Decouple user email from role name #73
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: BioBlend Tests | |
| on: | |
| pull_request: | |
| paths: | |
| - .github/workflows/bioblend.yaml | |
| - lib/galaxy/schema/** | |
| - lib/galaxy/webapps/galaxy/api/** | |
| - lib/galaxy/webapps/galaxy/services/** | |
| workflow_dispatch: | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| services: | |
| postgres: | |
| image: postgres | |
| # Provide the password for postgres | |
| env: | |
| POSTGRES_PASSWORD: postgres | |
| # Set health checks to wait until postgres has started | |
| options: >- | |
| --health-cmd pg_isready | |
| --health-interval 10s | |
| --health-timeout 5s | |
| --health-retries 5 | |
| ports: | |
| - 5432:5432 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| tox_env: [py313] | |
| galaxy_python_version: ["3.8"] | |
| steps: | |
| - name: Checkout Galaxy | |
| uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 1 | |
| path: galaxy | |
| - name: Checkout Bioblend | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: galaxyproject/bioblend | |
| path: bioblend | |
| - name: Cache pip dir | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/.cache/pip | |
| key: pip-cache-${{ matrix.tox_env }} | |
| - name: Calculate Python version for BioBlend from tox_env | |
| id: get_bioblend_python_version | |
| run: echo "bioblend_python_version=$(echo "${{ matrix.tox_env }}" | sed -e 's/^py\([3-9]\)\([0-9]\+\)/\1.\2/')" >> $GITHUB_OUTPUT | |
| - name: Set up Python for BioBlend | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ steps.get_bioblend_python_version.outputs.bioblend_python_version }} | |
| - name: Install tox | |
| run: | | |
| python3 -m pip install --upgrade pip setuptools | |
| python3 -m pip install 'tox>=1.8.0' | |
| - name: Set up Python for Galaxy | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.galaxy_python_version }} | |
| - name: Run tests | |
| env: | |
| PGPASSWORD: postgres | |
| PGPORT: 5432 | |
| PGHOST: localhost | |
| run: | | |
| # Create a PostgreSQL database for Galaxy. The default SQLite3 database makes test fail randomly because of "database locked" error. | |
| createdb -U postgres galaxy | |
| export DATABASE_CONNECTION=postgresql://postgres:@localhost/galaxy | |
| ./bioblend/run_bioblend_tests.sh -g galaxy -v python${{ matrix.galaxy_python_version }} -e ${{ matrix.tox_env }} | |
| - name: The job has failed | |
| if: ${{ failure() }} | |
| run: | | |
| cat galaxy/*.log |