proteingym-benchmark/.github/workflows/ci.yaml at 2773fc062fa25a57dcd1283ca1a32b1ae360080c · ProteinGym/proteingym-benchmark · GitHub

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name: CI pipeline

on:
  workflow_dispatch:
  pull_request:
  merge_group:

  push:
    branches:
      - main
    tags:
      - v*

permissions:
  contents: read

jobs:
  lint:
    name: lint
    runs-on: ubuntu-latest

    steps:
      - uses: actions/checkout@v4

      # In order to install the private repo: pg2-dataset, PAT is needed for now.
      - name: Configure git credentials with PAT
        run: git config --global url."https://x-access-token:${{ secrets.PERSONAL_ACCESS_TOKEN }}@github.com/".insteadOf "https://github.com/"

      - name: Install uv
        uses: astral-sh/setup-uv@v5

      - name: Set up Python
        uses: actions/setup-python@v5
        with:
          python-version-file: ".python-version"

      - name: Install the project
        run: uv sync --all-extras --dev

      - name: Ruff check
        run: uv run ruff check src tests

  test:
    name: test
    runs-on: ubuntu-latest

    steps:
      - uses: actions/checkout@v4

      - name: Configure git credentials with PAT
        run: git config --global url."https://x-access-token:${{ secrets.PERSONAL_ACCESS_TOKEN }}@github.com/".insteadOf "https://github.com/"

      - name: Install uv
        uses: astral-sh/setup-uv@v5

      - name: Set up Python
        uses: actions/setup-python@v5
        with:
          python-version-file: ".python-version"

      - name: Install the project
        run: uv sync --all-extras --dev

      - name: Run tests
        run: uv run pytest tests

      - name: Upload coverage reports to Codecov
        uses: codecov/codecov-action@v5
        with:
          token: ${{ secrets.CODECOV_TOKEN }}