Collapse the protein q-values into one field and write pass 2's into the sidecar #318
Workflow file for this run
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| name: CI | |
| on: | |
| push: | |
| branches: [main, develop, performance-optimization] | |
| pull_request: | |
| branches: [main] | |
| env: | |
| CARGO_TERM_COLOR: always | |
| jobs: | |
| test: | |
| name: Test (${{ matrix.os }}) | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest, macos-latest, windows-latest] | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - name: Install Rust toolchain | |
| uses: dtolnay/rust-toolchain@stable | |
| with: | |
| components: rustfmt, clippy | |
| - name: Install dependencies (Ubuntu) | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y libopenblas-dev libssl-dev cmake pkg-config | |
| - name: Install dependencies (macOS) | |
| if: runner.os == 'macOS' | |
| # cmake and openssl@3 are pre-installed on the macos-latest runner image; | |
| # only openblas needs explicit install. `brew install openblas` is a no-op | |
| # when already-installed but kept here as the contract is "ensure present". | |
| run: | | |
| brew install openblas | |
| BREW_PREFIX=$(brew --prefix openblas) | |
| echo "LDFLAGS=-L${BREW_PREFIX}/lib" >> $GITHUB_ENV | |
| echo "CPPFLAGS=-I${BREW_PREFIX}/include" >> $GITHUB_ENV | |
| - name: Install dependencies (Windows) | |
| if: runner.os == 'Windows' | |
| run: | | |
| vcpkg install openblas:x64-windows openssl:x64-windows | |
| echo "VCPKG_ROOT=$env:VCPKG_INSTALLATION_ROOT" >> $env:GITHUB_ENV | |
| - name: Cache cargo registry | |
| uses: actions/cache@v5 | |
| with: | |
| path: | | |
| ~/.cargo/registry | |
| ~/.cargo/git | |
| target | |
| key: ${{ runner.os }}-cargo-${{ hashFiles('**/Cargo.lock') }} | |
| restore-keys: | | |
| ${{ runner.os }}-cargo- | |
| - name: Check formatting | |
| run: cargo fmt --all -- --check | |
| - name: Run clippy | |
| run: cargo clippy --all-targets --all-features -- -D warnings | |
| - name: Run tests | |
| run: cargo test --all-features --verbose | |
| - name: Build release | |
| run: cargo build --release |