Install_R.rb

gistfile1.rb

## @author Zvi Avraham
## @copyright 2012-2014 ZADATA Ltd. All Rights Reserved.

define :install_R do

  # Needed for RCurl CRAN package:
  # sudo apt-get install libcurl4-opensll-dev

  Packages = %w[ 
    build-essential libtool m4 autoconf 
    fort77 r-base-dev libcurl4-openssl-dev 
  ]

  # sudo apt-get install -y ...
  Packages.each do |p|
    package p do
      action :install
    end
  end

  # Download R tarball
  remote_file "#{Chef::Config[:file_cache_path]}/R.tar.gz" do
    source node[:R][:src_link]
    action :create_if_missing
  end

=begin
* installing *source* package 'Rserve' ...
configure: error: R was configured without --enable-R-shlib or --enable-R-static-lib

*** Rserve requires R (shared or static) library.                       ***
*** Please install R library or compile R with either --enable-R-shlib  ***
*** or --enable-R-static-lib support                                    ***
=end

  # TODO - needed for RStudio, but maybe will need it for integration with other packages, i.e. RPy Rcpp, etc.
  # R-shlib option needed for R-Studio
  #./configure --enable-R-shlib
  # compile without X / GUI
  #./configure --with-x=no

  # Compile and install R
  bash "install_R" do
    cwd Chef::Config[:file_cache_path]
    code <<-EOH
      set -e
      tar xzf R.tar.gz
      cd R-*/
      ./configure --with-x=no --enable-R-shlib
      make
      sudo make install
    EOH
    #creates "/usr/local/lib/R/lib/libR.so"
    creates "/usr/local/bin/R"
  end

  # http://www.rforge.net/Rserve/doc.html 
  # https://github.com/nivertech/common/wiki/Erlang-Rserv
  # TODO : Add to upstart:
  # sudo R CMD Rserve


  # See: 
  #   http://stackoverflow.com/questions/7075709/install-binary-zipped-r-package-via-command-line
  # Rscript -e "install.packages('foo.zip', repos = NULL)"

  # Rscript -e 'install.packages(pkgs='bitops', repos="http://cran.r-project.org")'

  # sudo Rscript -e 'install.packages(pkgs=c("Rserve","bitops","RCurl","RJSONIO"), repos="http://cran.r-project.org")'

  # Calculate string like this:
  # sudo R CMD INSTALL Rserve.tar.gz RCurl.tar.gz RJSONIO.tar.gz

  # Explicitly download R packages and install them
  if !node[:R][:lib].nil? && !node[:R][:lib].empty?
    # download packages
    node[:R][:lib].each do |lib, src_url|
      remote_file "#{Chef::Config[:file_cache_path]}/#{lib}.tar.gz" do
        source src_url
        action :create_if_missing
      end
    end

    libs = node[:R][:lib].keys.map {|lib| "#{lib}.tar.gz"}.join(' ')
    bash "install_R_libraries" do
      cwd Chef::Config[:file_cache_path]
      code <<-EOH
        sudo R CMD INSTALL #{libs}
      EOH
    end
  end

  # Automatically find and download R packages in repos (CRAN, etc.)
  repos = node[:R][:repos]
  pkgs  = node[:R][:pkgs]

  if !pkgs.nil?  && !pkgs.empty? && 
     !repos.nil? && !repos.empty?

    pkgs2  = pkgs.map  {|p| "\"#{p}\""}.join(',')
    repos2 = repos.map {|r| "\"#{r}\""}.join(',')

    bash "install_R_packages" do
      cwd Chef::Config[:file_cache_path]
      code <<-EOH
        sudo Rscript -e 'install.packages(pkgs=c(#{pkgs2}), repos=c(#{repos2}))'
      EOH
    end
  end

end