Shicheng-Guo / rbiotools

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Passing arguments to an R script from command lines with Python Style #32

Open Shicheng-Guo opened 2 years ago

Shicheng-Guo commented 2 years ago

https://www.r-bloggers.com/2015/09/passing-arguments-to-an-r-script-from-command-lines/

#!/usr/bin/env Rscript
library("optparse")

option_list = list(
  make_option(c("-f", "--file"), type="character", default=NULL, 
              help="dataset file name", metavar="character"),
    make_option(c("-o", "--out"), type="character", default="out.txt", 
              help="output file name [default= %default]", metavar="character")
); 

opt_parser = OptionParser(option_list=option_list);
opt = parse_args(opt_parser);