That's it! There was a .Renviron file in my home directory with the one
line
R_LIBS_USER="/Users/ken/Library/R/4.1/library"
so I changed it to
R_LIBS_USER="/Users/ken/Library/R/x86_64/4.2/library"
and now I get in the Rgui, R terminal and Rstudio
libPaths()
[1] "/Users/ken/Library/R/x86_64/4.2/library"
[2] "/Library/Frameworks/R.framework/Versions/4.2/Resources/library"
which is what I expected to have in the first place.
Thank you, Duncan.
best,
--
Kenneth Knoblauch
Inserm U1208
Stem-cell and Brain Research Institute
18 avenue du Doyen Lépine
69500 Bron
France
tel: +33 (0)4 72 91 34 77
fax: +33 (0)4 72 91 34 61
portable: +33 (0)6 84 10 64 10
http://www.sbri.fr/user/1453
On 2022-04-28 16:26, Duncan Murdoch wrote:
On 28/04/2022 9:44 a.m., Kenneth Knoblauch wrote:
Hi,
In R 4.2, when I look at .libPaths() from within the standard R gui,
I
see:
.libPaths()
[1] "/Users/ken/Library/R/x86_64/4.2/library"
[2] "/Users/ken/Library/R/4.1/library"
[3] "/Library/Frameworks/R.framework/Versions/4.2/Resources/library"
From a terminal, I get
.libPaths()
[1] "/Users/ken/Library/R/4.1/library"
[2] "/Library/Frameworks/R.framework/Versions/4.2/Resources/library"
The old 4.1 directory, I suspect, should not be there. From
Sys.getenv(), I see
R_LIBS /Users/ken/Library/R/x86_64/4.2/library
R_LIBS_SITE
/Library/Frameworks/R.framework/Resources/site-library
R_LIBS_USER /Users/ken/Library/R/4.1/library
and the system Renviron file contains
uc7131:Resources ken$ grep R_LIBS etc/Renviron
R_LIBS_USER=${R_LIBS_USER:-'%U'}
R_LIBS_SITE=${R_LIBS_SITE:-'%S'}
but I wouldn't know what to adjust these to, to fix this (if I even
should).
In Rstudio (which is not the problem of this list), I also get
.libPaths()
[1] "/Users/ken/Library/R/4.1/library"
[2] "/Library/Frameworks/R.framework/Versions/4.2/Resources/library"
and I would guess the 4.1 entry is why Rstudio bombs when I try to
execute any graphics.
I would be grateful for any suggestions as to how to fix this.
I'd guess the 41 isn't coming from the system file, but from a user
file
on your account or in the directory where you start Rgui. Running
getwd() as the first command might find that dir, as long as some
profile code hasn't changed it.
The filename might be ".Renviron" rather than "Renviron"
Duncan Murdoch
_______________________________________________
R-SIG-Mac mailing list
R-SIG-Mac@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-mac
