View source for Installing R packages locally



== Specifying a local library search location ==

Specify a local library search location.

You can use several library trees of add-on packages. The easiest way to tell R to use these via a 'dotfile' by creating the following file '$HOME/.Renviron' (watch the quotes and ~ character):
<source lang='bash'>
  R_LIBS_USER="~/R/library"
</source>
This specifies a keyword (<code>R_LIBS_USER</code>) which points to a colon-separated list of directories at which R library trees are rooted. You do not have to specify the default tree for R packages.

If necessary, create a place for your R libraries
<source lang='bash'>
  mkdir ~/R ~/R/library         # Only need do this once
</source>
Set your R library path
<source lang='bash'>
  echo 'R_LIBS_USER="~/R/library"' >  $HOME/.Renviron
</source>
== Installing to a local library search location ==

Start up R:

<source lang='bash'>
  R                     # Invoke R
</source>
Then, from the R environment, install the packages you require while pointing at the root R-package directory of choice. This example will install from CRAN.
<source lang='rsplus'>
install.packages("name-of-your-package",lib="~/R/library")
</source>

== See also ==
* [[Control_R_environment_using_modules | Control R environment on the cluster using modules]]
* [[Parallel_R_code_on_SLURM | Using parallel R workloads under SLURM]]
* [[Bioinformatics_tips_tricks_workflows | Bioinformatics tips, tricks, and workflows]]

== External links ==
[http://csg.sph.umich.edu/docs/R/localpackages.html source for material for this aricle]

[http://cran-mirror.cs.uu.nl CRAN homepage]

[http://en.wikipedia.org/wiki/R_(programming_language) R article from Wikipedia]