When opening a bigBed with a file-like, use GenericBBIFile, otherwise… #208
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| name: CI | |
| on: | |
| push: | |
| branches: | |
| - master | |
| pull_request: | |
| branches: | |
| - "**" | |
| jobs: | |
| test-lib: | |
| name: Test bigtools | |
| runs-on: ubuntu-latest | |
| continue-on-error: ${{ matrix.rust == 'nightly' }} | |
| strategy: | |
| matrix: | |
| rust: [stable, nightly] | |
| steps: | |
| - name: Checkout the source code | |
| uses: actions/checkout@v2 | |
| with: | |
| fetch-depth: 1 | |
| - name: Install Rust toolchain | |
| uses: actions-rs/toolchain@v1 | |
| with: | |
| toolchain: ${{ matrix.rust }} | |
| profile: minimal | |
| override: true | |
| - name: Build without default features | |
| run: cargo build --no-default-features | |
| - name: Build with all features | |
| run: cargo build --all-features | |
| - name: Execute all tests | |
| run: cargo test --all | |
| test-python: | |
| name: Test pybigtools | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| target: [x86_64] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.10' | |
| - name: Install Rust | |
| uses: actions-rs/toolchain@v1 | |
| with: | |
| toolchain: stable | |
| override: true | |
| - name: Install pybigtools | |
| run: | | |
| pip install maturin | |
| cd pybigtools | |
| pip install -e .[test] | |
| - name: Run tests | |
| run: | | |
| cd pybigtools | |
| pytest -v | |
| lint-rust: | |
| name: Lint Rust | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout the source code | |
| uses: actions/checkout@v2 | |
| with: | |
| fetch-depth: 1 | |
| - name: Install Rust toolchain | |
| uses: actions-rs/toolchain@v1 | |
| with: | |
| toolchain: stable | |
| profile: minimal | |
| override: true | |
| components: rustfmt | |
| - name: Check formatting of all crates in the workspace | |
| run: cargo fmt --all -- --check | |
| lint-python: | |
| name: Lint Python | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.10' | |
| - name: Install ruff | |
| run: pip install ruff | |
| - name: Check formatting | |
| run: | | |
| cd pybigtools | |
| ruff check |