.travis.yml

language: python
python:
  - "2.7"

jdk:
  - oraclejdk7
  
services:
  - neo4j
  - rabbitmq

env:
  global:
    - OME_HOST=localhost
    - OME_USER=root
    - OME_PASS=omero
  matrix:
    - GRAPH_ENGINE=neo4j
    - GRAPH_ENGINE=pygraph

before_install:
  # prepare the DB
  - psql -c "CREATE USER omero WITH PASSWORD 'omero';" -U postgres
  - sudo -u postgres createdb -O omero omero
  # Install OMERO server
  # ** install OMERO dependencies
  - sudo apt-get -qq update
  - sudo apt-get install -qq zeroc-ice34 python-zeroc-ice ice34-services
  # add Python Ice modules to PYTHONPATH
  - export PYTHONPATH="/usr/lib/pymodules/python2.7/:$PYTHONAPTH"
  - sudo apt-get install -qq python-imaging python-numpy python-tables python-genshi
  # ** we are into the omero.biobank directory, exit before cloning
  - cd ..
  - git clone --recursive git://github.com/openmicroscopy/openmicroscopy.git ./omero
  - cd ./omero
  - git checkout -b master origin/master
  - git reset --hard v.4.4.8
  - git submodule update
  # ** copy OMERO.biobank models
  - cp ../omero.biobank/models/*.ome.xml ./components/model/resources/mappings/
  # ** create the omero.data.directory
  - mkdir ./ome_data
  # ** patching OMERO server version
  - cd ../omero.biobank
  - ./utils/patch_ome_config --ome-home ../omero --models-repository ./models
  # ** Neo4j and RabbitMQ setup
  - cd ../omero
  - echo "" >> etc/omero.properties
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then echo "omero.biobank.graph.engine=neo4j" >> etc/omero.properties; fi
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then echo "omero.biobank.graph.uri=http://localhost:7474/db/data/" >> etc/omero.properties; fi
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then echo "omero.biobank.messages_queue.enabled=True" >> etc/omero.properties; fi
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then echo "omero.biobank.messages_queue.host=localhost" >> etc/omero.properties; fi
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then echo "omero.biobank.messages_queue.queue=bb-travis-ci" >> etc/omero.properties; fi
  - if [[ "$GRAPH_ENGINE" == "pygraph" ]]; then echo "omero.biobank.graph.engine=pygraph" >> etc/omero.properties; fi
  - if [[ "$GRAPH_ENGINE" == "pygraph" ]]; then echo "omero.biobank.messages_queue.enabled=False" >> etc/omero.properties; fi
  # ** patch the build.py script in order to avoid JavaOutOfMemory exception
  #    when compiling models
  - patch ./build.py < ../omero.biobank/.travis-data/build.py.patch
  # ** build the server
  - ./build.py -quiet
  - export PYTHONPATH="${PWD}/dist/lib/python/:$PYTHONPATH"
  - ./build.py -quiet build-schema -Domero.db.dialect=org.hibernate.dialect.PostgreSQLDialect
  # build and deploy the DB
  - ./dist/bin/omero db script OMERO4.4 0 $OME_PASS
  - psql -h localhost -U omero omero < OMERO4.4__0.sql
  # create and configure the omero.data.dir
  - mkdir ./omero_data
  - ./dist/bin/omero config set omero.data.dir ./omero_data
  # start the server
  - ./dist/bin/omero admin start

  # Install biodoop-core
  - cd ..
  - sudo apt-get install -qq protobuf-compiler
  - git clone https://github.com/crs4/biodoop-core.git
  - cd ./biodoop-core
  - make
  - python setup.py install

install:
  - cd ../omero.biobank
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then pip install pika; fi
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then pip install bulbs; fi
  - if [[ "$GRAPH_ENGINE" == "neo4j" ]]; then pip install voluptuous; fi
  - if [[ "$GRAPH_ENGINE" == "pygraph" ]]; then easy_install python-graph-core; fi
  # retrieve neo4j and rabbitmq config parameters
  - python ./build_configuration.py -H localhost -U ${OME_USER} -P ${OME_PASS} --python
  - python setup.py install
  #  start the graph_manager daemon
  - .travis-data/run_graph_daemon.sh
  # move to test directory in order to avoid PYTHONPATH problems
  - cd ./test
  
script:
  - python ./kb/test_action.py
  - python ./kb/test_individual.py
  - python ./kb/test_vessel.py
  - python ./kb/test_illumina_chips.py