.travis.yml

language: python

python:
  # We don't actually use the Travis Python, but this keeps it organized.
  - "3.6"

before_install:
  - |
    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 config --add channels defaults
    conda config --add channels bioconda
    conda config --add channels conda-forge
    conda env create -n vs2 --file vs2-external-deps.yaml

install:
  - source activate vs2
  - python setup.py install
  - virsorter --help
  - virsorter --version
script:
  - N_THREADS=2 ; MEM=5
  - virsorter setup -d db -j $N_THREADS
  - virsorter run -w test/test.out -i test/8seq.fa all --dryrun