Unable to Install zoo and tidyverse

[beapamittan]

I'm unable to install the packages zoo and tidyverse on Rstudio. This is the error message that I've received:

Warning in install.packages :
error in running command
Warning in install.packages :
'tar' returned non-zero exit code 127
sh: tar: command not found
Error in install.packages : file ‘/var/folders/nw/ggs20txx4sxbhjfhrlg91nfr0000gn/T//RtmpItObUX/downloaded_packages/fastmap_1.1.1.tgz’ is not a macOS binary package

I have tried uninstalling and installing R and RStudio again as suggested from other previous questions I've seen, even older versions as well - R 4.2.3 and R 3.6.3. I have currently re-installed the latest compatible version for my laptop - R 4.3.1 (the one I initially started with)

For context, my laptop is a Macbook Pro mid-2014 running on macOS Big Sur 11.7.8. Any help wit h this error would be much appreciated. Also, if it's an issue with how old my laptop is, please let me know. Thanks!

[technocrat]

@beapamittan

sh: tar: command not found

This indicates that the $PATH that the RStudio program is using doesn't include /usr/bin, which is where the tar program is to be found. You can confirm this with

Sys.which("tar")

Using the system Terminal.app or iterm.App, try

which tar

and if the correct path, /usr/bin/tar is returned you should be able to open an R session in the terminal or in the separate R.app installed with R to do the install.packages().

[beapamittan]

Thanks! I've tried your solution and this is what I got:

On RStudio:

Sys.which("tar")
tar
""

On Terminal:
Bea$ which tar
-bash: which: command not found

I was not able to get the path returned to me, is there another way to troubleshoot this? Thank you.

[technocrat]

In the terminal again

ls -l /usr/bin | grep which

which should get you similar to this

-rwxr-xr-x 1 root wheel 134208 Jun 15 03:08 which

Likewise

ls -l /usr/bin | grep tar

These should be present by default. Since they are not showing up with which then it is the $PATH environment to check next. Mine looks like

echo $PATH
/Users/ro/.volta/bin:/opt/homebrew/Cellar/python@3.10/3.10.9/bin:/Applications/CMake.app/Contents/bin:/opt/homebrew/bin:/Users/ro/.cargo/bin:/Applications/Julia-1.9.app/Contents/Resources/julia/bin/julia:/usr/local/go/bin:/usr/local/mysql-8.0.28-macos11-x86_64/bin:/bin:/usr/bin:/usr/local/bin:/usr/sbin:/sbin:/Users/ro/.local/bin:/Library/TeX/Root/bin/universal-darwin:/Library/TeX/Root/bin/universal-darwin/pdflatex

somewhere there must be :/usr/bin:.

Do you how to edit your .zshrc to add it if it's missing?

[beapamittan]

Thank you! We might be getting somewhere now. Unfortunately, grep command cannot be found.

(base) Beas-MacBook-Pro-2:~ Bea$ ls -l /usr/bin | grep which

-bash: grep: command not found

(base) Beas-MacBook-Pro-2:~ Bea$ ls -l /usr/bin | grep tar

-bash: grep: command not found

However, when typing echo $PATH, I get below:

(base) Beas-MacBook-Pro-2:~ Bea$ echo $PATH

/opt/anaconda3/bin:/bin:/condabin:/usr/local/mysql/bin

I did install SQL a few years ago and may have manipulated some things that I don't quite remember. How can I correct the path for R?

And sorry I don't know how to edit my .zshrc if it is missing, would you be able to advise? Thanks so much for helping out.

[technocrat]

Anaconda might be to blame. So, take a deep breath and we'll edit your $PATH from the terminal, using the nano editor. The commands of the bottom of its screen, such as ^X mean using the control key and the letter in combination.

First, as a just-in-case,

/usr/bin/cp .zshrc .zshrc.SAV

and if necessary to claw back to where you were

/usr/bin/mv .zshrc.SAV .zshrc

(note the leading period .

Now open for editing in your home directory

cd
/usr/bin/nano .zshrc

and look for the line like this one

export PATH="$PATH:opt/anaconda3/bin:/bin:/condabin:/usr/local/mysql/bin"

and edit it to read

export PATH="$PATH:/bin:/usr/bin:/usr/local/bin:/usr/sbin:/sbin:opt/anaconda3/bin:/bin:/condabin:/usr/local/mysql/bin"

all in one line followed by at least one blank line

Save and exit and then check that it's there

/usr/bin/cat .zshrc

followed by

source .zshrc

and now try

which tar

Let me know?