Installing R on dreamhost

Installing R on dreamhost

## First do the unix account setup http://wiki.dreamhost.com/Unix_account_setup
cd ${HOME}
# create the first level directories (and log/setup)
mkdir -pv soft run www log log/setup backup data
# create the second level directories within run (our own FHS)
for subdir in bin etc include lib man share
do
  mkdir -pv run/${subdir}
done
# symlink so that man pages stay all in the same place
ln -sv ../man run/share/man
# symlink so that the apache logs are also found within log
ln -sv ../logs log/vhosts

mkdir -pv ${HOME}/.cpan/CPAN
cat > ${HOME}/.cpan/CPAN/MyConfig.pm <<eof

\$CPAN::Config = {
  'auto_commit' => q[0],
  'build_cache' => q[10],
  'build_dir' => q[\$ENV{HOME}/.cpan/build],
  'cache_metadata' => q[1],
  'commandnumber_in_prompt' => q[1],
  'cpan_home' => q[\$ENV{HOME}/.cpan],
  'dontload_hash' => {  },
  'ftp' => q[/usr/bin/ftp],
  'ftp_passive' => q[1],
  'ftp_proxy' => q[],
  'getcwd' => q[cwd],
  'gpg' => q[/usr/bin/gpg],
  'gzip' => q[/bin/gzip],
  'histfile' => q[\$ENV{HOME}/.cpan/histfile],
  'histsize' => q[100],
  'http_proxy' => q[],
  'inactivity_timeout' => q[0],
  'index_expire' => q[1],
  'inhibit_startup_message' => q[0],
  'keep_source_where' => q[\$ENV{HOME}/.cpan/sources],
  'lynx' => q[/usr/bin/lynx],
  'make' => q[/usr/bin/make],
  'make_arg' => q[],
  'make_install_arg' => q[],
  'make_install_make_command' => q[/usr/bin/make],
  'makepl_arg' => q[PREFIX=\$ENV{RUN}],
  'mbuild_arg' => q[],
  'mbuild_install_arg' => q[],
  'mbuild_install_build_command' => q[./Build],
  'mbuildpl_arg' => q[],
  'ncftpget' => q[/usr/bin/ncftpget],
  'no_proxy' => q[],
  'pager' => q[less],
  'prerequisites_policy' => q[follow],
  'scan_cache' => q[atstart],
  'shell' => q[/bin/bash],
  'tar' => q[/bin/tar],
  'term_is_latin' => q[0],
  'term_ornaments' => q[1],
  'unzip' => q[/usr/bin/unzip],
  'urllist' => [q[ftp://cpan.cse.msu.edu/], q[ftp://cpan-du.viaverio.com/pub/CPAN/], q[ftp://cpan.mirrors.redwire.net/pub/CPAN/], q[ftp://cpan.hostrack.net/pub/CPAN]],
  'use_sqlite' => q[0],
  'wget' => q[/usr/bin/wget],
};
1;
__END__
eof

cat >>${HOME}/.bashrc <<eof
function pathmunge () {
if [ -d \$1 ] && ! echo $PATH | /bin/egrep -q "(^|:)\$1(\$|:)"
then
        if [ "\$2" = "after" ]
        then
                PATH=$PATH:\$1
        else
                PATH=\$1:\$PATH
        fi
fi
}

export RUN="\${HOME}/run"

pathmunge \${RUN}/bin

export LD_LIBRARY_PATH=\${RUN}/lib:\${LD_LIBRARY_PATH}
export LD_RUN_PATH=\${RUN}/lib:\${LD_RUN_PATH}

# perl library search path
PERL5LIB=\${RUN}/share/perl/5.8:\${RUN}/share/perl/5.8.4:\${PERL5LIB}
export PERL5LIB=\${RUN}/lib/perl/5.8:\${RUN}/lib/perl/5.8.4:\${PERL5LIB}

eof




## THEN
cd ~/soft
curl -O ftp://ftp.gnu.org/gnu/readline/readline-6.0.tar.gz
tar xzvf readline-6.0.tar.gz
cd ~/soft/readline-6.0
./configure --prefix=${HOME}/run
make
make install
cd ~/soft
## installing R-2.9.2 went without problem. 
## when trying $-2.13.2, got "Yikes! One of your processes was just killed because yourprocesses are, as a whole, consuming too much memory."
wget http://cran.r-project.org/src/base/R-2/R-2.13.2.tar.gz
tar xvzf R-2.13.1.tar.gz
cd ~/soft/R-2.13.1
./configure --prefix=${HOME}/run  --with-x=no LDFLAGS=-L${HOME}/run/lib
make
make install


##install R packages (inside R)
##install.packages(c("bitops", "plyr", "car", "XML"), dep=TRUE)

##install RCurl
## first install curl
cd ~/soft
wget http://curl.haxx.se/download/curl-7.21.7.tar.gz
tar -vxzf curl-7.21.7.tar.gz 
cd ~/soft/curl-7.21.7
./configure --prefix=$HOME/run  LDFLAGS=-L${HOME}/run/lib
make
make install
## now RCurl
cd ~/soft
wget http://cran.r-project.org/src/contrib/RCurl_1.6-6.tar.gz
## with more recent versions of R, install doesn't work if a configure file is present in the 
## package as it needs to know whether to target bit64 systems.
## It may be possible to use R --arch='x86_64' CMD INSTALL RCurl --configure-args='exec_prefix=${HOME}/run'
tar -vxzf RCurl_1.6-6.tar.gz 
cd RCurl
./configure
rm configure
R CMD INSTALL RCurl --configure-args='exec_prefix=${HOME}/run'