.travis.yml

language: perl
perl:
    - "5.8"
    - "5.10"
    - "5.12"
    - "5.14"
    - "5.18"
    - "5.20"
    - "5.22"
sudo:
  false
addons:
  apt:
    packages:
    - liblog-log4perl-perl
    - libmoose-perl
    - libipc-run-perl
    - libterm-progressbar-perl
    - libgraph-perl
    - libtest-script-run-perl
    - libdevel-cover-perl
    - libarchive-extract-perl
    - bowtie2
    - ncbi-blast+
    - samtools
    - bedtools
    - r-base
    - ghostscript
#    - jellyfish
    - python
before_install:
    - export PATH=$TRAVIS_BUILD_DIR:/tmp/SPAdes-3.10.1-Linux/bin:/tmp/jellyfish/bin:$PATH
    - wget -O /tmp/jellyfish-2.2.6.tar.gz https://github.com/gmarcais/Jellyfish/releases/download/v2.2.6/jellyfish-2.2.6.tar.gz && cd /tmp/ && tar xzf jellyfish-2.2.6.tar.gz && cd jellyfish-2.2.6 && ./configure --prefix=/tmp/jellyfish && make -j 4 && make install && which jellyfish
    - git clone git://github.com/haarg/perl-travis-helper
    - source perl-travis-helper/init
    - build-perl
    - perl -V
install:
    - cpanm Term::ProgressBar Graph Log::Log4perl Moose@2.2009 File::Which IPC::Run Test::Script::Run Devel::Cover Archive::Extract Devel::Cover::Report::Coveralls
    - wget -O /tmp/SPAdes-3.10.1-Linux.tar.gz http://cab.spbu.ru/files/release3.10.1/SPAdes-3.10.1-Linux.tar.gz && cd /tmp/ && tar -xzf SPAdes-3.10.1-Linux.tar.gz
    - cd $TRAVIS_BUILD_DIR
    - sed -i 's/threads => 8/threads => 2/' ptx.cfg
    - export PERL5OPT=-MDevel::Cover=-coverage,statement,branch,condition,path,subroutine
    - mkdir ptx
script:
    - travis_wait 60 prove -lrv test/chloroExtractor-testsuite/cmd_based/003*.t
    - ln -s test/chloroExtractor-testsuite/cmd_based/divide_by_zero_bug_testset.tar.gz && prove test/chloroExtractor-testsuite/cmd_based/004*.t
    - cd ptx && prove -lrv ../test/chloroExtractor-testsuite/cmd_based/001*.t
    - prove -lrv ../test/chloroExtractor-testsuite/cmd_based/002*.t
after_success:
    - export PERL5OPT=""
    - cover -ignore_re=lib
    - cover -ignore_re=lib -report coveralls
matrix:
    allow_failures:
       - perl: "5.8"