From kasperdanielhansen at gmail.com  Thu Oct 18 16:41:10 2012
From: kasperdanielhansen at gmail.com (Kasper Daniel Hansen)
Date: Thu, 18 Oct 2012 10:41:10 -0400
Subject: [Rd] Rcmd_environ and R_LIBS_{USER,SITE}
In-Reply-To: <20608.3682.541568.225279@max.nulle.part>
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	<20608.3682.541568.225279@max.nulle.part>
Message-ID: <CAC2h7ut6Gm3Bz9h3qUhtpZ7iSs5qDFKinv3kiOfvZVKzb=N3vQ@mail.gmail.com>

Dirk,

I set my user libraries in .Rprofile for this very reason.  I agree it
is weird that .Renviron is not always read etc.

Kasper

On Thu, Oct 18, 2012 at 10:12 AM, Dirk Eddelbuettel <edd at debian.org> wrote:
>
> Keith,
>
> On 18 October 2012 at 09:14, Keith Jewell wrote:
> | No reply in a number of hours, so here is a suggestion from ignorance :-}
> |
> | ?Startup refers to a number of other "site and user files to process for
>
> Thanks, and I know, and use those on Linux (and on 'doze when I use it).  My
> question was specifically about 'R CMD foo' which skips some of these by
> choice, and which Rcmd_environ appears to overcome, albeit imcompletely. I
> still have an issue on Windows where I cannot split my package installations
> between those that come and go with R installations, and the others.
>
> But it is truly bizarre that I can do (on Windows)
>
>   R CMD INSTALL foo_1.2-3.tar.gz
>
> and a moment later
>
>   R CMD check foo_1.2-3.tar.gz
>
> fails in its tests and examples with "no package called 'foo'"
>
> Doing 'R CMD check --no-examples --no-tests foo_1.2-3.tar.gz' works, but is
> less helpful as we're running the check to run those very tests...
>
> Dirk
>
>
> | setting environment variables" but not to Rcmd_environ. The contents of
> | $R_HOME/etc/Rcmd_environ seem to reflect (some of) the contents of
> | (some) other files.
> |
> | I have similar lines (defining library paths) in
> |      $R_HOME/etc/Renviron.site
> |
> | Is it correct to directly edit Rcmd_environ or should it be modified
> | only via other files? (A genuine question).
> |
> | On 17/10/2012 15:59, Dirk Eddelbuettel wrote:
> | >
> | > Is there a fundamental reason why I cannot set either one of
> | >
> | >    ## add local library path -- doesn't work either
> | >    R_LIBS_USER="c:/opt/R-library"
> | >    R_LIBS_SITE="c:/opt/R-library"
> | >
> | > in $R_HOME/etc/Rcmd_environ even though I can seemingly set other things here?
> | >
> | > It breaks "R CMD check" for me as I prefer NOT to install packages in a
> | > versioned path.
> | >
> | > FWIW, defaulting to a versioned path is (to this no-longer-bemused user) as
> | > much a permenent R bug (on Windoze) as the default installation into a path
> | > with spaces.
> | >
> | > Dirk
> | >
> |
> | ______________________________________________
> | R-devel at r-project.org mailing list
> | https://stat.ethz.ch/mailman/listinfo/r-devel
>
> --
> Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel



[Rd] Rcmd_environ and R_LIBS_{USER,SITE}
Kasper Daniel Hansen