.travis.yml

language: python
python:
  - "3.6"

addons:
  apt:
    sources:
    - r-packages-trusty
    packages:
    - r-base
    - gfortran
    - libblas-dev
    - liblapack-dev

cache:
  directories:
    - $HOME/.cache/pip
    - /usr/local/lib/R/site-library

services:
  - redis-server
  - rabbitmq

env:
  global:
    - R_LIB_USER=$HOME/R/Library

before_install:
  - sudo R -e "source(\"https://bioconductor.org/biocLite.R\"); biocLite()"
  - ( ( R -q -e "'limma' %in% installed.packages()" | grep 'TRUE' > /dev/null ) && echo "limma installed" ) || sudo R -e "source(\"https://bioconductor.org/biocLite.R\"); biocLite(\"limma\")"
  - ( ( R -q -e "'DESeq2' %in% installed.packages()" | grep 'TRUE' > /dev/null ) && echo "DESeq2 installed" ) || sudo R -e "source(\"https://bioconductor.org/biocLite.R\"); biocLite(\"DESeq2\")"

install:
  - pip install .

script:
  - echo -e "REDIS_HOST = 'localhost'\nBROKER_URL = 'amqp://guest:guest@localhost:5672//'\nCELERY_RESULT_BACKEND = 'redis://localhost:6379'" > $HOME/config.py
  - export FRACTALIS_CONFIG=$HOME/config.py
  - cat ${FRACTALIS_CONFIG}
  - celery worker -D -A fractalis:celery -l debug --concurrency=1
  - pytest