[R] Warning in install.packages : converting NULL pointer to R NULL
Rui Barradas
ru|pb@rr@d@@ @end|ng |rom @@po@pt
Fri May 8 17:51:32 CEST 2020
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 using 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 using 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.
>
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