I am working in an R project with renv initialised. I have the latest version of renv and R. renv cannot see tidyverse in the project library (renv::status() says it is missing though the folder is in my renv library folder), but I also cannot get tidyverse installed in the project library using various methods. If I run renv::install("tidyverse") the error says "package "tidyverse is not available". If I run utils::install.packages("tidyverse") the error is:
Installing package into ‘C:/Users/elau2/OneDrive - NHS Digital/Documents/Linked CPES-registry analysis C drive/Linked_CPES_analysis/renv/library/R-4.3/x86_64-w64-mingw32’
(as ‘lib’ is unspecified)
Warning: unable to access index for repository https://packagemanager.posit.co/cran/latest/src/contrib:
cannot open URL 'https://packagemanager.posit.co/cran/latest/src/contrib/PACKAGES'
Warning: unable to access index for repository https://packagemanager.posit.co/cran/latest/bin/windows/contrib/4.3:
cannot open URL 'https://packagemanager.posit.co/cran/latest/bin/windows/contrib/4.3/PACKAGES'
Warning message:
package ‘tidyverse’ is not available for this version of R
A version of this package for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
Session info:
R version 4.3.2 (2023-10-31 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 11 x64 (build 22621)
Matrix products: default
locale:
[1] LC_COLLATE=English_United Kingdom.utf8 LC_CTYPE=English_United Kingdom.utf8
[3] LC_MONETARY=English_United Kingdom.utf8 LC_NUMERIC=C
[5] LC_TIME=English_United Kingdom.utf8
time zone: Europe/London
tzcode source: internal
attached base packages:
[1] stats graphics grDevices datasets utils methods base
loaded via a namespace (and not attached):
[1] utf8_1.2.4 R6_2.5.1 tidyselect_1.2.0 magrittr_2.0.3 glue_1.7.0
[6] tibble_3.2.1 pkgconfig_2.0.3 dplyr_1.1.4 generics_0.1.3 lifecycle_1.0.4
[11] cli_3.6.2 fansi_1.0.6 vctrs_0.6.5 renv_1.0.3 compiler_4.3.2
[16] rstudioapi_0.15.0 tools_4.3.2 pillar_1.9.0 rlang_1.1.3
renv::diagnostics() output:
Diagnostics Report [renv 1.0.3]
===============================
# Session Info ---------------------------------------------------------------
R version 4.3.2 (2023-10-31 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 11 x64 (build 22621)
Matrix products: default
locale:
[1] LC_COLLATE=English_United Kingdom.utf8
[2] LC_CTYPE=English_United Kingdom.utf8
[3] LC_MONETARY=English_United Kingdom.utf8
[4] LC_NUMERIC=C
[5] LC_TIME=English_United Kingdom.utf8
time zone: Europe/London
tzcode source: internal
attached base packages:
[1] stats graphics grDevices datasets utils methods base
loaded via a namespace (and not attached):
[1] utf8_1.2.4 R6_2.5.1 tidyselect_1.2.0 magrittr_2.0.3
[5] glue_1.7.0 tibble_3.2.1 pkgconfig_2.0.3 dplyr_1.1.4
[9] generics_0.1.3 lifecycle_1.0.4 cli_3.6.2 fansi_1.0.6
[13] vctrs_0.6.5 renv_1.0.3 compiler_4.3.2 rstudioapi_0.15.0
[17] tools_4.3.2 pillar_1.9.0 rlang_1.1.3
# Project --------------------------------------------------------------------
Project path: "~/Linked CPES-registry analysis C drive/Linked_CPES_analysis"
# Status ---------------------------------------------------------------------
The following package(s) are missing their DESCRIPTION files:
- jquerylib [C:/Users/elau2/OneDrive - NHS Digital/Documents/Linked CPES-registry analysis C drive/Linked_CPES_analysis/renv/library/R-4.3/x86_64-w64-mingw32/jquerylib]
These may be left over from a prior, failed installation attempt.
Consider removing or reinstalling these packages.
The following package(s) are missing:
package installed recorded used
tidyverse n n y
See ?renv::status() for advice on resolving these issues.
# Packages -------------------------------------------------------------------
The following package(s) are missing their DESCRIPTION files:
- jquerylib [C:/Users/elau2/OneDrive - NHS Digital/Documents/Linked CPES-registry analysis C drive/Linked_CPES_analysis/renv/library/R-4.3/x86_64-w64-mingw32/jquerylib]
These may be left over from a prior, failed installation attempt.
Consider removing or reinstalling these packages.
Library Source Lockfile Source Path Dependency
DBI 1.2.1 RSPM 1.2.1 RSPM [1] indirect
KernSmooth 2.23-22 CRAN <NA> <NA> [2] <NA>
MASS 7.3-60 CRAN 7.3-60 CRAN [1] indirect
Matrix 1.6-1.1 CRAN 1.6-1.1 CRAN [1] indirect
NDRSAfunctions 0.2.0 GitHub 0.2.0 GitHub [1] direct
R6 2.5.1 RSPM 2.5.1 RSPM [1] indirect
RColorBrewer 1.1-3 RSPM 1.1-3 RSPM [1] indirect
RJDBC 0.2-10 CRAN 0.2-10 CRAN [1] indirect
RPostgreSQL 0.7-6 CRAN 0.7-6 CRAN [1] indirect
Rcpp 1.0.12 CRAN 1.0.12 CRAN [1] indirect
askpass 1.2.0 RSPM <NA> <NA> [1] <NA>
backports 1.4.1 RSPM <NA> <NA> [1] <NA>
base64enc 0.1-3 RSPM <NA> <NA> [1] <NA>
bit 4.0.5 RSPM <NA> <NA> [1] <NA>
bit64 4.0.5 RSPM <NA> <NA> [1] <NA>
blob 1.2.4 RSPM <NA> <NA> [1] <NA>
boot 1.3-28.1 CRAN <NA> <NA> [2] <NA>
broom 1.0.5 RSPM <NA> <NA> [1] <NA>
bslib 0.6.1 CRAN <NA> <NA> [1] <NA>
cachem 1.0.8 RSPM <NA> <NA> [1] <NA>
callr 3.7.3 RSPM <NA> <NA> [1] <NA>
cellranger 1.1.0 RSPM <NA> <NA> [1] <NA>
class 7.3-22 CRAN <NA> <NA> [2] <NA>
cli 3.6.2 RSPM 3.6.2 RSPM [1] indirect
clipr 0.8.0 RSPM <NA> <NA> [1] <NA>
cluster 2.1.4 CRAN <NA> <NA> [2] <NA>
codetools 0.2-19 CRAN <NA> <NA> [2] <NA>
colorspace 2.1-0 RSPM 2.1-0 RSPM [1] indirect
conflicted 1.2.0 RSPM <NA> <NA> [1] <NA>
cpp11 0.4.7 RSPM 0.4.7 RSPM [1] indirect
crayon 1.5.2 RSPM <NA> <NA> [1] <NA>
curl 5.2.0 RSPM <NA> <NA> [1] <NA>
data.table 1.14.10 RSPM 1.14.10 RSPM [1] indirect
dbplyr 2.4.0 RSPM <NA> <NA> [1] <NA>
digest 0.6.34 CRAN <NA> <NA> [1] <NA>
dplyr 1.1.4 RSPM 1.1.4 RSPM [1] direct
dtplyr 1.3.1 RSPM <NA> <NA> [1] <NA>
ellipsis 0.3.2 RSPM <NA> <NA> [1] <NA>
evaluate 0.23 RSPM <NA> <NA> [1] <NA>
fansi 1.0.6 RSPM 1.0.6 RSPM [1] indirect
farver 2.1.1 RSPM 2.1.1 RSPM [1] indirect
fastmap 1.1.1 RSPM <NA> <NA> [1] <NA>
fontawesome 0.5.2 CRAN <NA> <NA> [1] <NA>
forcats 1.0.0 RSPM <NA> <NA> [1] <NA>
foreign 0.8-85 CRAN <NA> <NA> [2] <NA>
fs 1.6.3 RSPM <NA> <NA> [1] <NA>
gargle 1.5.2 RSPM <NA> <NA> [1] <NA>
generics 0.1.3 RSPM 0.1.3 RSPM [1] indirect
getPass 0.2-4 CRAN 0.2-4 CRAN [1] indirect
ggplot2 3.4.4 RSPM 3.4.4 RSPM [1] indirect
glue 1.7.0 RSPM 1.7.0 RSPM [1] indirect
googledrive 2.1.1 RSPM <NA> <NA> [1] <NA>
googlesheets4 1.1.1 RSPM <NA> <NA> [1] <NA>
grDevices <NA> <NA> <NA> <NA> [2] indirect
graphics <NA> <NA> <NA> <NA> [2] indirect
grid <NA> <NA> <NA> <NA> [2] indirect
gtable 0.3.4 RSPM 0.3.4 RSPM [1] indirect
haven 2.5.4 RSPM <NA> <NA> [1] <NA>
highr 0.10 RSPM <NA> <NA> [1] <NA>
hms 1.1.3 RSPM <NA> <NA> [1] <NA>
htmltools 0.5.7 CRAN <NA> <NA> [1] <NA>
httr 1.4.7 RSPM <NA> <NA> [1] <NA>
ids 1.0.1 RSPM <NA> <NA> [1] <NA>
isoband 0.2.7 RSPM 0.2.7 RSPM [1] indirect
jsonlite 1.8.8 RSPM <NA> <NA> [1] <NA>
knitr 1.45 RSPM <NA> <NA> [1] <NA>
labeling 0.4.3 RSPM 0.4.3 RSPM [1] indirect
lattice 0.21-9 CRAN 0.21-9 CRAN [1] indirect
lifecycle 1.0.4 RSPM 1.0.4 RSPM [1] indirect
lubridate 1.9.3 RSPM <NA> <NA> [1] <NA>
magrittr 2.0.3 RSPM 2.0.3 RSPM [1] indirect
memoise 2.0.1 RSPM <NA> <NA> [1] <NA>
methods <NA> <NA> <NA> <NA> [2] indirect
mgcv 1.9-0 CRAN 1.9-0 CRAN [1] indirect
mime 0.12 RSPM <NA> <NA> [1] <NA>
modelr 0.1.11 RSPM <NA> <NA> [1] <NA>
munsell 0.5.0 RSPM 0.5.0 RSPM [1] indirect
nlme 3.1-163 CRAN 3.1-163 CRAN [1] indirect
nnet 7.3-19 CRAN <NA> <NA> [2] <NA>
openssl 2.1.1 RSPM <NA> <NA> [1] <NA>
pillar 1.9.0 RSPM 1.9.0 RSPM [1] indirect
pkgconfig 2.0.3 RSPM 2.0.3 RSPM [1] indirect
plyr 1.8.9 CRAN 1.8.9 CRAN [1] direct
prettyunits 1.2.0 RSPM <NA> <NA> [1] <NA>
processx 3.8.3 RSPM <NA> <NA> [1] <NA>
progress 1.2.3 RSPM <NA> <NA> [1] <NA>
ps 1.7.6 CRAN <NA> <NA> [1] <NA>
purrr 1.0.2 RSPM 1.0.2 RSPM [1] indirect
rJava 1.0-10 CRAN 1.0-10 CRAN [1] indirect
ragg 1.2.7 RSPM <NA> <NA> [1] <NA>
rappdirs 0.3.3 RSPM <NA> <NA> [1] <NA>
readr 2.1.5 RSPM <NA> <NA> [1] <NA>
readxl 1.4.3 RSPM <NA> <NA> [1] <NA>
rematch 2.0.0 RSPM <NA> <NA> [1] <NA>
rematch2 2.1.2 RSPM <NA> <NA> [1] <NA>
renv 1.0.3 CRAN 1.0.3 CRAN [1] direct
reprex 2.1.0 CRAN <NA> <NA> [1] <NA>
rlang 1.1.3 RSPM 1.1.3 RSPM [1] indirect
rmarkdown 2.25 CRAN <NA> <NA> [1] <NA>
rpart 4.1.21 CRAN <NA> <NA> [2] <NA>
rstudioapi 0.15.0 CRAN 0.15.0 CRAN [1] indirect
sass 0.4.8 CRAN <NA> <NA> [1] <NA>
scales 1.3.0 RSPM 1.3.0 RSPM [1] indirect
spatial 7.3-17 CRAN <NA> <NA> [2] <NA>
splines <NA> <NA> <NA> <NA> [2] indirect
stats <NA> <NA> <NA> <NA> [2] indirect
stringi 1.8.3 RSPM 1.8.3 RSPM [1] indirect
stringr 1.5.1 RSPM 1.5.1 RSPM [1] indirect
survival 3.5-7 CRAN <NA> <NA> [2] <NA>
svDialogs 1.1.0 CRAN 1.1.0 CRAN [1] indirect
svGUI 1.0.1 CRAN 1.0.1 CRAN [1] indirect
sys 3.4.2 RSPM <NA> <NA> [1] <NA>
systemfonts 1.0.5 RSPM <NA> <NA> [1] <NA>
textshaping 0.3.7 RSPM <NA> <NA> [1] <NA>
tibble 3.2.1 RSPM 3.2.1 RSPM [1] indirect
tidyr 1.3.0 RSPM 1.3.0 RSPM [1] indirect
tidyselect 1.2.0 RSPM 1.2.0 RSPM [1] indirect
tidyverse <NA> <NA> <NA> <NA> <NA> direct
timechange 0.3.0 CRAN <NA> <NA> [1] <NA>
tinytex 0.49 CRAN <NA> <NA> [1] <NA>
tools <NA> <NA> <NA> <NA> [2] indirect
tzdb 0.4.0 RSPM <NA> <NA> [1] <NA>
utf8 1.2.4 RSPM 1.2.4 RSPM [1] indirect
utils <NA> <NA> <NA> <NA> [2] indirect
uuid 1.2-0 RSPM <NA> <NA> [1] <NA>
vctrs 0.6.5 RSPM 0.6.5 RSPM [1] indirect
viridisLite 0.4.2 RSPM 0.4.2 RSPM [1] indirect
vroom 1.6.5 RSPM <NA> <NA> [1] <NA>
withr 3.0.0 RSPM 3.0.0 RSPM [1] indirect
xfun 0.41 RSPM <NA> <NA> [1] <NA>
xlsx 0.6.5 CRAN 0.6.5 CRAN [1] direct
xlsxjars 0.6.1 CRAN 0.6.1 CRAN [1] indirect
xml2 1.3.6 CRAN <NA> <NA> [1] <NA>
yaml 2.3.8 RSPM 2.3.8 RSPM [1] indirect
[1]: C:/Users/elau2/OneDrive - NHS Digital/Documents/Linked CPES-registry analysis C drive/Linked_CPES_analysis/renv/library/R-4.3/x86_64-w64-mingw32
[2]: C:/Users/elau2/AppData/Local/R/cache/R/renv/sandbox/R-4.3/x86_64-w64-mingw32/1e360f03
# ABI ------------------------------------------------------------------------
- ABI conflict checks are not yet implemented on Windows.
# User Profile ---------------------------------------------------------------
[1] Source Package Require Version Dev
<0 rows> (or 0-length row.names)
# Settings -------------------------------------------------------------------
List of 13
$ bioconductor.version : NULL
$ external.libraries : chr(0)
$ ignored.packages : chr(0)
$ package.dependency.fields: chr [1:3] "Imports" "Depends" "LinkingTo"
$ ppm.enabled : NULL
$ ppm.ignored.urls : chr(0)
$ r.version : NULL
$ snapshot.type : chr "implicit"
$ use.cache : logi TRUE
$ vcs.ignore.cellar : logi TRUE
$ vcs.ignore.library : logi TRUE
$ vcs.ignore.local : logi TRUE
$ vcs.manage.ignores : logi TRUE
# Options --------------------------------------------------------------------
List of 8
$ defaultPackages : chr [1:6] "datasets" "utils" "grDevices" "graphics" ...
$ download.file.method : NULL
$ download.file.extra : NULL
$ install.packages.compile.from.source: chr "interactive"
$ pkgType : chr "both"
$ repos : Named chr "https://packagemanager.posit.co/cran/latest"
..- attr(*, "names")= chr "CRAN"
$ renv.consent : logi TRUE
$ renv.verbose : logi TRUE
# Environment Variables ------------------------------------------------------
HOME = C:/Users/elau2/OneDrive - NHS Digital/Documents
LANG = <NA>
MAKE = <NA>
R_LIBS = <NA>
R_LIBS_SITE = C:/PROGRA~1/R/R-43~1.2/site-library
R_LIBS_USER = C:/Users/elau2/OneDrive - NHS Digital/Documents/Linked CPES-registry analysis C drive/Linked_CPES_analysis/renv/library/R-4.3/x86_64-w64-mingw32
RENV_DEFAULT_R_ENVIRON = <NA>
RENV_DEFAULT_R_ENVIRON_USER = <NA>
RENV_DEFAULT_R_LIBS = <NA>
RENV_DEFAULT_R_LIBS_SITE = C:/PROGRA~1/R/R-43~1.2/site-library
RENV_DEFAULT_R_LIBS_USER = C:\Users\elau2\AppData\Local/R/win-library/4.3
RENV_DEFAULT_R_PROFILE = <NA>
RENV_DEFAULT_R_PROFILE_USER = <NA>
RENV_DOWNLOAD_FILE_METHOD = libcurl
RENV_PROJECT = C:/Users/elau2/OneDrive - NHS Digital/Documents/Linked CPES-registry analysis C drive/Linked_CPES_analysis
# PATH -----------------------------------------------------------------------
- C:\rtools43\x86_64-w64-mingw32.static.posix\bin
- C:\rtools43\usr\bin
- C:\Program Files\R\R-4.3.2\bin\x64
- C:\Program Files (x86)\Common Files\Oracle\Java\javapath
- C:\Windows\system32
- C:\Windows
- C:\Windows\System32\Wbem
- C:\Windows\System32\WindowsPowerShell\v1.0\
- C:\Windows\System32\OpenSSH\
- C:\Program Files\WindowsPowerShell\Scripts
- C:\Program Files\TortoiseSVN\bin
- C:\Program Files\Git\cmd
- C:\WINDOWS\system32
- C:\WINDOWS
- C:\WINDOWS\System32\Wbem
- C:\WINDOWS\System32\WindowsPowerShell\v1.0\
- C:\WINDOWS\System32\OpenSSH\
- C:\Program Files\dotnet\
- C:\Users\elau2\AppData\Local\Microsoft\WindowsApps
- C:\Program Files\RStudio\resources\app\bin\quarto\bin
- C:\Program Files\RStudio\resources\app\bin\postback
# Cache ----------------------------------------------------------------------
There are a total of 192 packages installed in the renv cache.
Cache path: "C:/Users/elau2/AppData/Local/R/cache/R/renv/cache/v5/R-4.3/x86_64-w64-mingw32"
I have tried:
- changing the CRAN repo (currently on Global (CDN) but also tried others)
- unticked "use secure download method for HTTP"
- changing CRAN repo in my activate.R file in the renv folder
- updating renv and using dev version
Any help much appreciated!