name: Containers

on: [push, pull_request]

concurrency:

group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}

cancel-in-progress: true

jobs:

Containers:

# comment out if we're using the cache

runs-on: ubuntu-latest

container: ${{ matrix.image }}

strategy:

fail-fast: false

matrix:

os: ['alpine', 'archlinux', 'centos', 'rockylinux', 'opensuse']

include:

- os: alpine

image: ghcr.io/samtools/alpine-for-htslib-ci:latest

- os: archlinux

image: ghcr.io/samtools/archlinux-for-htslib-ci:latest

- os: centos

image: ghcr.io/samtools/centos-for-htslib-ci:latest

- os: rockylinux

image: ghcr.io/samtools/rockylinux-for-htslib-ci:latest

- os: opensuse

image: ghcr.io/samtools/opensuse-for-htslib-ci:latest

steps:

- name: Checkout

uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd

with:

persist-credentials: false

- name: Clone htslib

run: |

git config --global --add safe.directory `pwd`

htslib_pr=`git log -2 --format='%s' | sed -n 's/.*htslib#\([0-9]*\).*/\1/p'`

.ci_helpers/clone ${GITHUB_REPOSITORY_OWNER} htslib htslib ${GITHUB_HEAD_REF:-$GITHUB_REF_NAME} $htslib_pr

- name: Configure bcftools

run: |

autoreconf -i

./configure --enable-werror CFLAGS="-g -O3 -std=gnu99 ${{ matrix.cflags }}"

- name: Build htslib and bcftools

run: |

make -j5

- name: Test

run: |

make check