How to pass arguments to bash chunk defined as variables in R?

[Dobrokhotov1989]

Cross-posted

I want to use variables defined in R environment as an argument in the bash chunk. Is there any way to do that?

For instance, in the examples below I want to use R to define the path to the script and pass it as an argument to bash:

```{r}
path_to_script <- glue("{here::here()}/bash_scripts/script.sh")
\```

```{bash}
bash  **path_to_script**
\```

[pieterjanvc]

Hi,

I'm assuming you're on a linux machine since you're using shell scripts, and in my experience the easiest way is using the system() function.

For example:

system("date")

will output the date to the console. If you like to capture the output text to an R variable:

var = system("date", intern = T)

So if you like to run a script with some arguments can you just do:

arg1 = 10
command = sprintf("path/to/script/script.sh -x %i", arg1)

system(command)

Hope this helps,
PJ

[Dobrokhotov1989]

Thank you, @pieterjanvc!
Why don't I think of this simple solution myself?

Just in case, I'm on Windows. And I'm using shell script because it works and I don't know alternatives))