.travis.yml

matrix:
    include:
        -   os: linux
            dist: trusty
            sudo: required
            language: python
            python: 2.7
            before_install:
                - sudo apt-get update -qq
                - sudo apt-get install -qq libgsl0-dev libgmp-dev libmpfr-dev libsqlite0-dev
                - wget http://abacus.gene.ucl.ac.uk/software/indelible/EFBKqHdv0v7qir6CyeHgqaz/INDELibleV1.03.tar.gz
                - wget https://www.niehs.nih.gov/research/resources/assets/docs/artsrcmountrainier20160605linuxtgz.tgz
                - git clone https://github.com/adamallo/SimPhy simphy
                - git clone https://github.com/merlyescalona/indelible-ngsphy
                - tar -zxf INDELibleV1.03.tar.gz
                - tar -zxf artsrcmountrainier20160605linuxtgz.tgz
                - pushd simphy && make && make clean && popd
                - pushd INDELibleV1.03/src && rm MersenneTwister.h &&  wget https://raw.githubusercontent.com/merlyescalona/indelible-ngsphy/master/src/MersenneTwister.h && g++ -o indelible -O4 indelible.cpp  && popd
                - pushd art_src_MountRainier_Linux/ && ./configure  && make && popd
                - pushd indelible-ngsphy && make && popd
                - export PATH=$PATH:$(pwd)/simphy/bin
                - export PATH=$PATH:$(pwd)/INDELibleV1.03/src
                - export PATH=$PATH:$(pwd)/art_src_MountRainier_Linux/
                - export PATH=$PATH:$(pwd)/indelible-ngsphy/bin
                - export PERL_MM_USE_DEFAULT=1
                - sudo cpan install Test::Taint Math::GSL
                - pip install -r requirements.txt
            install:
                - python setup.py install
        # -   os: osx
        #     before_install:
        #         - wget ftp://ftp.gnu.org/gnu/gsl/gsl-2.1.tar.gz
        #         - tar -zxf gsl-2.1.tar.gz
        #         - pushd gsl-2.1 && ./configure && make && sudo make install && make clean && popd
        #         - curl -L https://cpanmin.us | perl - --sudo App::cpanminus
        #         - brew update
        #         - brew upgrade gmp sqlite mpfr
        #         - brew install parallel
        #         - wget http://abacus.gene.ucl.ac.uk/software/indelible/EFBKqHdv0v7qir6CyeHgqaz/INDELibleV1.03.tar.gz
        #         - wget https://www.niehs.nih.gov/research/resources/assets/docs/artsrcmountrainier20160605macostgz.tgz
        #         - git clone https://github.com/adamallo/SimPhy simphy
        #         - git clone https://github.com/merlyescalona/indelible-ngsphy
        #         - tar -zxf  artsrcmountrainier20160605macostgz.tgz
        #         - tar -zxf INDELibleV1.03.tar.gz
        #         - pushd simphy && make && make clean && popd
        #         - pushd INDELibleV1.03/src && rm MersenneTwister.h &&  wget https://raw.githubusercontent.com/merlyescalona/indelible-ngsphy/master/src/MersenneTwister.h && g++ -o indelible -O4 indelible.cpp  && popd
        #         - pushd art_src_MountRainier_MacOS/ && ./configure && make && popd
        #         - pushd indelible-ngsphy && make && popd
        #         - export PATH=$PATH:$(pwd)/simphy/bin
        #         - export PATH=$PATH:$(pwd)/INDELibleV1.03/src
        #         - export PATH=$PATH:$(pwd)/art_src_MountRainier_MacOS/
        #         - export PATH=$PATH:$(pwd)/indelible-ngsphy/bin
        #         - export PERL_MM_USE_DEFAULT=1
        #         - sudo cpanm install Test::Taint  Math::GSL
        #     install:
        #         - python setup.py install --user
script:
    - test/ngsphy.all.tests.sh $(pwd)