How do you run a script from the command line for batch processes?

[dmkahler]

The question was posed, how to run a script such that it can be run as a batch command.

[dmkahler]

Run a script in the command line by entering:

r -f peaktest.r

For more information: https://cran.r-project.org/doc/manuals/R-intro.html#Invoking-R-from-the-command-line

Then construct a batch command using vi editor and chmod 777 (linux, unix, MacOS).

[dmkahler]

Another way to set up a batch file is with functions within R. This may be preferable if you need to pass command options to your script on each iteration. Set up your script as a function:

command_name <- *function*(input){  
     for (i in 1:100) {
          print(i)  
     }  
     output <- Sys.time()  
     return(command_name)  
}  

I like to save every function in its own R script called command_name.R.

Then, call your function in another R script:

for (i in 1:100) {  
     output <- command_name(input[i])  
}