I installed some downloaded packages in R. I always do
$sudo R CMD INSTALL <anRpackage.tar.gz>
By default it is storing these packages into my directory
/home/mary/R/x86_64-pc-linux-gnu-library/2.13/.
However I want them to be systemwide into /usr/local/lib/R/site-library/
folder.
I tried
$sudo R
R> install.packages("anRpackage", dep=TRUE)
I did not succeed into getting them install in req folder.
Any idea?
--
-------------
Mary Kindall
Yorktown Heights, NY
USA
[[alternative HTML version deleted]]
Take a look at:
R CMD INSTALL --help
and you will realize that you need to specify the library path, e.g. R
CMD INSTALL anRpackage --library=/usr/local/...
or take a look at ?install.packages and use the second argument, e.g.
install.packages('anRpackage', lib = '/usr/local/...')
Regards,
Yihui
--
Yihui Xie <xieyihui at gmail.com>
Phone: 515-294-2465 Web: http://yihui.name
Department of Statistics, Iowa State University
2215 Snedecor Hall, Ames, IA
On Fri, Aug 19, 2011 at 12:10 PM, Mary Kindall <mary.kindall at gmail.com>
wrote:> I installed some downloaded packages in R. I always do
> $sudo R CMD INSTALL <anRpackage.tar.gz>
>
>
> By default it is storing these packages into my directory
> /home/mary/R/x86_64-pc-linux-gnu-library/2.13/.
>
> However I want them to be systemwide into /usr/local/lib/R/site-library/
> folder.
>
> I tried
> $sudo R
> R> install.packages("anRpackage", dep=TRUE)
>
> I did not succeed into getting them install in req folder.
> Any idea?
>
>
>
> --
> -------------
> Mary Kindall
> Yorktown Heights, NY
> USA
>
> ? ? ? ?[[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
At 18:10 19/08/2011, Mary Kindall wrote:>I installed some downloaded packages in R. I always do >$sudo R CMD INSTALL <anRpackage.tar.gz> > > >By default it is storing these packages into my directory >/home/mary/R/x86_64-pc-linux-gnu-library/2.13/. > >However I want them to be systemwide into /usr/local/lib/R/site-library/ >folder. > >I tried >$sudo R >R> install.packages("anRpackage", dep=TRUE) > >I did not succeed into getting them install in req folder.There is a parameter lib to install.packages. Does that do what you would like?>Any idea? > > > >-- >------------- >Mary Kindall >Yorktown Heights, NY >USA > > [[alternative HTML version deleted]] > >_______________________________________________ >R-SIG-Debian mailing list >R-SIG-Debian at r-project.org >https://stat.ethz.ch/mailman/listinfo/r-sig-debianMichael Dewey info at aghmed.fsnet.co.uk http://www.aghmed.fsnet.co.uk/home.html
(Removed r-help, keeping it on r-sig-debian only)
On 19 August 2011 at 13:10, Mary Kindall wrote:
| I installed some downloaded packages in R. I always do
| $sudo R CMD INSTALL <anRpackage.tar.gz>
|
|
| By default it is storing these packages into my directory
| /home/mary/R/x86_64-pc-linux-gnu-library/2.13/.
|
| However I want them to be systemwide into /usr/local/lib/R/site-library/
| folder.
|
| I tried
| $sudo R
| R> install.packages("anRpackage", dep=TRUE)
|
| I did not succeed into getting them install in req folder.
| Any idea?
Yes, this is my preference too, and it can be achieved in a number of
ways. Here is what I do:
1. Write-permission -- I have set up the Debian / Ubuntu package to create
the top-level directory witrh group 'staff' and group-wide mode:
$ ls -dl /usr/local/lib/R/site-library/
drwxrwsr-x 2 root staff 4096 2011-03-11 09:51 /usr/local/lib/R/site-library/
So you have to add yourself to the 'staff' group (which always
exists),
or another suitable group, and/or take other equivalent measures. If you
can write there, you do not even need 'sudo'. That is a good thing.
2. Select the target directory explicitly, so a local R function helps, or
in my case a local adaption of the script 'install.r' from the
littler package:
$ cat ~/bin/install.r
#!/usr/bin/env r
#
# a simple example to install one or more packages
if (is.null(argv) | length(argv)<1) {
cat("Usage: installr.r pkg1 [pkg2 pkg3 ...]\n")
q()
}
## adjust as necessary, see help('download.packages')
#repos <- "http://cran.us.r-project.org"
repos <- "http://cran.r-project.org"
## this makes sense on Debian where no packages touch /usr/local
lib.loc <- "/usr/local/lib/R/site-library"
install.packages(argv, lib.loc, repos)
The main key here is that the source repo and the target directory are
hardwired, and then I can just say
$ ~/bin/install.r foo bar biz
and those three packages get installed to /usr/local/lib/R/site-library
Hope this helps, Dirk
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