.travis.yml

sudo: required
dist: xenial
language: python
python:
  - "3.5"
  - "3.6"
  - "3.7"
install:
  - sudo apt-get update -qq
  - sudo apt-get install -qq tar python3 python3-pyqt4 bzip2 build-essential phyml clustalo clustalw
  - wget -q https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O ~/miniconda.sh
  - bash ~/miniconda.sh -b -p /home/travis/miniconda
  - export PATH="/home/travis/miniconda/envs/test-environment/bin:/home/travis/miniconda/bin:$PATH"
  - conda config --set always_yes yes --set changeps1 no
  - conda config --add channels r
  - conda config --add channels bioconda
  - conda update -q conda
  - conda info -a
  - conda create -q -n test-environment python=$TRAVIS_PYTHON_VERSION
  - source activate test-environment
  - conda install -q dill scipy numpy six fasttree raxml mafft prank muscle blast hmmer iqtree coverage
  - pip install pip --upgrade
  - pip install py pytest pytest-xdist pytest-cov pytest-colordots dendropy biopython
  - wget -q https://raw.githubusercontent.com/biopython/biopython/master/Bio/Restriction/Restriction_Dictionary.py -O /home/travis/miniconda/envs/test-environment/lib/python$TRAVIS_PYTHON_VERSION/site-packages/Bio/Restriction/Restriction_Dictionary.py
  - wget -q https://raw.githubusercontent.com/biopython/biopython/master/Bio/Restriction/Restriction.py -O "/home/travis/miniconda/envs/test-environment/lib/python$TRAVIS_PYTHON_VERSION/site-packages/Bio/Restriction/Restriction.py"
  - pip install python-coveralls 'coverage>=4.4' suds-py3 matplotlib
  - wget -q http://wasabiapp.org/download/pagan/pagan.linux64.20150723.tgz -O /home/travis/pagan.tgz
  - tar -xzf /home/travis/pagan.tgz -C /home/travis
  - ln -s /home/travis/pagan/bin/pagan /home/travis/miniconda/bin/pagan
  - sudo ln -s /home/travis/miniconda/envs/test-environment/bin/raxmlHPC /usr/bin/raxml
  - sudo ln -s /home/travis/miniconda/envs/test-environment/bin/FastTree /usr/bin/fasttree
script:
  - source test.sh