[R-sig-Debian] Where/how to set R_LIBS_SITE in R 4.2.0 for running R as R --vanilla to pick up "/usr/local/lib/R/site-library/"

Sam H @@m@hhh1 @end|ng |rom gm@||@com
Mon Apr 25 22:29:44 CEST 2022

Dirk, thanks.

I will try to debug locally. Thanks for the instructions.

Just to make sure it is only me: when you run the following commands ($
Rscript -e '.libPaths()') without and with --vanilla on your system you get
the same output (as you see below I don't):
username using usernameVB:~$ Rscript -e '.libPaths()'
[1] "/usr/local/lib/R/site-library" "/usr/lib/R/site-library"
[3] "/usr/lib/R/library"
username using usernameVB:~$ Rscript --vanilla -e '.libPaths()'
[1] "/usr/lib/R/site-library" "/usr/lib/R/library"


Best regards,

On Mon, Apr 25, 2022 at 10:21 PM Dirk Eddelbuettel <edd using debian.org> wrote:

> Sam,
> Please try to debug locally. There are command-line switches to R that
> allow
> you to turn sourcing of initializations files off, you can also try to see
> if
> it is different for 'root' as opposed to you account.
> When I chase something like that his I typically
>  a) add lines like message("running from file foo") in Rprofile,
>     Rprofile.site, ~/.Rprofile etc
>  b) set env vars in each Renviron / Renviron.site / ~/.Renviron  file to
> see
>     which are being hit.
> Something somewhere turns some values off for you. I can't tell from here
> what caused it.
> Dirk
> --
> dirk.eddelbuettel.com | @eddelbuettel | edd using debian.org

Best regards,

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