Updated htslib #95
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| name: CI on Linux | |
| on: | |
| # Trigger workflow on pull requests of any branch | |
| pull_request: | |
| # Trigger workflow on pushes to following branches | |
| push: | |
| branches: | |
| - master | |
| - dev | |
| env: | |
| TZ: Atlantic/Reykjavik | |
| defaults: | |
| run: | |
| shell: bash -ex {0} | |
| jobs: | |
| build: | |
| name: ${{ matrix.name }} | |
| runs-on: ubuntu-22.04 | |
| timeout-minutes: 120 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| include: | |
| - name: "GCC9 Debug" | |
| pkg: "g++-9" | |
| cxx: "g++-9" | |
| cc: "gcc-9" | |
| build_type: Debug | |
| - name: "GCC9 Release" | |
| pkg: "g++-9" | |
| cxx: "g++-9" | |
| cc: "gcc-9" | |
| build_type: Release | |
| - name: "GCC10 Debug C++20" | |
| pkg: "g++-10" | |
| cxx: "g++-10" | |
| cc: "gcc-10" | |
| cxx_flags: "-std=c++20" | |
| build_type: Debug | |
| - name: "GCC11 Release C++20" | |
| pkg: "g++-11" | |
| cxx: "g++-11" | |
| cc: "gcc-11" | |
| cxx_flags: "-std=c++20" | |
| build_type: Release | |
| - name: "Clang12 Release C++20" | |
| pkg: "clang-12" | |
| cxx: "clang++-12" | |
| cc: "clang-12" | |
| cxx_flags: "-std=c++20" | |
| build_type: Release | |
| - name: "Clang16 Release C++20" | |
| pkg: "clang-16" | |
| cxx: "clang++-16" | |
| cc: "clang-16" | |
| cxx_flags: "-std=c++20" | |
| build_type: Release | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v2 | |
| with: | |
| path: src | |
| fetch-depth: 2 | |
| submodules: recursive | |
| - name: Add package source | |
| run: | | |
| echo 'APT::Acquire::Retries "5";' | sudo tee -a /etc/apt/apt.conf.d/80-retries > /dev/null | |
| sudo add-apt-repository --no-update --yes ppa:ubuntu-toolchain-r/ppa | |
| sudo add-apt-repository --no-update --yes ppa:ubuntu-toolchain-r/test | |
| wget -O - https://apt.llvm.org/llvm-snapshot.gpg.key | sudo apt-key add - | |
| sudo add-apt-repository --no-update --yes "deb http://apt.llvm.org/jammy/ llvm-toolchain-jammy main" | |
| sudo add-apt-repository --no-update --yes "deb http://apt.llvm.org/jammy/ llvm-toolchain-jammy-15 main" | |
| sudo add-apt-repository --no-update --yes "deb http://apt.llvm.org/jammy/ llvm-toolchain-jammy-16 main" | |
| sudo apt-get update | |
| - name: Install Build dependencies | |
| run: sudo apt-get install --yes cmake ccache | |
| - name: Install compiler ${{ matrix.name }} | |
| run: sudo apt-get install --yes ${{ matrix.pkg }} | |
| - name: Load ccache | |
| uses: actions/cache@v2 | |
| with: | |
| path: .ccache | |
| key: ${{ runner.os }}-${{ matrix.name }}-ccache-${{ github.ref }}-${{ github.run_number }} | |
| # Restoring: From current branch, otherwise from base branch, otherwise from any branch. | |
| restore-keys: | | |
| ${{ runner.os }}-${{ matrix.name }}-ccache-${{ github.ref }} | |
| ${{ runner.os }}-${{ matrix.name }}-ccache-${{ github.base_ref }} | |
| ${{ runner.os }}-${{ matrix.name }}-ccache- | |
| - name: Tool versions | |
| run: | | |
| env cmake --version | |
| env ${{ matrix.cxx }} --version | |
| - name: Configure tests | |
| env: | |
| CXX: ${{ matrix.cxx }} | |
| CC: ${{ matrix.cc }} | |
| run: | | |
| mkdir build | |
| cd build | |
| cmake ../src -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} -DCMAKE_CXX_FLAGS="${{ matrix.cxx_flags }}" | |
| - name: Build tests | |
| env: | |
| CCACHE_BASEDIR: ${{ github.workspace }} | |
| CCACHE_DIR: ${{ github.workspace }}/.ccache | |
| CCACHE_COMPRESS: true | |
| CCACHE_COMPRESSLEVEL: 6 | |
| CCACHE_MAXSIZE: 500M | |
| run: | | |
| ccache -p || true | |
| cd build | |
| make -k -j2 | |
| ccache -s || true | |
| - name: Run tests | |
| run: | | |
| cd build | |
| make test | |
| build-aarch64: | |
| name: Linux ARM64 - GCC9 Release | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v3 | |
| with: | |
| submodules: 'recursive' | |
| - name: Build | |
| uses: uraimo/run-on-arch-action@v2 | |
| with: | |
| arch: aarch64 | |
| distro: ubuntu20.04 | |
| githubToken: ${{ github.token }} | |
| dockerRunArgs: | | |
| --volume "${PWD}:/graphtyper" | |
| install: | | |
| apt-get update -q -y | |
| apt-get install -q -y autoconf gcc g++ git make cmake libboost-all-dev liblzma-dev libbz2-dev libz-dev | |
| run: | | |
| git config --global --add safe.directory /graphtyper | |
| git config --global --add safe.directory /graphtyper/paw | |
| cd /graphtyper | |
| mkdir release-build | |
| cd release-build | |
| echo "Running 'cmake .. -Dpaw_BUILD_FLAGS="-DCMAKE_CXX_FLAGS_ARCH=-march=native" -DCMAKE_BUILD_TYPE=Release'" | |
| cmake .. -Dpaw_BUILD_FLAGS="-DCMAKE_CXX_FLAGS_ARCH=-march=native" -DCMAKE_BUILD_TYPE=Release | |
| echo "Running 'make -k -j2'" | |
| make -k -j2 | |
| file ./bin/graphtyper | grep aarch64 | |
| echo "Running the tests..." | |
| make test |