Updating packages to R 3.6.0

R has recently updated to 3.6.0 and as you may or may not know it means that all packages with compiled parts (i.e., packages with C or C++) in them must be re-installed in order to be used. Some of the packages you had in 3.5.x might still work, but it’s always a good idea to update them as well.

So today, when R has updated itself through Linux magic, I found myself re-installing packages by hand. After typing install.packages way too many times, I’ve finally thought to myself: “This is ridicolous, why don’t I automate this”.

Source: https://xkcd.com/1319/

But at least in this case it was more like this:

Source: https://xkcd.com/1205/

That is all to say, that here is a small script that you can use to do the same thing, but much faster than me.

# this makes it easier, so why not install these 
# packages anyways upfront
install.packages(c("magrittr", "fs", "purrr", "stringr"))

# this is a path for your 3.5 library. 
# You can also use `libPaths()` to see where its at.
path <- "/path/to/R/x86_64-pc-linux-gnu-library/3.5/"


installed_before <- fs::dir_ls(path = path) %>% 
  purrr::map_chr(~stringr::str_remove(.x, path)) %>% 
  unlist() %>% 

installed_already <- as.data.frame(installed.packages()) %>% 
  `[[`("Package") %>% 

to_install <- setdiff(installed_before, installed_already)


non_cran_packages <- as.data.frame(installed.packages()) %>% 
  `[[`("Package") %>% 
  as.character() %>%
  {setdiff(installed_before, .)}

The script will leave you with the non_cran_packages character vector that you need to install by hand since there is no canonical place to look for them.


There aren't any comments yet. Be the first to comment!

Leave a comment

Thank you

Your comment has been submitted and will be published once it has been approved.



Your post has not been submitted. Please return to the form and make sure that all fields are entered. Thank You!