.travis.yml

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

language: cpp
compiler: gcc
sudo: required
dist: trusty
# We have some shenanigans to let us cache submodules, and update changed files
# without messing up mtimes and triggering rebuilds unnecessarily. Travis checks
# out our submodules and then restores the cache over them. We move the cached
# version out of the way, check out the versions we want, rsync over only the
# differing/updated files (updating only their mtimes), and then put the fixed
# version back.
before_install:
  - if [ -e deps ]; then mv deps deps_cached; fi
  - git submodule update --init --recursive
  - rsync -rv --checksum deps/ deps_cached/
  - rm -Rf deps
  # Keep the cached deps if the right compiler version was used.
  # Otherwise start fresk
  - if [[ "$TRAVIS_OS_NAME" == "linux" && -e deps_cached/gcc49 ]]; then mv deps_cached deps; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" && -e deps_cached/gcc6 ]]; then mv deps_cached deps; fi
  - (ls -lah deps/; ls -lah bin/; ls -lah lib/; ls -lah include/) || true
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo add-apt-repository ppa:ubuntu-toolchain-r/test -y; fi
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then ls /etc/apt/sources.list.d; fi
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo rm /etc/apt/sources.list.d/google-chrome.list; fi
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo apt-get update; fi
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo apt-get install -qq gcc-4.9 g++-4.9; fi
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo update-alternatives --install /usr/bin/gcc gcc /usr/bin/gcc-4.9 60 --slave /usr/bin/g++ g++ /usr/bin/g++-4.9; fi
  - gcc --version && g++ --version
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo apt-get install -qq bc rs jq samtools; fi
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo apt-get update -qq; fi
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then sudo apt-get -y install cmake; fi
  # Record that we are building these deps with gcc 4.9
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then mkdir -p deps; touch deps/gcc49; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then rvm install ruby-2.3.3; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then rvm use 2.3.3; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then brew update; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then brew tap homebrew/science; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then brew install jq jansson coreutils md5sha1sum samtools rasqal bison raptor rasqal gperftools autogen gcc6 lz4 xz; brew link bison --force; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export PATH="/usr/local/opt/coreutils/libexec/gnubin:/usr/local/bin:$PATH"; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export LD_LIBRARY_PATH=/usr/local/lib/; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export CFLAGS="-I/usr/local/include/"; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export LIBRARY_PATH=$LD_LIBRARY_PATH; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then which g++-6 || (brew install gcc6; brew link --overwrite gcc@6); fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then mkdir -p ./bin; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then ln -sf `which g++-6` ./bin/g++; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then ln -sf `which gcc-6` ./bin/gcc; fi
  # Record that we are building these deps with gcc 6
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then mkdir -p deps; touch deps/gcc6; fi
  - python ./configure.py
  - source ./source_me.sh
install:
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then make get-deps;fi
script:
  - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then git submodule update --recursive && make -j4 && echo Testing && make test && make static -j4; fi
  - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then git submodule update --recursive && timeout 1500 make deps -j4 && make -j4 && echo Testing && travis_wait 40 make test; fi
# Cache all our dependency directories, and our lib and include
cache:
  directories:
    - deps
    - lib
    - include
    - bin
before_cache:
  - rm -f lib/libvg.*
  - rm -f include/vg.pb.h include/vg_git_version.hpp
  - rm -f bin/vg /bin/vg* bin/g++ bin/gcc
os:
  - linux
  - osx
compiler:
  - gcc