ENH: add action to get feature lengths (#164) #4
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| name: CI | |
| on: | |
| pull_request: | |
| branches: ["main"] | |
| push: | |
| branches: ["main"] | |
| jobs: | |
| test: | |
| environment: dev | |
| runs-on: ubuntu-latest | |
| outputs: | |
| latest-dev-tag: ${{ steps.fetch_latest_tags.outputs.latest-dev-tag }} | |
| latest-stable-tag: ${{ steps.fetch_latest_tags.outputs.latest-stable-tag }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Checkout utilities | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: bokulich-lab/utilities | |
| token: ${{ secrets.BOTULICH_TOKEN }} | |
| path: utilities | |
| - name: Install dependencies | |
| run: python -m pip install requests | |
| - name: Fetch latest tags | |
| id: fetch-tags | |
| run: | | |
| latest_tags=$(python utilities/ci/get-tags.py) | |
| echo "$latest_tags" > tags.txt | |
| echo "latest-dev-tag=$(grep 'latest-dev-tag' tags.txt | cut -d '=' -f 2)" >> $GITHUB_OUTPUT | |
| echo "latest-stable-tag=$(grep 'latest-stable-tag' tags.txt | cut -d '=' -f 2)" >> $GITHUB_OUTPUT | |
| - name: Create conda yaml | |
| run: | | |
| bash utilities/ci/get-dependencies.sh ${{ vars.DISTRO }} ${{ steps.fetch-tags.outputs.latest-dev-tag }} | |
| cat environment.yml | |
| - name: Setup miniconda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| python-version: 3.8 | |
| mamba-version: "*" | |
| channels: conda-forge,defaults | |
| channel-priority: true | |
| activate-environment: conda-env | |
| condarc-file: utilities/ci/condarc | |
| # use-only-tar-bz2: true | |
| - name: Get date | |
| id: get-date | |
| run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT | |
| shell: bash | |
| - name: Cache Conda env | |
| uses: actions/cache@v3 | |
| with: | |
| path: /usr/share/miniconda/envs | |
| key: | |
| conda-${{ runner.os }}--${{ runner.arch }}--${{ | |
| steps.get-date.outputs.today }}-${{ | |
| hashFiles('environment.yml') }}-${{ env.CACHE_NUMBER | |
| }} | |
| env: | |
| # Increase this value to reset cache if environment.yml has not changed | |
| CACHE_NUMBER: 0 | |
| id: cache | |
| - name: Update environment | |
| run: | |
| mamba env update -n conda-env -f environment.yml | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| - name: Install plugin | |
| run: pip install . | |
| - name: Install dev dependencies | |
| run: pip install pytest coverage | |
| - name: Run tests | |
| run: make test-cov | |
| - uses: codecov/codecov-action@v4 | |
| name: Upload coverage report | |
| with: | |
| files: ./coverage.xml | |
| fail_ci_if_error: true | |
| env: | |
| CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} |