.travis.yml

#Special configuration file to run tests on Travis-CI via GitHub notifications
#See http://travis-ci.org/ for details
#
#Note when testing Python 3, the 'python' command will invoke Python 3
#and similarly for PyPy too.

language: python
python:
  - "2.6"
  - "2.7"
  - "3.3"
  - "3.4"
  - "3.5"
  - "pypy"
  - "pypy3"

before_install:
  - "export PY3=yes"
  - "if [[ $TRAVIS_PYTHON_VERSION == '2.6' ]]; then export PY3=no; fi"
  - "if [[ $TRAVIS_PYTHON_VERSION == '2.7' ]]; then export PY3=no; fi"
  - "if [[ $TRAVIS_PYTHON_VERSION == 'pypy' ]]; then export PY3=no; fi"
  - "export PYPY=no"
  - "if [[ $TRAVIS_PYTHON_VERSION == 'pypy' ]]; then export PYPY=yes; fi"
  - "if [[ $TRAVIS_PYTHON_VERSION == 'pypy3' ]]; then export PYPY=yes; fi"
#Misc command line tools we can call
  - "sudo apt-get install clustalw clustalo"
  - "sudo apt-get install muscle mafft probcons wise emboss"
#Suspect an update of t-coffee is causing the test run to stall...
#  - "sudo apt-get install --no-install-recommends t-coffee"
  - "sudo apt-get install samtools bwa"
#Misc python modules we can use as soft dependencies
  - "if [[ $PYPY != 'yes' ]]; then pip install reportlab; fi"
  - "pip install rdflib"
#Not hosted on PyPI so this need allow external switch:
#Currently pypy3-2.4.0 self reports as Python 3.2,
#which is not supported by mysql-connector-python
  - "if [[ $TRAVIS_PYTHON_VERSION != 'pypy3' ]]; then pip install --allow-all-external mysql-connector-python; fi"
#Installing psycopg2 does not work under PyPy or Jython
  - "export PG=yes"
  - "if [[ $PYPY == 'yes' ]]; then export PG=no; fi"
  - "if [[ $PG == 'yes' ]]; then pip install psycopg2; fi"
#Installing mysql-python does not work under Python 3
  - "export MSQL=$PG"
  - "if [[ $PY3 == 'yes' ]]; then export MSQL=no; fi"
  - "if [[ $MSQL == 'yes' ]]; then pip install mysql-python; fi"
#Lib unittest2 is needed for some assertRaises tests under Python 2.6
  - "if [[ $TRAVIS_PYTHON_VERSION == '2.6' ]]; then pip install unittest2; fi"

install:
  - "/usr/bin/yes | python setup.py install"

before_script:
  - cd Tests

script:
  - python run_tests.py --offline

#The email defaults are too talkative while we're getting Travis working nicely.
notifications:
  email: false