.travis.yml

language: python
dist: trusty
python:
  - 2.7
  - 3.5
  - 3.6
notifications:
  email: false
addons:
  apt:
    packages:
        - libblas-dev
        - liblapack-dev
env:
    global:
        # Maximal dependencies
        - DEPENDS="cython numpy scipy matplotlib pandas"
matrix:
  include:
    - python: 3.5
      env:
        - RUN_R_TESTS=1
        - DEPENDS="cython numpy scipy statsmodels pandas"
    - python: 2.7
      env:
        - RUN_R_TESTS=1
        - DEPENDS="cython numpy scipy statsmodels pandas"
    # Testing without matplotlib
    - python: 3.5
      env:
        - DEPENDS="cython numpy scipy pandas"
    # Setup.py install
    - python: 3.5
      env:
        - INSTALL_TYPE=setup
    - python: 2.7
      env:
        # Sdist install should collect all dependencies
        - INSTALL_TYPE=sdist
        - DEPENDS="cython numpy scipy pandas"
    - python: 2.7
      env:
        # Wheel install should collect all dependencies
        - INSTALL_TYPE=wheel
        - DEPENDS="cython numpy scipy pandas"
    - python: 2.7
      env:
        - INSTALL_TYPE=requirements
        - DEPENDS=
    # Testing without matplotlib
    - python: 3.5
      env:
        - DEPENDS="cython numpy scipy pandas"
    # Documentation doctests
    - python: 3.5
      env:
        - DOC_DOC_TEST=1
    # Setup.py install
    - python: 3.5
      env:
        # Sdist install should collect all dependencies
        - INSTALL_TYPE=sdist
        - DEPENDS="cython numpy scipy pandas"
    - python: 3.5
      env:
        # Wheel install should collect all dependencies
        - INSTALL_TYPE=wheel
        - DEPENDS="cython numpy scipy pandas"
    - python: 3.5
      env:
        - INSTALL_TYPE=requirements
        - DEPENDS=

before_install:
  - source travis-tools/utils.sh
  - travis_before_install
  - sudo apt-get install software-properties-common
  - sudo add-apt-repository -y ppa:marutter/c2d4u
  - sudo add-apt-repository -y ppa:marutter/rrutter
  - sudo apt-get update
  # would like to have this stably installed by pip but without DEPENDS it fails
  - git clone https://github.com/jonathan-taylor/regreg.git
  - cd regreg
  - pip install -e .
  - cd ..

install:
  # Install selectinf
  - if [ "$RUN_R_TESTS" ]; then
     sudo apt-get install -y r-base r-base-dev r-cran-devtools r-cran-rcpp;
     pip install rpy2 statsmodels -c constraints.txt ;   
     sudo Rscript -e "install.packages(c('devtools', 'intervals', 'adaptMCMC', 'SLOPE'), repos='http://cloud.r-project.org')";
     sudo Rscript -e "require(devtools); install_version('glmnet', version='2.0-18', repos='http://cloud.r-project.org')";
     sudo Rscript -e "install.packages('knockoff', repos='http://cloud.r-project.org')";
     git clone https://github.com/jonathan-taylor/R-selective.git;
     cd R-selective;
     git submodule init;
     git submodule update;
     sudo make install;
     cd ..;
     fi ; 
  - git submodule init
  - git submodule update
  - travis_install $INSTALL_TYPE

# command to run tests, e.g. python setup.py test
script:

    - pip install nose
    # No figure windows for mpl; quote to hide : from travis-ci yaml parsing
    - pip install -r requirements.txt -c constraints.txt; # older rpy2
    # Change into an innocuous directory and find tests from installation
    - 'echo "backend : agg" > matplotlibrc'
    - |
      if [ "$DOC_BUILD" ]; then
         pip install -r doc-requirements.txt;
         cd doc;
         jupytext --sync source/*/*.ipynb;
         sudo apt-get install pandoc;
         make html;
      fi
    #	
    #        # Build the htmlwithout the API documentation, for the doctests
    #        
    #      fi
    # Doctests only on platforms that have compatible fp output
    - mkdir for_testing
    - cd for_testing
    - if [ `uname` == "Darwin" ] ||
      [ "${TRAVIS_PYTHON_VERSION:0:1}" == "3" ]; then
      DOCTEST_ARGS="--with-doctest";
      fi
    - if [ "${COVERAGE}" == "1" ]; then
      cp ../.coveragerc .;
      COVER_ARGS="--with-coverage --cover-package selectinf";
      fi
    - |
      if [ "$RUN_R_TESTS" ]; then
        nosetests -v ../selectinf/algorithms/tests/test_compareR.py
      else 
        env USE_SMALL_SAMPLES=1 USE_TEST_SEED=1 nosetests $DOCTEST_ARGS --verbose $COVER_ARGS selectinf
      fi
after_success:
    - if [ "${COVERAGE}" == "1" ]; then coveralls; fi