.travis.yml

# Language selection
language: cpp
dist: bionic  # default to Ubuntu 18.04 LTS

cache: ccache

# Compilation dependencies
addons:
 apt:
  sources:
  - ubuntu-toolchain-r-test
  packages: &addons_apt_packages
  - libboost-dev
  - libhdf5-serial-dev
  - libfftw3-dev # not sure why this is needed, but otherwise we get linking errors
  - swig
  - python3-dev
  - python3-numpy
  - python3-pytest
  # these were for trusty
  #- root-system-bin
  #- libroot-tree-dev
  #- libroot-tree-treeplayer-dev
  #- libroot-io-dev

# Environment variables:
# To avoid too many builds, we mix some options (although independent tests would have been better)
matrix:
 include:
   #### linux
 - os: linux
   python: 3
   addons:
    apt:
     packages:
     - *addons_apt_packages
     - [g++-6]
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=1 -DSTIR_OPENMP:BOOL=OFF" CC=gcc-6 CXX=g++-6
 - os: linux
   python: 3
   addons:
    apt:
     packages:
     - *addons_apt_packages
     - [g++-5, libinsighttoolkit4-dev]
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=1 -DSTIR_OPENMP:BOOL=OFF -DDISABLE_HDF5=ON" CC=gcc-5 CXX=g++-5
 - os: linux
   python: 3
   addons:
    apt:
     packages:
     - *addons_apt_packages
     - [g++-7, libinsighttoolkit4-dev]
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=0 -DSTIR_OPENMP:BOOL=ON" CC=gcc-7 CXX=g++-7
 - os: linux
   dist: focal
   python: 3
   addons:
    apt:
     packages:
     - *addons_apt_packages
     - [g++-9, libinsighttoolkit4-dev, nlohmann-json3-dev]
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=0 -DSTIR_OPENMP:BOOL=ON" CC=gcc-9 CXX=g++-9
 - os: linux
   dist: focal
   python: 3
   addons:
    apt:
     packages:
     - *addons_apt_packages
     - [g++-10, nlohmann-json3-dev]
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=1 -DSTIR_OPENMP:BOOL=ON" CC=gcc-10 CXX=g++-10
 - os: linux
   # note: can't get it to install on focal due to a package problem
   dist: bionic
   python: 3
   addons:
    apt:
     packages:
     - *addons_apt_packages
     - [clang, libomp-dev]
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=1 -DSTIR_OPENMP:BOOL=ON"  CC=clang CXX=clang++

   ####  osx
   # note: cannot use OpenMP on OSX yet, see https://github.com/UCL/STIR/issues/117
 - os: osx
   osx_image: xcode12.2
   python: 3
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=1 -DSTIR_OPENMP:BOOL=OFF" CC=gcc CXX=g++
   # Disable as ROOT is currently failing via brew (as it wants to build it, and which causes a timeout)
 #- os: osx
 #  python: 3
 #  env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=0 -DSTIR_OPENMP:BOOL=OFF" CC=gcc CXX=g++
 - os: osx
   osx_image: xcode11.3
   python: 3
   env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=1 -DSTIR_OPENMP:BOOL=OFF -DSTIR_ENABLE_EXPERIMENTAL:BOOL=ON" CC=clang CXX=clang++

   # osx, OpenMP using llvm clang
   # disable due to LLVM clang 12.0.1 problem 
 #- os: osx
 #  osx_image: xcode11.3
 #  python: 3
 #  env: EXTRA_BUILD_FLAGS="-DDISABLE_CERN_ROOT=1 -DSTIR_OPENMP:BOOL=ON -DSTIR_ENABLE_EXPERIMENTAL:BOOL=ON -DCMAKE_CXX_COMPILER=/usr/local/opt/llvm/bin/clang++ -DCMAKE_C_COMPILER=/usr/local/opt/llvm/bin/clang"

env:
  global:
  - BUILD_FLAGS="-DBUILD_SWIG_PYTHON:BOOL=On -DSTIR_MPI:BOOL=Off -DCMAKE_BUILD_TYPE=Release"

# No need for sudo
sudo: false

# Actual compilation script

before_install:
  - |
    if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then 

      brew update
      #now upgrade to avoid problems with outdated packages
      brew upgrade

      # check if we're using LLVM
      if [[ $EXTRA_BUILD_FLAGS == *"llvm"* ]]; then
        brew install llvm
        brew install libomp
        export DYLD_FALLBACK_LIBRARY_PATH=$DYLD_FALLBACK_LIBRARY_PATH:"/usr/local/opt/llvm/lib"
        export LDFLAGS="-L/usr/local/opt/llvm/lib"
      fi


      brew install ccache
      export PATH="/usr/local/opt/ccache/libexec:$PATH"
      # Install ROOT, unless disabled
      case "$EXTRA_BUILD_FLAGS" in
          *DISABLE_CERN_ROOT=1*)
              echo "Not installing ROOT to save some time (and potential time-outs)";;
          *)
              brew install root;;
      esac
      brew install swig
      # use Python3 on Mac
      brew upgrade python || true # don't fail if upgrading doesn't do anything
      # find exact location of Python executable to pass to CMake
      PYMVER=3
      PY_EXE=$(which python${PYMVER})
      if [ ! -x "$PY_EXE" ]; then
        echo "Something wrong with finding Python executable for OSX"
        echo "PY_EXE = $PY_EXE"
        travis_terminate 1
      fi
      # Next lines are not necessary if we give the actual path for the executable to cmake
      #PY_LIB=$PY_INST/Python
      #PY_INC=$PY_INST/Headers
      # BUILD_FLAGS="$BUILD_FLAGS -DPYTHON_LIBRARY=$PY_LIB -DPYTHON_INCLUDE_DIR=$PY_INC"
      ${PY_EXE} -m pip install -U pip
      ${PY_EXE} -m pip install pytest numpy
    else
      ## specific handling of clang due to apt package problem in focal(but fails)
      # case $CXX in
      #  clang*)
      #     wget https://apt.llvm.org/llvm.sh
      #     chmod +x llvm.sh
      #     sudo ./llvm.sh 10
      #     ;;
      #   *)
      #     ;;
      # esac
      #
      ## Install ROOT, unless disabled
      case "$EXTRA_BUILD_FLAGS" in
          *DISABLE_CERN_ROOT=1*)
              echo "Not installing ROOT to save some time (and potential time-outs)";;
          *)
              ubuntu_major=`lsb_release -rs| awk -F. '{print $1}'`
              case $ubuntu_major in
                 18) rootcc=gcc7.5;;
                 19) rootcc=gcc9.2;;
                 20) rootcc=gcc9.3;;
              esac
              rootfile=root_v6.24.00.Linux-ubuntu${ubuntu_major}-x86_64-${rootcc}.tar.gz
              wget https://root.cern/download/$rootfile
              tar xzf $rootfile
              source root/bin/thisroot.sh
      esac
      PY_EXE=`which python3`
      # needed for OPENMP support on Travis
      # see https://github.com/travis-ci/travis-ci/issues/8613
      export LD_LIBRARY_PATH=/usr/local/clang/lib:$LD_LIBRARY_PATH
    fi
    ${PY_EXE} --version  
    BUILD_FLAGS="$BUILD_FLAGS -DPYTHON_EXECUTABLE=${PY_EXE}"
    ${CXX} --version      


install:
  - mkdir build install
  - cd build
  - cmake $BUILD_FLAGS $EXTRA_BUILD_FLAGS -DCMAKE_INSTALL_PREFIX=$TRAVIS_BUILD_DIR/install ..
  - make -j 2 all
  - make install
  
script:
  - ctest --output-on-failure
  - export PATH=$PATH:$TRAVIS_BUILD_DIR/install/bin
  - cd $TRAVIS_BUILD_DIR/recon_test_pack
  - ./run_test_simulate_and_recon.sh
  - ./run_test_listmode_recon.sh
  - ./run_test_simulate_and_recon_with_motion.sh
  - ./run_scatter_tests.sh
  - ./run_tests.sh --nointbp
  - ./run_test_zoom_image.sh
  - ./run_ML_norm_tests.sh
  - if [[ $EXTRA_BUILD_FLAGS == *"DDISABLE_CERN_ROOT=0"* ]]; then ./run_root_GATE.sh; fi
  - ./run_tests_modelling.sh
  - cd $TRAVIS_BUILD_DIR/recon_test_pack/SPECT
  - ./run_SPECT_tests.sh
  # Run examples to see if they work
  - cd $TRAVIS_BUILD_DIR/examples/PET_simulation
  - ./run_simulation.sh 1> /dev/null
  - cd $TRAVIS_BUILD_DIR/src
  # Run Python tests, making sure we're using the correct Python interpreter
  - export PYTHON=$(cmake -LA -N $TRAVIS_BUILD_DIR/build |awk -F= '/PYTHON_EXECUTABLE/ {print $2}')
  - echo Using Python executable "$PYTHON"
  - export PYTHONPATH=$TRAVIS_BUILD_DIR/install/python
  - ${PYTHON} -m pytest .