Issue loading ggpubr when using renv with project

kbevandick · October 21, 2021, 7:52pm

I am having trouble loading ggpubr when using renv with my project. I have no issues when trying to load the package outside of a renv. My other packages have loaded as well. I had no issues when I initially created the project. I also tried to use the reprex() function to aid in this question, but returned the error of:

Error: This reprex appears to crash R

Here is my session info:

R version 4.1.0 (2021-05-18)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19042)

Here is the code I am having issues with.

install.packages(c("skimr", "dplyr","ggplot2","ggpubr"))
library(skimr)
library(dplyr)
library(ggplot2)
library(ggpubr)

Error: package or namespace load failed for ‘ggpubr’ in inDL(x, as.logical(local), as.logical(now), ...): ICU init failed: U_FILE_ACCESS_ERROR

I tried a number of things, with no luck:

Tried creating a new Rproject with renv, and installing/loading ggpubr
Forced renv to use the same download method as R
Uninstalled and reinstalled “ggpubr”
Uninstalled/Re-installed RStudio

After looking at other topics, I also ran renv::diagnostics. The output is huge, and I have posted it below. I am new to all of this, so any help is appreciated!

kbevandick · October 21, 2021, 8:12pm

Here is the output of the following code:


renv::diagnostics()

Diagnostics Report [renv 0.14.0-8]

Session Info =======================

R version 4.1.0 (2021-05-18)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19042)

Matrix products: default

locale:
[1] LC_COLLATE=English_Canada.1252 LC_CTYPE=English_Canada.1252
[3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C
[5] LC_TIME=English_Canada.1252

attached base packages:
[1] stats graphics grDevices datasets utils methods base

other attached packages:
[1] reprex_2.0.1 dplyr_1.0.7 ggplot2_3.3.5

loaded via a namespace (and not attached):
[1] tidyselect_1.1.1 xfun_0.26 purrr_0.3.4 haven_2.4.3
[5] colorspace_2.0-2 vctrs_0.3.8 generics_0.1.0 htmltools_0.5.2
[9] yaml_2.2.1 utf8_1.2.2 rlang_0.4.11 pillar_1.6.4
[13] foreign_0.8-81 glue_1.4.2 withr_2.4.2 lifecycle_1.0.1
[17] munsell_0.5.0 ggsignif_0.6.3 gtable_0.3.0 evaluate_0.14
[21] knitr_1.36 forcats_0.5.1 callr_3.7.0 fastmap_1.1.0
[25] ps_1.6.0 curl_4.3.2 fansi_0.5.0 highr_0.9
[29] broom_0.7.9 Rcpp_1.0.7 clipr_0.7.1 renv_0.14.0-8
[33] scales_1.1.1 backports_1.2.1 fs_1.5.0 hms_1.1.1
[37] digest_0.6.28 processx_3.5.2 grid_4.1.0 cli_3.0.1
[41] tools_4.1.0 magrittr_2.0.1 tibble_3.1.5 crayon_1.4.1
[45] tidyr_1.1.4 pkgconfig_2.0.3 ellipsis_0.3.2 data.table_1.14.2
[49] rmarkdown_2.11 rstudioapi_0.13 R6_2.5.1 compiler_4.1.0

Project ============================

Project path: "~/Documents/School/Data/Organized Analysis (Using Renv)/Test"

Status =============================

The project is already synchronized with the lockfile.

Packages ===========================

             Library Source Lockfile Source Path Dependency

KernSmooth 2.23-20 CRAN [2]
MASS 7.3-54 CRAN [2]
Matrix 1.3-3 CRAN [2]
MatrixModels 0.5-0 CRAN [1]
R6 2.5.1 CRAN [1]
RColorBrewer 1.1-2 CRAN [1]
Rcpp 1.0.7 CRAN [1]
RcppArmadillo 0.10.7.0.0 CRAN [1]
RcppEigen 0.3.3.9.1 CRAN [1]
SparseM 1.81 CRAN [1]
abind 1.4-5 CRAN [1]
backports 1.2.1 CRAN [1]
base64enc 0.1-3 CRAN [1]
bit 4.0.4 CRAN [1]
bit64 4.0.5 CRAN [1]
boot 1.3-28 CRAN [2]
broom 0.7.9 CRAN [1]
callr 3.7.0 CRAN [1]
car 3.0-11 CRAN [1]
carData 3.0-4 CRAN [1]
cellranger 1.1.0 CRAN [1]
class 7.3-19 CRAN [2]
cli 3.0.1 CRAN [1]
clipr 0.7.1 CRAN [1]
cluster 2.1.2 CRAN [2]
codetools 0.2-18 CRAN [2]
colorspace 2.0-2 CRAN [1]
conquer 1.0.2 CRAN [1]
corrplot 0.90 CRAN [1]
cowplot 1.1.1 CRAN [1]
cpp11 0.4.0 CRAN [1]
crayon 1.4.1 CRAN [1]
curl 4.3.2 CRAN [1]
data.table 1.14.2 CRAN [1]
digest 0.6.28 CRAN [1]
dplyr 1.0.7 CRAN [1]
ellipsis 0.3.2 CRAN [1]
evaluate 0.14 CRAN [1]
fansi 0.5.0 CRAN [1]
farver 2.1.0 CRAN [1]
fastmap 1.1.0 CRAN [1]
forcats 0.5.1 CRAN [1]
foreign 0.8-81 CRAN [2]
fs 1.5.0 CRAN [1]
generics 0.1.0 CRAN [1]
ggplot2 3.3.5 CRAN [1]
ggpubr 0.4.0 CRAN [1]
ggrepel 0.9.1 CRAN [1]
ggsci 2.9 CRAN [1]
ggsignif 0.6.3 CRAN [1]
glue 1.4.2 CRAN [1]
gridExtra 2.3 CRAN [1]
gtable 0.3.0 CRAN [1]
haven 2.4.3 CRAN [1]
highr 0.9 CRAN [1]
hms 1.1.1 CRAN [1]
htmltools 0.5.2 CRAN [1]
isoband 0.2.5 CRAN [1]
jquerylib 0.1.4 CRAN [1]
jsonlite 1.7.2 CRAN [1]
knitr 1.36 CRAN [1]
labeling 0.4.2 CRAN [1]
lattice 0.20-44 CRAN [2]
lifecycle 1.0.1 CRAN [1]
lme4 1.1-27.1 CRAN [1]
magrittr 2.0.1 CRAN [1]
maptools 1.1-2 CRAN [1]
markdown 1.1 CRAN [1]
matrixStats 0.61.0 CRAN [1]
mgcv 1.8-35 CRAN [2]
mime 0.12 CRAN [1]
minqa 1.2.4 CRAN [1]
munsell 0.5.0 CRAN [1]
nlme 3.1-152 CRAN [2]
nloptr 1.2.2.2 CRAN [1]
nnet 7.3-16 CRAN [2]
numDeriv 2016.8-1.1 CRAN [1]
openxlsx 4.2.4 CRAN [1]
pbkrtest 0.5.1 CRAN [1]
pillar 1.6.4 CRAN [1]
pkgconfig 2.0.3 CRAN [1]
polynom 1.4-0 CRAN [1]
prettyunits 1.1.1 CRAN [1]
processx 3.5.2 CRAN [1]
progress 1.2.2 CRAN [1]
ps 1.6.0 CRAN [1]
purrr 0.3.4 CRAN [1]
quantreg 5.86 CRAN [1]
readr 2.0.2 CRAN [1]
readxl 1.3.1 CRAN [1]
rematch 1.0.1 CRAN [1]
renv 0.14.0-8 GitHub 0.14.0-8 GitHub [1] direct
reprex 2.0.1 CRAN [1]
rio 0.5.27 CRAN [1]
rlang 0.4.11 CRAN [1]
rmarkdown 2.11 CRAN [1]
rpart 4.1-15 CRAN [2]
rstatix 0.7.0 CRAN [1]
rstudioapi 0.13 CRAN [1]
scales 1.1.1 CRAN [1]
sp 1.4-5 CRAN [1]
spatial 7.3-14 CRAN [2]
stringi 1.7.5 CRAN [1]
stringr 1.4.0 CRAN [1]
survival 3.2-11 CRAN [2]
tibble 3.1.5 CRAN [1]
tidyr 1.1.4 CRAN [1]
tidyselect 1.1.1 CRAN [1]
tinytex 0.34 CRAN [1]
tzdb 0.1.2 CRAN [1]
utf8 1.2.2 CRAN [1]
utils [2] indirect
vctrs 0.3.8 CRAN [1]
viridisLite 0.4.0 CRAN [1]
vroom 1.5.5 CRAN [1]
withr 2.4.2 CRAN [1]
xfun 0.26 CRAN [1]
yaml 2.2.1 CRAN [1]
zip 2.2.0 CRAN [1]

[1]: C:/Users/Kirsten/Documents/Documents/School/Data/Organized Analysis (Using Renv)/Test/renv/library/R-4.1/x86_64-w64-mingw32
[2]: C:/Users/Kirsten/AppData/Local/Temp/RtmpqWm6kF/renv-system-library

User Profile =======================

[no user profile detected]

Settings ===========================

List of 8
external.libraries : chr(0) ignored.packages : chr(0)
package.dependency.fields: chr [1:3] "Imports" "Depends" "LinkingTo" r.version : chr(0)
snapshot.type : chr "implicit" use.cache : logi TRUE
vcs.ignore.library : logi TRUE vcs.ignore.local : logi TRUE

Options ============================

List of 8
defaultPackages : chr [1:6] "datasets" "utils" "grDevices" "graphics" ... download.file.method : chr "wininet"
download.file.extra : NULL install.packages.compile.from.source: chr "interactive"
pkgType : chr "both" repos : Named chr "https://cran.rstudio.com"
..- attr(*, "names")= chr "CRAN"
renv.consent : logi TRUE renv.verbose : logi TRUE

Environment Variables ==============

HOME = C:/Users/Kirsten/Documents
LANG =
MAKE =
R_LIBS =
R_LIBS_SITE =
R_LIBS_USER = C:/Users/Kirsten/Documents/Documents/School/Data/Organized Analysis (Using Renv)/Test/renv/library/R-4.1/x86_64-w64-mingw32;C:/Users/Kirsten/AppData/Local/Temp/RtmpqWm6kF/renv-system-library
RENV_DEFAULT_R_ENVIRON =
RENV_DEFAULT_R_ENVIRON_USER =
RENV_DEFAULT_R_LIBS =
RENV_DEFAULT_R_LIBS_SITE =
RENV_DEFAULT_R_LIBS_USER = C:/Users/Kirsten/Documents/R/win-library/4.1
RENV_DEFAULT_R_PROFILE =
RENV_DEFAULT_R_PROFILE_USER =
RENV_PROJECT = C:/Users/Kirsten/Documents/Documents/School/Data/Organized Analysis (Using Renv)/Test

PATH ===============================

C:\Program Files\R\R-4.1.0\bin\x64
C:\WINDOWS\system32
C:\WINDOWS
C:\WINDOWS\System32\Wbem
C:\WINDOWS\System32\WindowsPowerShell\v1.0\
C:\WINDOWS\System32\OpenSSH\
C:\Program Files\Novell\iPrint
C:\Program Files\Git\cmd
C:\Users\Kirsten\AppData\Local\Microsoft\WindowsApps
C:\Users\Kirsten\AppData\Local\Programs\MiKTeX\miktex\bin\x64\
C:\Users\Kirsten\AppData\Roaming\TinyTeX\bin\win32

Cache ==============================

There are a total of 114 package(s) installed in the renv cache.
Cache path: "C:/Users/Kirsten/AppData/Local/renv/cache/v5/R-4.1/x86_64-w64-mingw32"

kevinushey · October 21, 2021, 8:18pm

Thanks for the bug report -- unfortunately, I was unable to reproduce locally.

One thing you might try; does calling renv::rebuild() in the project help? This will force renv to reinstall any packages installed in the project, which may help alleviate the issue.

nirgrahamuk · October 21, 2021, 8:57pm

If using renv then you shouldn't have this code line in your script. A renv::restore() would be sufficient?

kbevandick · October 21, 2021, 9:33pm

Yes, you are correct. I typically have that line commented out.

kbevandick · October 21, 2021, 9:55pm

IT WORKED!!!! Thank you so much!

system · November 11, 2021, 9:55pm

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