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| name: Run code tests on push and pull requests | |
| on: | |
| push: | |
| pull_request: | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| jobs: | |
| tests: | |
| name: Code tests (Python ${{ matrix.python-version }}, ${{ matrix.os }}) | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: ["ubuntu-latest"] | |
| python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| submodules: true | |
| lfs: true | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| auto-update-conda: true | |
| python-version: ${{ matrix.python-version }} | |
| activate-environment: test | |
| environment-file: .github/requirements.yml | |
| auto-activate-base: false | |
| channels: conda-forge | |
| - shell: bash -l {0} | |
| run: | | |
| conda info | |
| conda list | |
| - name: Lint | |
| shell: bash -l {0} | |
| run: | | |
| python -m flake8 src --exclude src/nifti_mrs/standard | |
| - name: Run pytest | |
| shell: bash -l {0} | |
| run: | | |
| pip install . | |
| pytest -k "not with_fsl_mrs" tests | |
| conda install -c conda-forge -c defaults \ | |
| -c https://fsl.fmrib.ox.ac.uk/fsldownloads/fslconda/public/ \ | |
| fsl_mrs | |
| pip install . | |
| pytest -k "with_fsl_mrs" tests | |