[R] Trouble with R CMD check: I can't seem to get dependencies right (maybe I'm using R_LIBS incorrectly?)

[Prof Brian Ripley]

'Writing R Extensions' does say

@quotation Note
@code{R CMD check} and @code{R CMD build} run @R{} with
@option{--vanilla}, so none of the user's startup files are read.  If
you need @env{R_LIBS} set (to find packages in a non-standard library)
you will need to set it in the environment.
@end quotation

~/.Renviron is one of those startup files (and so is ~/.Rprofile).

On Thu, 4 Sep 2008, Dylan Arena wrote:

> Hi there,
>
>
> I'm in the following directory:
>
> ~/Documents/Rstuff/diceFiles/dice_1.1
>
> The directory "dice" is in this directory, with all the usual build
> files (DESCRIPTION, NAMESPACE, etc).  I'm trying to run the following
> command:
>
> R CMD check dice
>
> (where "dice" is the name of the package I'm checking), and I get the following:
>
> * checking package dependencies ... ERROR
> Packages required but not available:
>  gtools
>
> My DESCRIPTION file does (correctly) list gtools as a dependency, so
> I'm happy this check is ensuring its availability.  What I can't
> figure out is how to get the check command to see that gtools is in
> fact installed.  I've created a file called .Renviron in my home
> directory that has the following line in it:
>
> R_LIBS=~/Documents/Rstuff/library
>
> And in the directory specified by R_LIBS above is the gtools package.
> (I've also got a file called .Rprofile in my home directory, with the
> line .libPaths("~/Documents/Rstuff/library")
> in it.)  My reading of the R-intro manual is that setting R_LIBS in
> this way should allow the R CMD check command to search in the
> directory specified by R_LIBS when looking for gtools.  I'm pretty
> sure at this point, though, that my understanding is incorrect.
>
> At this point I'm in over my depth.  I'm writing because I'm hopeful
> that to someone on this list my problem is trivially solvable.  My
> basic question is: what must I do to get R CMD check to find the
> gtools package?
>
>
> Please let me know any ideas you might have for me,
> Dylan
>
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>

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595