.travis.yml

# Control file for continuous integration testing at http://travis-ci.org/

language: c

matrix:
  include:
    # An optimised build with address and leak checking
    - os: linux
      compiler: clang
      sudo: required
      env: CFLAGS="-g -Wall -O3 -fsanitize=address" LDFLAGS="-fsanitize=address -Wl,-rpath,`pwd`/inst/lib"
    - os: linux
      compiler: gcc-8
      addons:
        apt:
          sources:
            - ubuntu-toolchain-r-test
          packages:
            - gcc-8
      env:
        - CC=gcc-8
        - AR=gcc-ar-8
    # An unoptimised C99 build, for detecting non-static inline functions
    - os: linux
      compiler: gcc-8
      addons:
        apt:
          sources:
            - ubuntu-toolchain-r-test
          packages:
            - gcc-8
      env:
        - CC=gcc-8
        - AR=gcc-ar-8
        - CFLAGS="-std=gnu99 -O0"
        - DO_MAINTAINER_CHECKS=yes
    - os: osx
      compiler: clang
    - os: linux
      compiler: gcc

env:
  global:
    - HTSDIR=./hidden-htslib

# For linux systems
addons:
  apt:
    packages:
    - liblzma-dev
    - libbz2-dev

before_script:
  # Clone htslib, trying the same branch name in the owners' copy of htslib.
  # If this exists then the user is likely making a joint PR to htslib and
  # samtools and we want to validate this PR works in the context of their
  # htslib.  If not, then we need to test this PR against the upstream
  # develop htslib as this is what we'll be linking against once merged.
  # Logic for choosing which to use is in the .travis/clone script.
  - .travis/clone "git://github.com/$(dirname $TRAVIS_REPO_SLUG)/htslib.git" "$HTSDIR" "$TRAVIS_BRANCH"

script:
  - |
    autoreconf -i && \
    (cd $HTSDIR && \
      autoreconf -i && \
      ./configure --prefix=`pwd`/../inst && \
      make -e install \
    ) && \
    (./configure --enable-werror --with-htslib=`pwd`/inst  LDFLAGS="$LDFLAGS -Wl,-rpath,`pwd`/inst/lib" || \
      (cat config.log; /bin/false) \
    ) && \
    if test "x$DO_MAINTAINER_CHECKS" = "xyes" ; then
        make -e maintainer-check
    fi && \
    make -e && \
    make -e test BGZIP=inst/bin/bgzip