BUG: symlink dirs treated as files during indexing #102
Workflow file for this run
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| name: Python tests | |
| # This file tests the claimed support range of PyBIDS including | |
| # | |
| # * Operating systems: Linux, OSX | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - maint/* | |
| pull_request: {} | |
| schedule: | |
| # 8am EST / 9am EDT Mondays | |
| - cron: '0 13 * * 1' | |
| # Allow job to be triggered manually from GitHub interface | |
| workflow_dispatch: | |
| defaults: | |
| run: | |
| shell: bash | |
| # Force tox and pytest to use color | |
| env: | |
| FORCE_COLOR: true | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| jobs: | |
| test: | |
| # Check each OS, all supported Python, minimum versions and latest releases | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: ['ubuntu-latest', 'macos-latest'] | |
| python-version: [3.8, 3.9, '3.10', '3.11', '3.12'] | |
| dependencies: ['full', 'pre'] | |
| include: | |
| - os: ubuntu-latest | |
| python-version: 3.8 | |
| dependencies: min | |
| exclude: | |
| # Drop pre tests for SPEC-0-unsupported Python versions | |
| # See https://scientific-python.org/specs/spec-0000/ | |
| - python-version: '3.8' | |
| dependencies: pre | |
| - python-version: '3.9' | |
| dependencies: pre | |
| fail-fast: false | |
| env: | |
| DEPENDS: ${{ matrix.dependencies }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| allow-prereleases: true | |
| - name: Display Python version | |
| run: python -c "import sys; print(sys.version)" | |
| - name: Install tox | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install tox tox-gh-actions | |
| - name: Show tox config | |
| run: tox c | |
| - name: Run tox | |
| run: tox -v --exit-and-dump-after 1200 | |
| - uses: codecov/codecov-action@v4 | |
| if: ${{ always() }} | |
| with: | |
| files: cov.xml | |
| token: ${{ secrets.CODECOV_TOKEN }} |