Revision as of 08:58, 28 May 2020

The R package for statistical computing and graphics is installed on the system. Version 3.6.1 installed with the gnu8 toolchain. To access it:

module load R

Install R Packages

Generally, if you need to use R packages that are not available, you can always install it locally in your account. First start an R session:

module load R
R

Then you can use the install.packages command inside R to install a package. For example,

> install.packages("ggplot2")

Because you don't have a write permission in the /opt directory, where R is installed, R will throw the following warings:

Warning in install.packages("ggplot2") :
'lib = "/opt/ohpc/pub/libs/gnu8/R/3.6.1/lib64/R/library"' is not writable
Would you like to use a personal library instead? (yes/No/cancel)

Answer yes, R will then ask you to create a library folder in your own directory:

Would you like to create a personal library
‘~/R/x86_64-pc-linux-gnu-library/3.6’
to install packages into? (yes/No/cancel)

Answer yes again, R will start the installation process.

In addition, you can also install R packages in a different folder other than the default one. For example, to install a package at ~/libs/R_libs: First create the directory:

mkdir ~/libs/R_libs

Then inside R:

> install.packages("ggplot2", lib="~/libs/R_libs")