2012年11月5日星期一

Install R and Rstudio in Ubuntu


Install R in Ubuntu is extremely easy if you don’t meet any exception, but if you meet, then you’d better be a very advanced linux user :-)
Install R
Because the Ubuntu official source R version is usually half of years older than R-project official source, so it is recommanded to using r-project.org official source to install the latest R system.
vi /etc/apt/sources.list
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# append below line to end of sources.list
# you can view mirror at http://cran.r-project.org/mirrors.html
deb http://ftp.ctex.org/mirrors/CRAN/bin/linux/ubuntu precise/
import the GPG key and install r-base
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cd ~
gpg --keyserver hkp://keyserver.ubuntu.com:80 --recv-keys E084DAB9
gpg -a --export E084DAB9 | sudo apt-key add -
apt-get upgrade
apt-get install r-base
Install Oracle DB access package
You can found new version of ROracle or DBI package in CRAN, it is also required you properly install the Oracle Instant Client.
manual install the ROracle
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wget http://cran.r-project.org/src/contrib/DBI_0.2-5.tar.gz
R CMD INSTALL DBI_0.2-5.tar.gz
wget http://cran.r-project.org/src/contrib/ROracle_1.1-5.tar.gz
R CMD INSTALL --configure-args='--with-oci-inc=/opt/oracle/instantclient_11_2/sdk/include' ROracle_1.1-5.tar.gz
Install RStudio Server
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apt-get install libssl0.9.8 # must install even you have newer version
apt-get install libapparmor1 apparmor-utils
wget http://download2.rstudio.org/rstudio-server-0.96.331-i386.deb
dpkg -i rstudio-server-0.96.331-i386.deb
rstudio-server verify-installation
Do some RStudio Server setting
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echo 'rsession-memory-limit-mb=1000' > /etc/rstudio/rserver.conf
echo 'rsession-stack-limit-mb=4' >> /etc/rstudio/rserver.conf
echo 'rsession-process-limit=20' >> /etc/rstudio/rserver.conf
# Only pass below if you will using proxy mode
echo 'www-address=127.0.0.1' >> /etc/rstudio/rserver.conf
groupadd rstudio
Setting the proxy server for RStudio server
This section is optional, assured already install nginx in server.
do not forgot link to /opt/nginx/conf/vhosts
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server {
  listen       80;
  server_name  cvprstudio;
  location / {
    proxy_pass http://localhost:8787;
    proxy_redirect http://localhost:8787/ $scheme://$host/;
  }
}
Setting auto restart and PATH
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ln -s /usr/lib/rstudio-server/extras/init.d/debian/rstudio-server /etc/init.d/rstudio-server
vi /etc/init.d/rstudio-server
append below line to /etc/init.d/rstudio-server SCRIPTNAME
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ORACLE_BASE=/opt/oracle
ORACLE_HOME=/opt/oracle/instantclient_11_2
TNS_ADMIN=/opt/oracle/network/admin
NLS_LANG=AMERICAN_AMERICA.AL32UTF8
Now you can restart/start via standard init.d service way
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/etc/init.d/rstudio-server restart
Add a user in RStudio
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adduser --ingroup rstudio cindy
passwd cindy # setting password
Update package
Usually it is more good to upgrade the r-base in system wide packages instead of per user
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