[Rd] Rcmd_environ and R_LIBS_{USER,SITE}

Dirk Eddelbuettel edd at debian.org
Thu Oct 18 16:12:50 CEST 2012


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...


| 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
| >
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Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com

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