Hello,
My main error was that this is the first time it happens and I didn't do
any real thinking, I just assumed that it was an upgrade both R and
Ubuntu issue.
Thanks, the reminder of the differences between R and RStudio was very
helpful.
Rui Barradas
Às 15:30 de 08/05/20, Martin Maechler escreveu:
Rui Barradas
on Fri, 8 May 2020 14:46:45 +0100 writes:
> Hello, You are right,
> Rscript -e 'install.packages("car")'
> doesn't give that message, I will ask RStudio support.
> And sorry to spam the list with something I should have
> checked, I'm so used to working in GUI 's that I forgot
> about the command line.
Well, you forgot that Rstudio wraps quite a bit around R.
If you use install.packages() inside Rstudio you get their own
version instead of R's ... :
install.packages
function (...)
.rs.callAs(name, hook, original, ...)
<environment: 0x55a548da49f0>
And they have really tweaked R in a way that it behaves
illogically, and even I don't see how they kept their version of
install.packages hidden from the conflicts() and find()
functions :
find("install.packages")
[1] "package:utils"
But of course
identical(install.packages, utils::install.packages)
[1] FALSE
(Now closing Rstudio again .. and revert to use ESS)
Martin
> Thanks,
> Rui Barradas
> Às 13:56 de 08/05/20, Duncan Murdoch escreveu:
>> That looks like an RStudio message. Do you get it if you
>> run install.packages() in command line R?
>>
>> Duncan Murdoch
>>
>> On 08/05/2020 8:07 a.m., Rui Barradas wrote:
>>> Hello,
>>>
>>> R 4.0.0 on Ubuntu 20.04, sessionInfo() below.
>>>
>>> Since I updated to R 4.0 that every time I try to
>>> install a package with install.packages() the warning in
>>> the title shows up at the end, be the installation
>>> successful or not. If it is successful, the package
>>> loads with no problems, so I'm not very worried but it
>>> isn't normal (expected) behavior, is it?
>>>
>>> Here is a run of install.packages().
>>>
>>>
>>> install.packages('cowplot') Installing package into
>>> ‘/usr/local/lib/R/site-library’ (as ‘lib’ is
>>> unspecified) trying URL
>>> 'https://cloud.r-project.org/src/contrib/cowplot_1.0.0.tar.gz'
>>> Content type 'application/x-gzip' length 1275585 bytes
>>> (1.2 MB)
>>> ==================================================
>>> downloaded 1.2 MB
>>>
>>> * installing *source* package ‘cowplot’ ... ** package
>>> ‘cowplot’ successfully unpacked and MD5 sums checked **
>>> using staged installation ** R ** inst ** byte-compile
>>> and prepare package for lazy loading ** help ***
>>> installing help indices *** copying figures ** building
>>> package indices ** installing vignettes ** testing if
>>> installed package can be loaded from temporary location
>>> ** testing if installed package can be loaded from final
>>> location ** testing if installed package keeps a record
>>> of temporary installation path * DONE (cowplot)
>>>
>>> The downloaded source packages are in
>>> ‘/tmp/Rtmp9NXQkt/downloaded_packages’ Warning in
>>> install.packages : converting NULL pointer to R NULL
>>>
>>>
>>> Also, I'm running this on RStudio and haven't changed
>>> the R library directory.
>>>
>>>
>>> sessionInfo() R version 4.0.0 (2020-04-24) Platform:
>>> x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 20.04
>>> LTS
>>>
>>> Matrix products: default BLAS:
>>> /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0 LAPACK:
>>> /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
>>>
>>> locale: [1] LC_CTYPE=pt_PT.UTF-8 LC_NUMERIC=C
>>> LC_TIME=pt_PT.UTF-8 [4] LC_COLLATE=pt_PT.UTF-8
>>> LC_MONETARY=pt_PT.UTF-8 LC_MESSAGES=pt_PT.UTF-8 [7]
>>> LC_PAPER=pt_PT.UTF-8 LC_NAME=C
>>> LC_ADDRESS=C
>>>
>>> [10] LC_TELEPHONE=C
>>> LC_MEASUREMENT=pt_PT.UTF-8 LC_IDENTIFICATION=C
>>>
>>> attached base packages: [1] stats graphics
>>> grDevices utils datasets methods base
>>>
>>> other attached packages: [1] MASS_7.3-51.6
>>> ggthemes_4.2.0 ggrepel_0.8.2 dplyr_0.8.5 ggplot2_3.3.0
>>>
>>> loaded via a namespace (and not attached): [1]
>>> zoo_1.8-8 tidyselect_1.0.0 purrr_0.3.4
>>> reshape2_1.4.4 haven_2.2.0 [6] lattice_0.20-41
>>> sodium_1.1 carData_3.0-3 colorspace_1.4-1
>>> vctrs_0.2.4 [11] yaml_2.2.1 rlang_0.4.6
>>> pillar_1.4.3 withr_2.2.0 foreign_0.8-79 [16]
>>> glue_1.4.0 readxl_1.3.1 lifecycle_0.2.0
>>> plyr_1.8.6 stringr_1.4.0 [21]
>>> MatrixModels_0.4-1 munsell_0.5.0 gtable_0.3.0
>>> cellranger_1.1.0 zip_2.0.4 [26] rio_0.5.16
>>> forcats_0.5.0 SparseM_1.78 quantreg_5.55
>>> curl_4.3 [31] tis_1.38 Rcpp_1.0.4.6
>>> readr_1.3.1 scales_1.1.0 abind_1.4-5 [36]
>>> farver_2.0.3 sos_2.0-0 brew_1.0-6
>>> digest_0.6.25 hms_0.5.3 [41] png_0.1-7
>>> stringi_1.4.6 openxlsx_4.1.4 grid_4.0.0
>>> tools_4.0.0 [46] magrittr_1.5
>>> tibble_3.0.1 pacman_0.5.1 crayon_1.3.4
>>> car_3.0-7 [51] pkgconfig_2.0.3 ellipsis_0.3.0
>>> Matrix_1.2-18 data.table_1.12.8 assertthat_0.2.1 [56]
>>> httr_1.4.1 rstudioapi_0.11 R6_2.4.1
>>> compiler_4.0.0
>>>
>>>
>>> Thanks in advance,
>>>
>>> Rui Barradas
>>>
>>> ______________________________________________
>>> 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.
>>>
>>
> ______________________________________________
> 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.
______________________________________________
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.
