.travis.yml

#----------------------------------------------------------------
# Travis-CI configuration for R packages
#
# REFERENCES:
# * Travis CI: https://travis-ci.org/
# * r-builder: https://github.com/metacran/r-builder
# * covr: https://github.com/jimhester/covr
#
# Validate your .travis.yml file at http://lint.travis-ci.org/
#----------------------------------------------------------------
language: c

env:
  global:
    - RENV="./pkg-build.sh"    # r-builder
    - R_BUILD_ARGS="--no-manual"
    - R_CHECK_ARGS="--no-manual --as-cran"
    - _R_CHECK_CRAN_INCOMING_=TRUE
    - _R_CHECK_FORCE_SUGGESTS_=false
    # Need LaTeX? (very time consuming!)
    - BOOTSTRAP_LATEX=""
    # Skip building vignettes, which iff LaTeX-based are very
    # time consuming because LaTeX needs to be installed
#    - R_BUILD_ARGS="--no-build-vignettes ${R_BUILD_ARGS}"
#    - R_CHECK_ARGS="--no-build-vignettes ${R_CHECK_ARGS}"

  # R versions r-builder should test on (ignored by r-travis)
  matrix:
    - RVERSION=3.1.3
    - RVERSION=3.2.2
    - RVERSION=devel _R_COVR_=TRUE _R_CHECK_FULL_=TRUE


before_install:
  - echo RENV=$RENV
  - curl -OL https://raw.githubusercontent.com/HenrikBengtsson/r-builder/master/pkg-build.sh;
  - chmod 755 $RENV
  - $RENV bootstrap
  - if [ "BOOTSTRAP_LATEX" == "true" ]; then
      (cd /tmp && curl -OL http://mirrors.ctan.org/macros/latex/contrib/xcolor.zip && cd /usr/share/texmf/tex/latex && sudo unzip /tmp/xcolor.zip && cd xcolor && sudo latex xcolor.ins && sudo texhash);
    else
      export R_RSP_COMPILELATEX_FALLBACK="copy-force";
    fi
  - if [[ "$_R_CHECK_USE_VALGRIND_" == "TRUE" ]]; then
      export R_BUILD_ARGS="--no-manual --no-build-vignettes";
      export R_CHECK_ARGS="--no-manual --no-build-vignettes --no-codoc --no-examples --use-valgrind";
      export _R_CHECK_TIMINGS_=10;
      sudo apt-get install valgrind;
      valgrind --version;
    fi

install:
 - $RENV install_bioc aroma.light DNAcopy preprocessCore
 - $RENV install_r png
 - $RENV install_r matrixStats PSCBS R.devices R.filesets R.rsp RColorBrewer
 - $RENV install_bioc EBImage GLAD
 - $RENV install_r Cairo

script:
  - $RENV run_build
  - $RENV run_check

after_success:
  - $RENV dump_logs_by_extension out
  - if [[ "$_R_COVR_" == "TRUE" && -f ".covr.R" ]]; then
      $RENV install_devtools;
      $RENV install_github jimhester/covr;
      curl -OL https://raw.githubusercontent.com/HenrikBengtsson/covr-utils/master/covr-utils.R;
    fi
  - if [[ "$_R_COVR_" == "TRUE" && -f ".covr.R" ]]; then
      $RENV run_script .covr.R;
    fi

after_failure:
  - $RENV dump_logs

notifications:
  email:
    on_success: change
    on_failure: change

branches:
  except:
   - /-expt$/