.travis.yml

language: python
python: # would be surprised if python >3.7 fails... 
  - "3.6"      # current default Python on Travis CI
# command to install dependencies
install:
  - sudo apt-get update
  - sudo apt-get install unzip

  - wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh;
  - bash miniconda.sh -b -p $HOME/miniconda
  - export PATH="$HOME/miniconda/bin:$PATH"
  - hash -r
  - conda config --set always_yes yes --set changeps1 no
  - conda update -q conda
  # Useful for debugging any issues with conda
  - conda info -a

  - conda env create -f environment.yml
  - source activate gi-data

script:
  - cd GIData && python setup.py develop && cd ..
  - snakemake -d datasets/collins_et_al -s datasets/collins_et_al/Snakefile all
  - snakemake -d datasets/roguev_et_al -s datasets/roguev_et_al/Snakefile all
  - snakemake -d datasets/costanzo_et_al_2010 -s datasets/costanzo_et_al_2010/Snakefile all
  - snakemake -d datasets/ryan_et_al_2012 -s datasets/ryan_et_al_2012/Snakefile all
  - snakemake -d datasets/homologs -s datasets/homologs/Snakefile --configfile datasets/homologs/configs/ryan_costanzo10.yml
  - snakemake -d datasets/homologs -s datasets/homologs/Snakefile --configfile datasets/homologs/configs/roguev_collins.yml
  - snakemake -d datasets -s datasets/Snakefile all verify --configfile datasets/ci-config.yml