This can happens if save an object with an environment part of a package, e.g.
$ R --quiet --vanilla
> fcn <- Matrix::Matrix
> environment(fcn)
<environment: namespace:Matrix>
> quit("yes") # saves the workspace in an .RData file
# Loading the .RData file at startup triggers 'Matrix' to be loaded
$ R --quiet --no-init-file -e "loadedNamespaces()"
> loadedNamespaces()
[1] "compiler" "Matrix" "graphics" "utils" "grDevices" "stats"
[7] "datasets" "grid" "methods" "base" "lattice"
>
>
Also, if you have saved S4 objects (e.g. x <- Matrix::Matrix(0, 3,
2)), they will trigger their corresponding packages to be loaded when
"used" (e.g. print():ed) but not before.
Not saying it explains all of OPs packages - just wanted to say the
content of .RData may trigger packages being loaded.
/Henrik
On Thu, Oct 22, 2020 at 7:54 PM Jeff Newmiller <jdnew...@dcn.davis.ca.us> wrote:
>
> Can you be more specific about what conditions cause R to automatically load
> a package when a .RData file is loaded? My experience has actually been the
> opposite.
>
> On October 22, 2020 6:13:11 PM PDT, Henrik Bengtsson
> <henrik.bengts...@gmail.com> wrote:
> >As Jeff says, it might be that you have a ~/.Rprofile file with
> >instructions to load packages when R starts. It could also be that
> >you have a .RData file, which is saved if you answer yes to:
> >
> >> Save workspace image? [y/n/c]: y
> >
> >when you quit R. If this file exists, then R loads it and all the
> >objects you had when you saved it. If there are objects associated
> >with packages, then that will cause those packages to be loaded when R
> >starts. To avoid this, you need to move or delete the .RData file.
> >
> >You can use:
> >
> >> startup::startup(debug = TRUE, dryrun = TRUE)
> >
> >to get detailed information on what happens when R starts, e.g. if you
> >have a .Rprofile file and an .RData file. That might help you to
> >track down what's going on. The 'startup' package is on CRAN.
> >
> >I don't know of an easy way to restart RGui or RStudio Console in
> >vanilla mode, similarly how you can start R at the terminal with 'R
> >--vanilla'.
> >
> >/Henrik
> >
> >On Thu, Oct 22, 2020 at 4:14 PM Jeff Newmiller
> ><jdnew...@dcn.davis.ca.us> wrote:
> >>
> >> Have you looked into your .Rprofile file? Loading packages is not
> >something R normally does without your telling it to do so, but many
> >people forget that they have done so.
> >>
> >> On October 22, 2020 3:47:04 PM PDT, Michael L Friendly
> ><frien...@yorku.ca> wrote:
> >> >[env: Windows, R 3.6.6]
> >> >
> >> >When I start R from the R Gui icon or from RStudio, I get a large
> >> >number of packages loaded via a namespace. Not entirely clear where
> >> >these come from.
> >> >
> >> >As a result, I often run into problems updating packages because
> >> >something is already loaded. How can start a new gui session with
> >> >minimal packages loaded?
> >> >
> >> >> sessionInfo()
> >> >R version 3.6.3 (2020-02-29)
> >> >Platform: x86_64-w64-mingw32/x64 (64-bit)
> >> >Running under: Windows 7 x64 (build 7601) Service Pack 1
> >> >
> >> >Matrix products: default
> >> >
> >> >locale:
> >> >[1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United
> >> >States.1252
> >> >[3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C
> >> >
> >> >[5] LC_TIME=English_United States.1252
> >> >
> >> >attached base packages:
> >> >[1] stats graphics grDevices utils datasets methods base
> >> >
> >> >
> >> >loaded via a namespace (and not attached):
> >> >[1] statmod_1.4.34 xfun_0.18 tidyselect_1.1.0
> >reshape2_1.4.4
> >> >purrr_0.3.4 mitools_2.4
> >> >[7] splines_3.6.3 lattice_0.20-41 coefplot_1.2.6 carData_3.0-4
> >> >colorspace_1.4-1 vctrs_0.3.4
> >> >[13] generics_0.0.2 htmltools_0.5.0 yaml_2.2.1
> >survival_3.2-7
> >> > rlang_0.4.7 pillar_1.4.6
> >> >[19] nloptr_1.2.2.2 glue_1.4.2 DBI_1.1.0
> >lifecycle_0.2.0
> >> > plyr_1.8.6 stringr_1.4.0
> >> >[25] effects_4.2-0 munsell_0.5.0 gtable_0.3.0
> >evaluate_0.14
> >> > knitr_1.30 fansi_0.4.1
> >> >[31] Rcpp_1.0.5 scales_1.1.1 useful_1.2.6 fs_1.4.2
> >> > lme4_1.1-23 packrat_0.5.0
> >> >[37] ggplot2_3.3.2 digest_0.6.25 stringi_1.4.6
> >insight_0.9.6
> >> > dplyr_1.0.2 survey_4.0
> >> >[43] grid_3.6.3 cli_2.1.0 tools_3.6.3 magrittr_1.5
> >> > tibble_3.0.4 crayon_1.3.4
> >> >[49] pkgconfig_2.0.3 ellipsis_0.3.1 MASS_7.3-53
> >Matrix_1.2-18
> >> > reprex_0.3.0 assertthat_0.2.1
> >> >[55] minqa_1.2.4 rmarkdown_2.4 rstudioapi_0.11 R6_2.4.1
> >> > boot_1.3-25 nnet_7.3-14
> >> >[61] nlme_3.1-149 compiler_3.6.3
> >> >>
> >> >
> >> >Michael Friendly Email: friendly AT yorku DOT ca
> >> >Professor, Psychology Dept. & Former Chair, ASA Statistical Graphics
> >> >Section
> >> >York University Voice: 416 736-2100 x66249
> >> >4700 Keele Street Web: http://www.datavis.ca | @datavisFriendly
> >> >Toronto, ONT M3J 1P3 CANADA
> >> >
> >> >______________________________________________
> >> >R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> >> >https://stat.ethz.ch/mailman/listinfo/r-help
> >> >PLEASE do read the posting guide
> >> >http://www.R-project.org/posting-guide.html
> >> >and provide commented, minimal, self-contained, reproducible code.
> >>
> >> --
> >> Sent from my phone. Please excuse my brevity.
> >>
> >> ______________________________________________
> >> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> >> https://stat.ethz.ch/mailman/listinfo/r-help
> >> PLEASE do read the posting guide
> >http://www.R-project.org/posting-guide.html
> >> and provide commented, minimal, self-contained, reproducible code.
>
> --
> Sent from my phone. Please excuse my brevity.
______________________________________________
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
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