sub-architecture 'R' is not installed (in RStudio for certain CRAN package installations)

6
votes

I am using RStudio (Version 0.99.484) and R (Version 3.2.3) on Mac OSX (Version 10.9.5).

Unfortunately, I cannot recall if I did anything to cause these changes, but since about two weeks ago, whenever I try to install certain package from CRAN, upon using the usual syntax:

install.packages("packageName")

I receive an Error Message in RStudio. Here is an example of a new package for which I see this issue:

install.packages("plotly")

Gives me the Error Message:

  There is a binary version available but the source version is later:
       binary source needs_compilation
plotly 2.0.16  3.4.1             FALSE

installing the source package ‘plotly’

  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0  0   343    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
 38 1039k   38  399k    0     0  1724k      0 --:--:-- --:--:-- --:--:-- 1724k100 1039k  100 1039k    0     0  3376k      0 --:--:-- --:--:-- --:--:-- 8521k
* installing *source* package ‘plotly’ ...
** package ‘plotly’ successfully unpacked and MD5 sums checked
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Warning: package ‘ggplot2’ was built under R version 3.2.4
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
*** arch - R
ERROR: sub-architecture 'R' is not installed
*** arch - x86_64
Warning: package ‘ggplot2’ was built under R version 3.2.4
ERROR: loading failed for ‘R’
* removing ‘/Library/Frameworks/R.framework/Versions/3.2/Resources/library/plotly’
Warning in install.packages :
  installation of package ‘plotly’ had non-zero exit status

The downloaded source packages are in
    ‘/private/var/folders/vn/lhzbs8ds6xbg965nnfcj6ftm0000gn/T/RtmpmyVFR4/downloaded_packages’

This has happened for more than one packages (and seems sudden, the past two weeks). However, it does not happen for all packages. I am wondering how to approach this issue given my use of RStudio, Mac OSX, R, etc. I see very few resources when Googling my Error Message "sub-architecture 'R' is not installed".

Upon running R.Version():

$platform
[1] "x86_64-apple-darwin13.4.0"

$arch
[1] "x86_64"

$os
[1] "darwin13.4.0"

$system
[1] "x86_64, darwin13.4.0"

$status
[1] ""

$major
[1] "3"

$minor
[1] "2.3"

$year
[1] "2015"

$month
[1] "12"

$day
[1] "10"

$`svn rev`
[1] "69752"

$language
[1] "R"

$version.string
[1] "R version 3.2.3 (2015-12-10)"

$nickname
[1] "Wooden Christmas-Tree"
1
rerror-handlingrstudio
try utils::install.packages("packageName") – jangorecki
@luckButtered This may be RStudio related issue, RStudio replaces default install.packages (type in RStudio install.packages and utils::install.packages). RStudio may use the same processes in devtools::install_github that's why you may be able to get same error from there. But I'm just guessing. – jangorecki
You could try reinstalling Rstudio after saving all existing packages – Bas
Have you tried (re)installing the packages from source? Note that you'd need the Command Line Tools on Mac OS X. – Roland
Try with dependencies and type. first try without type, use only dependencies: install.packages("packageName", type="mac.binary", dependencies=TRUE) – Nejc Galof

1 Answers

1
votes

In looking at the dependence for Plotly it looks as though it requires a ggplot2 version with R ≥ 3.1. So just update your base R to version 3.1 or newer and it'll work. It isn't your Rstudio but your base R which importantly is different.

If all else fails try installing to windows 10, Rstudio version 0.99.892 and R 3.2.4 as I was not able to replicate this problem using using these versions which happen to be the most up to date.