services:
  - mysql

os: linux

dist: xenial

language: python
python:
  - '3.7'

cache:
  directories:
    - /home/linuxbrew/.linuxbrew
    - $HOME/.local/share/renv
    - $TRAVIS_BUILD_DIR/renv/library

before_install:
  - /bin/bash -c "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install.sh)"
  - export PATH=/home/linuxbrew/.linuxbrew/bin:$PATH
  - source ~/.bashrc
  - sudo apt-get install linuxbrew-wrapper
  - brew install r
  # - sudo chmod ugo+rw /usr/local/lib/R/site-library
  - R -e 'install.packages(c( "rmarkdown"), repos = "http://cran.us.r-project.org")'
  - R --version

install:
  - wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh;
  - bash miniconda.sh -b -p $HOME/miniconda
  - source "$HOME/miniconda/etc/profile.d/conda.sh"
  - hash -r
  - conda config --set always_yes yes --set changeps1 no
  - conda update -q conda
  - conda info -a
  - conda env create -q -n test-environment python=$TRAVIS_PYTHON_VERSION --file environment.yml
  - conda activate test-environment
  - snakemake renv_install
  - snakemake renv_init
  - snakemake renv_restore

script:
  - cp -r tests/data/raw/* data/raw
  - snakemake --profile tests/settings -R sms_features
  - python -m unittest discover tests/scripts/ -v

notifications:
  email: false
  slack:
    secure: 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
    on_success: always
    template:
      - "Repo `%{repository_slug}` *%{result}* build (<%{build_url}|#%{build_number}>) for commit (<%{compare_url}|%{commit}>) on branch `%{branch}`."
      - "Execution time: *%{duration}*"
      - "Message: %{message}"

branches:
  except:
  - master

  only:
  - travis_test