gaborcsardi
commented
2 months ago Can you include the actual error messages?
Also, what is the output of this?
getOption("repos")Open yoelii opened 2 months ago
gaborcsardi
commented
2 months ago Can you include the actual error messages?
Also, what is the output of this?
getOption("repos")
yoelii
commented
2 months ago I have no message. The function still running infinite. I need to kill my R session.
> getOption("repos")
[1] "https://cran.r-project.org"I try to install with install.packages("tidyverse") and it's work well, after I install some system dependencies ( apt-get install -y libfribidi-dev libharfbuzz-dev )
But pkg_intall("tidyverse") still failed.
If I remove the package, and try agin a installation with pak, it run with success
remove.packages("tidyverse")
Removing package from '/usr/local/lib/R/library'
(as 'lib' is unspecified)
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done
> pkg_install("tidyverse")
v Loading metadata database ... done
> Will install 1 package.
> Will download 1 package with unknown size.
+ tidyverse 2.0.0 [bld][dl]
v All system requirements are already installed.
i Getting 1 pkg with unknown size
v Got tidyverse 2.0.0 (source) (704.62 kB)
v Downloaded 1 package (704.62 kB) in 685ms
i Building tidyverse 2.0.0
v Built tidyverse 2.0.0 (1.3s)
v Installed tidyverse 2.0.0 (26ms)
v 1 pkg + 102 deps: kept 91, added 1, dld 1 (704.62 kB) [5.7s] I don't understand why
gaborcsardi
commented
2 months ago Set your repository like this:
options(repos = c(CRAN = "cran.R-project.org"))I would also suggest to use https://packagemanager.posit.co/client/#/, so you don't need to compile packages from source:
options(repos = c(
P3M = "https://packagemanager.posit.co/cran/__linux__/jammy/latest",
CRAN = "https://cloud.r-project.org"
))Thanks,
it work after set the repository and without install the system dependency :
options(repos = c(CRAN = "cran.R-project.org"))> library("pak")
> options(repos = c(CRAN = "cran.R-project.org"))
> pkg_install("tidyverse")
v Updated metadata database: 2.95 MB in 7 files.
v Updating metadata database ... done
> Will install 39 packages.
> Will download 39 CRAN packages (14.53 MB).
+ DBI 1.2.3 [bld][dl] (1.13 MB)
+ backports 1.5.0 [bld][cmp][dl] (26.20 kB)
+ bit 4.0.5 [bld][cmp][dl] (827.75 kB)
+ bit64 4.0.5 [bld][cmp][dl] (135.09 kB)
+ blob 1.2.4 [bld][dl] (10.62 kB)
+ broom 1.0.6 [bld][dl] (641.85 kB)
+ cellranger 1.1.0 [bld][dl] (63.86 kB)
+ clipr 0.8.0 [bld][dl] (21.90 kB)
+ conflicted 1.2.0 [bld][dl] (17.07 kB)
+ dbplyr 2.5.0 [bld][dl] (770.65 kB)
+ dtplyr 1.3.1 [bld][dl] (150.97 kB)
+ forcats 1.0.0 [bld][dl] (294.18 kB)
+ gargle 1.5.2 [bld][dl] (627.56 kB)
+ googledrive 2.1.1 [bld][dl] (1.61 MB)
+ googlesheets4 1.1.1 [bld][dl] (232.58 kB)
+ haven 2.5.4 [bld][cmp][dl] (313.33 kB) + v make, v zlib1g-dev
+ hms 1.1.3 [bld][dl] (43.38 kB)
+ ids 1.0.1 [bld][dl] (91.21 kB)
+ lubridate 1.9.3 [bld][cmp][dl] (428.04 kB)
+ modelr 0.1.11 [bld][dl] (121.48 kB)
+ prettyunits 1.2.0 [bld][dl] (97.50 kB)
+ progress 1.2.3 [bld][dl] (30.50 kB)
+ ragg 1.3.2 [bld][cmp][dl] (430.24 kB) + v libfreetype6-dev, v libjpeg-dev, v libpng-dev, v libtiff-dev
+ readr 2.1.5 [bld][cmp][dl] (298.06 kB)
+ readxl 1.4.3 [bld][cmp][dl] (2.09 MB)
+ rematch 2.0.0 [bld][dl] (4.78 kB)
+ rematch2 2.1.2 [bld][dl] (13.37 kB)
+ reprex 2.1.1 [bld][dl] (1.09 MB) + x pandoc
+ rstudioapi 0.16.0 [bld][dl] (117.42 kB)
+ rvest 1.0.4 [bld][dl] (115.88 kB)
+ selectr 0.4-2 [bld][dl] (41.37 kB)
+ systemfonts 1.1.0 [bld][cmp][dl] (80.84 kB) + v libfontconfig1-dev, v libfreetype6-dev
+ textshaping 0.4.0 [bld][cmp][dl] (35.10 kB) + v libfreetype6-dev, x libfribidi-dev, x libharfbuzz-dev
+ tidyverse 2.0.0 [bld][dl] (704.62 kB)
+ timechange 0.3.0 [bld][cmp][dl] (103.44 kB)
+ tzdb 0.4.0 [bld][cmp][dl] (586.33 kB)
+ uuid 1.2-1 [bld][cmp][dl] (79.72 kB)
+ vroom 1.6.5 [bld][cmp][dl] (750.42 kB)
+ xml2 1.3.6 [bld][cmp][dl] (294.71 kB) + v libxml2-dev
> Will install 3 system packages:
+ libfribidi-dev - textshaping
+ libharfbuzz-dev - textshaping
+ pandoc - reprex, knitr, rmarkdown
i Getting 39 pkgs (14.53 MB)
v Got backports 1.5.0 (source) (30.69 kB)
v Got blob 1.2.4 (source) (10.62 kB)
v Got bit64 4.0.5 (source) (135.09 kB)
v Got dtplyr 1.3.1 (source) (150.97 kB)
v Got haven 2.5.4 (source) (313.33 kB)
v Got broom 1.0.6 (source) (641.54 kB)
v Got bit 4.0.5 (source) (827.75 kB)
v Got gargle 1.5.2 (source) (627.56 kB)
v Got readr 2.1.5 (source) (298.06 kB)
v Got lubridate 1.9.3 (source) (428.04 kB)
v Got rstudioapi 0.16.0 (source) (117.42 kB)
v Got rvest 1.0.4 (source) (115.88 kB)
v Got systemfonts 1.1.0 (source) (85.58 kB)
v Got clipr 0.8.0 (source) (21.90 kB)
v Got conflicted 1.2.0 (source) (17.07 kB)
v Got hms 1.1.3 (source) (43.38 kB)
v Got textshaping 0.4.0 (source) (37.96 kB)
v Got tidyverse 2.0.0 (source) (704.62 kB)
v Got tzdb 0.4.0 (source) (586.33 kB)
v Got vroom 1.6.5 (source) (750.42 kB)
v Got progress 1.2.3 (source) (30.50 kB)
v Got rematch 2.0.0 (source) (4.78 kB)
v Got DBI 1.2.3 (source) (1.14 MB)
v Got googlesheets4 1.1.1 (source) (232.58 kB)
v Got reprex 2.1.1 (source) (1.09 MB)
v Got selectr 0.4-2 (source) (41.37 kB)
v Got cellranger 1.1.0 (source) (63.86 kB)
v Got timechange 0.3.0 (source) (103.44 kB)
v Got prettyunits 1.2.0 (source) (97.50 kB)
v Got uuid 1.2-1 (source) (80.66 kB)
v Got modelr 0.1.11 (source) (121.48 kB)
v Got ids 1.0.1 (source) (91.21 kB)
v Got forcats 1.0.0 (source) (294.18 kB)
v Got xml2 1.3.6 (source) (294.71 kB)
v Got rematch2 2.1.2 (source) (13.37 kB)
v Got ragg 1.3.2 (source) (430.37 kB)
v Got readxl 1.4.3 (source) (2.09 MB)
v Got dbplyr 2.5.0 (source) (770.65 kB)
v Got googledrive 2.1.1 (source) (1.61 MB)
v Downloaded 39 packages (14.54 MB) in 2.3s
i Installing system requirements
i Executing `sh -c apt-get -y update`
i Executing `sh -c apt-get -y install pandoc libfribidi-dev libharfbuzz-dev`
i Building backports 1.5.0
i Building bit 4.0.5
i Building blob 1.2.4
i Building clipr 0.8.0
i Building conflicted 1.2.0
i Building DBI 1.2.3
i Building dtplyr 1.3.1
i Building forcats 1.0.0
i Building gargle 1.5.2
i Building hms 1.1.3
i Building prettyunits 1.2.0
i Building rematch 2.0.0
i Building rematch2 2.1.2
i Building rstudioapi 0.16.0
i Building selectr 0.4-2
i Building systemfonts 1.1.0
v Built clipr 0.8.0 (1.6s)
i Building timechange 0.3.0
v Built blob 1.2.4 (1.9s)
v Built conflicted 1.2.0 (1.9s)
i Building tzdb 0.4.0
v Built backports 1.5.0 (2.5s)
i Building uuid 1.2-1
v Built rematch 2.0.0 (1.6s)
i Building xml2 1.3.6
v Installed backports 1.5.0 (74ms)
i Building broom 1.0.6
v Built hms 1.1.3 (2.8s)
v Built prettyunits 1.2.0 (2.8s)
v Installed blob 1.2.4 (52ms)
v Installed clipr 0.8.0 (118ms)
v Installed conflicted 1.2.0 (109ms)
v Built forcats 1.0.0 (3.8s)
v Built rematch2 2.1.2 (3.3s)
v Installed hms 1.1.3 (152ms)
v Built rstudioapi 0.16.0 (3.2s)
v Installed forcats 1.0.0 (152ms)
v Installed prettyunits 1.2.0 (83ms)
i Building progress 1.2.3
v Installed rematch 2.0.0 (38ms)
i Building cellranger 1.1.0
v Installed rematch2 2.1.2 (36ms)
v Installed rstudioapi 0.16.0 (49ms)
i Building reprex 2.1.1
v Built dtplyr 1.3.1 (6.4s)
v Installed dtplyr 1.3.1 (53ms)
v Built cellranger 1.1.0 (2.4s)
v Installed cellranger 1.1.0 (47ms)
v Built DBI 1.2.3 (7.8s)
v Built progress 1.2.3 (3.3s)
v Installed DBI 1.2.3 (117ms)
v Installed progress 1.2.3 (80ms)
i Building dbplyr 2.5.0
i Building readxl 1.4.3
v Built reprex 2.1.1 (3.6s)
v Installed reprex 2.1.1 (52ms)
v Built gargle 1.5.2 (8.7s)
v Installed gargle 1.5.2 (99ms)
v Built bit 4.0.5 (9.9s)
v Built uuid 1.2-1 (7.4s)
v Installed bit 4.0.5 (115ms)
v Installed uuid 1.2-1 (86ms)
i Building bit64 4.0.5
i Building googledrive 2.1.1
i Building ids 1.0.1
v Built ids 1.0.1 (1.8s)
v Installed ids 1.0.1 (33ms)
v Built selectr 0.4-2 (11.8s)
v Installed selectr 0.4-2 (43ms)
v Built broom 1.0.6 (10.6s)
v Installed broom 1.0.6 (120ms)
i Building modelr 0.1.11
v Built googledrive 2.1.1 (4.7s)
v Installed googledrive 2.1.1 (59ms)
i Building googlesheets4 1.1.1
v Built xml2 1.3.6 (12.9s)
v Installed xml2 1.3.6 (51ms)
i Building rvest 1.0.4
v Built modelr 0.1.11 (2.7s)
v Installed modelr 0.1.11 (42ms)
v Built bit64 4.0.5 (8.9s)
v Built rvest 1.0.4 (3.3s)
v Installed bit64 4.0.5 (96ms)
v Installed rvest 1.0.4 (120ms)
v Built googlesheets4 1.1.1 (4.3s)
v Installed googlesheets4 1.1.1 (33ms)
v Built tzdb 0.4.0 (18.4s)
v Installed tzdb 0.4.0 (54ms)
i Building vroom 1.6.5
v Built dbplyr 2.5.0 (14.6s)
v Installed dbplyr 2.5.0 (39ms)
v Built timechange 0.3.0 (23.2s)
v Installed timechange 0.3.0 (64ms)
i Building lubridate 1.9.3
v Built readxl 1.4.3 (19.6s)
v Installed readxl 1.4.3 (70ms)
v Built systemfonts 1.1.0 (29.1s)
v Installed systemfonts 1.1.0 (66ms)
i Building textshaping 0.4.0
v Built lubridate 1.9.3 (5.7s)
v Installed lubridate 1.9.3 (32ms)
v Built textshaping 0.4.0 (9.4s)
v Installed textshaping 0.4.0 (39ms)
i Building ragg 1.3.2
v Built vroom 1.6.5 (59.8s)
v Installed vroom 1.6.5 (140ms)
i Building readr 2.1.5
v Built readr 2.1.5 (28s)
v Installed readr 2.1.5 (113ms)
i Building haven 2.5.4
v Built haven 2.5.4 (13.6s)
v Installed haven 2.5.4 (47ms)
v Built ragg 1.3.2 (1m 46.1s)
v Installed ragg 1.3.2 (190ms)
i Building tidyverse 2.0.0
v Built tidyverse 2.0.0 (1.4s)
v Installed tidyverse 2.0.0 (31ms)
v 1 pkg + 105 deps: kept 56, added 39, dld 39 (14.54 MB) [2m 45.3s]
I try to install "tidyverse" R package with pak.
The function run but never finish :
My R sessionInfo()
If I kill my R Session and I try again, the function failed early, still without error message :
Same failed issue with :
I suppose a system dependency is missing or trouble with rights maybes but I have no error message, only look like run correctly but never finish
Thank for your help