update-conda: true | |
| auto-activate-base: true | |
| - name: Install dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get upgrade | |
| sudo apt-get install libglu1 | |
| conda create -y --name nfempy python==python-version | |
| conda activate nfempy || true | |
| # # install a message passing interface and mpi4py | |
| # sudo apt-get install libopenmpi-dev # alt.: conda install -c conda-forge openmpi | |
| # pip install --user mpi4py # alt.: conda install -c anaconda mpi4py | |
| # # install petsc and and petsc4py | |
| # conda install -c conda-forge petsc | |
| # conda install -c conda-forge petsc4py | |
| python -m pip install --upgrade pip | |
| python -m pip install pytest | |
| python -m pip install --upgrade --upgrade-strategy eager -r requirements.txt | |
| # python -m pip install --upgrade cython | |
| # python -m pip install mpi4py petsc #petsc4py | |
| conda install -c conda-forge petsc | |
| conda install -c conda-forge petsc4py | |
| #- name: Lint with flake8 | |
| # run: | | |
| # stop the build if there are Python syntax errors or undefined names | |
| # flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics | |
| # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | |
| # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics | |
| - name: Test with pytest | |
| run: | | |
| pytest |