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Continuous Integration #365
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| name: Continuous Integration | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - main | |
| pull_request: | |
| branches: | |
| - master | |
| - main | |
| schedule: | |
| - cron: "0 0 * * *" | |
| workflow_dispatch: | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| jobs: | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: | |
| - macos-latest | |
| - ubuntu-latest | |
| python-version: | |
| - "3.11" | |
| - "3.12" | |
| - "3.13" | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up conda environment | |
| uses: mamba-org/setup-micromamba@v2 | |
| with: | |
| environment-file: environment.yaml | |
| create-args: >- | |
| python=${{ matrix.python-version }} | |
| - name: Build and install package | |
| run: | | |
| set -eux | |
| python -m venv .venv | |
| source .venv/bin/activate | |
| python -m pip install -e .[dev,docs,mpi] | |
| - name: pytest (no MPI) | |
| if: always() | |
| run: | | |
| source .venv/bin/activate | |
| set -eux | |
| python -m pytest | |
| - name: pytest (MPI) | |
| if: always() | |
| run: | | |
| source .venv/bin/activate | |
| set -eux | |
| mpirun -n 2 python -m pytest -m 'mpi' | |
| test-conda: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: | |
| - ubuntu-latest | |
| python-version: | |
| - "3.13" | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Micromamba | |
| uses: mamba-org/setup-micromamba@v2.0.5 | |
| with: | |
| environment-name: cb-env | |
| create-args: >- | |
| python=${{ matrix.python }} | |
| pip | |
| python-build | |
| twine | |
| conda-build | |
| anaconda-client | |
| condarc: | | |
| channel_priority: strict | |
| channels: | |
| - conda-forge | |
| - defaults | |
| - bioconda | |
| cache-environment: true | |
| cache-downloads: true | |
| - name: Generate Conda metadata | |
| shell: bash | |
| id: conda-meta | |
| run: | | |
| set -eux | |
| eval "$(micromamba shell hook --shell=bash)" | |
| micromamba activate cb-env | |
| ./gen_meta.py | |
| - name: Build (Conda) | |
| shell: bash | |
| id: conda-build | |
| run: | | |
| set -eux | |
| eval "$(micromamba shell hook --shell=bash)" | |
| micromamba activate cb-env | |
| path=$(conda-build . --output) | |
| conda-build . | |
| echo "path=$path" >> $GITHUB_OUTPUT |