Update retest.yaml to solve issue with Bio on macos #117
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| name: Retest | |
| on: [push, workflow_dispatch, pull_request] | |
| jobs: | |
| build: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-14] | |
| python-version: ["3.12", "3.13", "3.14"] | |
| exclude: | |
| # biopython 1.84 doesn't have pre-built wheels for Python 3.13/3.14 on macOS | |
| - os: macos-14 | |
| python-version: "3.13" | |
| - os: macos-14 | |
| python-version: "3.14" | |
| steps: | |
| - run: echo "🎉 The job was automatically triggered by a ${{ github.event_name }} event." | |
| - run: echo "🐧 This job is now running on a ${{ runner.os }} server hosted by GitHub!" | |
| - run: echo "🔎 The name of your branch is ${{ github.ref }} and your repository is ${{ github.repository }}." | |
| - name: Check out repository code | |
| uses: actions/checkout@v4 | |
| - run: echo "💡 The ${{ github.repository }} repository has been cloned to the runner." | |
| - run: echo "🖥️ The workflow is now ready to test your code on the runner." | |
| - name: List files in the repository | |
| run: | | |
| ls ${{ github.workspace }} | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install flake8 | |
| pip install -e . | |
| - name: Lint with flake8 | |
| run: | | |
| # stop the build if there are Python syntax errors or undefined names | |
| flake8 recentrifuge/ rcf remock retaxdump retest rextract --count --select=E9,F63,F7 --show-source --statistics | |
| # exit-zero treats all errors as warnings. | |
| flake8 recentrifuge/ rcf remock retaxdump retest rextract --count --exit-zero --max-complexity=10 --max-line-length=79 --statistics | |
| - name: Test with retest | |
| run: | | |
| ./retest -d -l -r | |
| - run: echo "🍏 This job's status is ${{ job.status }}." |