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ci.yaml
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# ==================================================================================================
# Header
# ==================================================================================================
name: CI
on: [push, pull_request]
# ==================================================================================================
# Jobs
# ==================================================================================================
jobs:
# ==========================================================================
# CI Matrix
# ==========================================================================
ci:
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
# -------------------------------------------------------
# matrix
# -------------------------------------------------------
matrix:
os:
# https://docs.github.com/en/actions/using-workflows/workflow-syntax-for-github-actions#choosing-github-hosted-runners
- ubuntu-20.04
- ubuntu-22.04
- macos-11
- macos-12
compiler:
- gcc-7
- gcc-8
- gcc-9
- gcc-10
- gcc-11
- gcc-12
- gcc-13
# - llvm-5
- llvm-6
- llvm-7
- llvm-8
- llvm-9
- llvm-10
- llvm-11
- llvm-12
- llvm-13
- llvm-14
- llvm-15
- llvm-16
- llvm-17
# -------------------------------------------------------
# exclude
# -------------------------------------------------------
exclude:
# Newer GCC versions are not available on all Ubuntu
- os: ubuntu-20.04
compiler: gcc-12
- os: ubuntu-20.04
compiler: gcc-13
- os: ubuntu-20.04
compiler: llvm-13
- os: ubuntu-20.04
compiler: llvm-14
- os: ubuntu-20.04
compiler: llvm-15
- os: ubuntu-20.04
compiler: llvm-16
- os: ubuntu-20.04
compiler: llvm-17
# Older GCC versions are not supported by Ubuntu any more
- os: ubuntu-22.04
compiler: gcc-7
- os: ubuntu-22.04
compiler: gcc-8
# llvm-9 causes weird segfauls on Ubuntu, which do not seem to be our fault.
# Need to investiage further at some point. We used setup-cpp locally to install
# the very same version of llvm-9, and got tons of segfauls for all kind of functions...
- os: ubuntu-20.04
compiler: llvm-9
- os: ubuntu-22.04
compiler: llvm-9
# Older GCC versions are also not supported by MacOS 12 any more.
# Also excluding a broken current one for now... Fix later!
- os: macos-12
compiler: gcc-7
- os: macos-12
compiler: gcc-8
- os: macos-12
compiler: gcc-13
# We also currently exclude clang from macos, as it fails with different types of
# linker errors. As this is merely a problem in the setup, we defer solving this for now.
# Wildcards do not work here, so we have to list them all... :-(
- os: macos-11
compiler: llvm-5
- os: macos-11
compiler: llvm-6
- os: macos-11
compiler: llvm-7
- os: macos-11
compiler: llvm-8
- os: macos-11
compiler: llvm-9
- os: macos-11
compiler: llvm-10
- os: macos-11
compiler: llvm-11
- os: macos-11
compiler: llvm-12
- os: macos-11
compiler: llvm-13
- os: macos-11
compiler: llvm-14
- os: macos-11
compiler: llvm-16
- os: macos-11
compiler: llvm-17
- os: macos-12
compiler: llvm-5
- os: macos-12
compiler: llvm-6
- os: macos-12
compiler: llvm-7
- os: macos-12
compiler: llvm-8
- os: macos-12
compiler: llvm-9
- os: macos-12
compiler: llvm-10
- os: macos-12
compiler: llvm-11
- os: macos-12
compiler: llvm-12
- os: macos-12
compiler: llvm-13
# - os: macos-12
# compiler: llvm-14
# - os: macos-12
# compiler: llvm-15
- os: macos-12
compiler: llvm-16
- os: macos-12
compiler: llvm-17
# -------------------------------------------------------
# include
# -------------------------------------------------------
include:
# Test with the latest of both compilers and OSs
- os: ubuntu-latest
compiler: gcc
- os: ubuntu-latest
compiler: llvm
# - os: macos-latest
# compiler: gcc
# - os: macos-latest
# compiler: llvm
# We test AppleClang as well, as a special case.
# - os: macos-10.15
# compiler: apple
- os: macos-11
compiler: apple
- os: macos-12
compiler: apple
# ==========================================================================
# Steps
# ==========================================================================
steps:
- name: Checkout
uses: actions/[email protected]
# -------------------------------------------------------
# Setup
# -------------------------------------------------------
- name: Setup C++
# Reference: https://github.com/marketplace/actions/setup-cpp-c-c
uses: aminya/[email protected]
if: matrix.compiler != 'apple'
with:
compiler: ${{ matrix.compiler }}
cmake: true
make: true
- name: Setup C++ - AppleClang
if: matrix.compiler == 'apple'
run: |
brew install cmake
# -------------------------------------------------------
# Dependencies
# -------------------------------------------------------
- name: Install Dependencies - Ubuntu
if: runner.os == 'linux'
# 1: htslib dependencies, see https://github.com/samtools/htslib/blob/develop/INSTALL
# 2: clang on ubuntu 22 is not properly set up, we need libtinfo5,
# see https://github.com/aminya/setup-cpp/issues/149
run: |
sudo apt-get install autoconf automake zlib1g-dev libbz2-dev liblzma-dev
sudo apt-get install libtinfo5
- name: Install Dependencies - MacOS
if: runner.os == 'macos'
# - Install simple dependencies of htslib
# - For our test script, we might need gdate, see https://apple.stackexchange.com/a/47181
# This is not used at the moment, but we keep it here for the future.
# - switch xcode mode, see https://stackoverflow.com/a/67654877
run: |
brew install autoconf automake libdeflate
brew install coreutils
if [[ "${{ matrix.compiler }}" == gcc* ]]; then
echo "Patching xcode gcc issues"
sudo xcode-select --switch /Library/Developer/CommandLineTools
fi
# -------------------------------------------------------
# Configure
# -------------------------------------------------------
- name: Configure
run: |
# Need to set the xcode patch here as well, as job steps don't keep status.
if [[ "${RUNNER_OS}" == "macOS" ]] && [[ "${{ matrix.compiler }}" == gcc* ]]; then
echo "Patching xcode gcc issues"
sudo xcode-select --switch /Library/Developer/CommandLineTools
fi
# For static builds, set the according CMake option
export GRENEDALF_BUILD_STATIC=""
if [[ "${{ matrix.os }}" == "ubuntu-22.04" ]] && [[ "${{ matrix.compiler }}" == "gcc-13" ]]; then
export GRENEDALF_BUILD_STATIC="-DGRENEDALF_BUILD_STATIC=ON"
fi
cmake -S . -B ./build ${GRENEDALF_BUILD_STATIC}
# -------------------------------------------------------
# Build & Test
# -------------------------------------------------------
- name: Build
run: |
# Weird workarounds. On some CI builds, this is needed somehow for LLVM under Ubuntu.
if [[ "${RUNNER_OS}" != "macOS" ]] && [[ ! -f /usr/bin/gmake ]]; then
sudo ln -s /usr/bin/make /usr/bin/gmake
fi
# Need to set the xcode patch here as well, as job steps don't keep status.
if [[ "${RUNNER_OS}" == "macOS" ]] && [[ "${{ matrix.compiler }}" == gcc* ]]; then
echo "Patching xcode gcc issues"
sudo xcode-select --switch /Library/Developer/CommandLineTools
fi
cmake --build ./build -- -j 2
- name: Upload Logs
if: always()
uses: actions/upload-artifact@v4
with:
name: logs-${{ matrix.os }}-${{ matrix.compiler }}
path: |
build/**/*.log
# -------------------------------------------------------
# Upload Binaries
# -------------------------------------------------------
- name: Upload Binaries
if: ( matrix.os == 'ubuntu-22.04' && matrix.compiler == 'gcc-13' ) || matrix.compiler == 'apple'
uses: actions/upload-artifact@v4
with:
name: binary-${{ matrix.os }}
path: |
bin/grenedalf