Merge pull request #36 from alexpron/datalad-deactivate #11
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| name: Python installation | |
| on: [push] | |
| jobs: | |
| build: | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest] | |
| python-version: ["3.8", "3.9", "3.10"] | |
| #TODO: use github action to read python version from pyproject.toml | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Setup Python | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-update-conda: true | |
| activate-environment: working-env | |
| python-version: ${{ matrix.python-version }} | |
| auto-activate-base: false | |
| - name: Install dependencies | |
| shell: bash -el {0} | |
| run: | | |
| conda install -c conda-forge -c https://conda.anaconda.org/simpleitk SimpleITK brotli bids-validator certifi charset-normalizer dicom-anonymizer idna importlib-metadata 'numpy<2.0' pandas py7zr pybcj pycryptodomex pyppmd pytz pydicom python-dotenv python-dateutil requests six texttable tqdm typing_extensions urllib3 zipp pydicom dicom2nifti Pillow heudiconv git-annex=*=alldep* datalad | |
| # Create virtual env under each python version | |
| # (optional and a bit redundant because we are already on a specific python) | |
| # it insures installation instruction provided in README are working | |
| # - name: Test with pytest | |
| # run: pytest tests.py --doctest-modules --junitxml=junit/test-results-${{ matrix.python-version }}.xml | |
| # - name: Upload pytest test results | |
| # uses: actions/upload-artifact@v4 | |
| # with: | |
| # name: pytest-results-${{ matrix.python-version }} | |
| # path: junit/test-results-${{ matrix.python-version }}.xml | |
| # # Use always() to always run this step to publish test results when there are test failures | |
| # if: ${{ always() }} |