On 21/03/2023 9:58 a.m., PIKAL Petr wrote:
Hallo Duncan
Tested but does not work so something other must be wrong.
R version 4.2.2.
installed.packages()[,"Package"]
base boot class cluster codetools
compiler datasets foreign graphics grDevices
grid KernSmooth
"base" "boot" "class" "cluster" "codetools" "compiler" "datasets"
"foreign" "graphics" "grDevices" "grid" "KernSmooth"
lattice MASS Matrix methods mgcv
nlme nnet parallel rpart spatial
splines stats
"lattice" "MASS" "Matrix" "methods" "mgcv" "nlme" "nnet"
"parallel" "rpart" "spatial" "splines" "stats"
stats4 survival tcltk tools translations
utils
"stats4" "survival" "tcltk" "tools" "translations"
"utils"
My Rprofile.site
# Things you might want to change
options(papersize="a4")
options(help_type="html")
library(utils)
library(MASS)
#**********
test <-(scan("pack.txt", character(), quote = ""))
x<- utils::installed.packages()
utils::install.packages(test[!test %in% x], repos="https://cloud.r-project.org";)
##**********
Options are set and working.
MASS should be loaded but is not
search()
[1] ".GlobalEnv" "package:stats" "package:graphics" "package:grDevices" "package:utils"
"package:datasets" "package:methods" "Autoloads" "package:base"
Any suggestion where to look?
I'd add code to print the values of x and test to confirm that things
are proceeding as you expect. I don't know if print() or cat() will
work there; you might need to use message().
For attaching packages, you should see ?Startup again: this is done via
options() or an environment variable, not library() calls in the profile
file.
Duncan Murdoch
Best regards
Petr
-----Original Message-----
From: Duncan Murdoch <murdoch.dun...@gmail.com>
Sent: Tuesday, March 21, 2023 1:55 PM
To: PIKAL Petr <petr.pi...@precheza.cz>; r-help <r-help@r-project.org>
Subject: Re: [R] Rprofile.site and automatic installation of missing packages
?Startup says: "Note that when the site and user profile files are sourced only the
base package is loaded, so objects in other packages need to be referred to by e.g.
utils::dump.frames or after explicitly loading the package concerned."
So you need utils::installed.packages and utils::install.packages .
Duncan Murdoch
On 21/03/2023 8:04 a.m., PIKAL Petr wrote:
Dear all.
I am trying to install missing (not installed) packages during startup
of R through code in Rprofile.site but I miserably failed and I am not
sure what I am doing wrong.
R is installed to C:Program files but it is not writable for the
users, therefore I cannot change Rprofile.site located in root etc
directory. I however can put Rprofile.site in users home directory
(Documents) and use it for R startup setting (partly).
However I want for less experienced users to put a code here to check
installed packages, check if some specified set of packages is
installed and install them, but it is not working.
The code in Rprofile.site is:
#**********
test <- scan("pack.txt", character(), quote = "")
inst <- installed.packages()
install.packages(test[!test %in% inst],
repos="https://cloud.r-project.org";)
#**********
An example of pack.txt is e.g.
ggplot2
zoo
but the code is not executed and packages are not installed. If I use
this code after R starts, everything is OK and packages are installed
to
Sys.getenv("R_LIBS_USER")
[1] "C:\\Users\\PikalP\\AppData\\Local/R/win-library/4.2"
The same applies if I put e.g. library(MASS) in the Rprofile.site, the
package is not loaded but after R is live, library(MASS) loads a package.
So my question is What is the best way to check after fresh R
installation if some predefined set of packages is installed and if
not, perform an installation without user intervention in Windows environment?
S pozdravem | Best Regards
Petr
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