parse_args: Parse command line options (optparse).

In JhuangLab/ngstk: Next-Generation Sequencing (NGS) Data Analysis Toolkit

Description

Parse command line options (optparse).

Usage

parse_args(...)

Arguments

...	Parameters pass to parse_args

Examples

# example from vignette
option_list <- list(
  make_option(c('-v', '--verbose'), action='store_true', default=TRUE,
      help='Print extra output [default]'),
  make_option(c('-q', '--quietly'), action='store_false',
      dest='verbose', help='Print little output'),
  make_option(c('-c', '--count'), type='integer', default=5,
      help='Number of random normals to generate [default %default]',
      metavar='number'),
  make_option('--generator', default='rnorm',
      help = 'Function to generate random deviates [default \'%default\']'),
  make_option('--mean', default=0,
      help='Mean if generator == \'rnorm\' [default %default]'),
  make_option('--sd', default=1, metavar='standard deviation',
      help='Standard deviation if generator == \'rnorm\' [default %default]')
  )
parse_args(opt_parser(option_list = option_list), args = c('--sd=3', '--quietly'))

JhuangLab/ngstk documentation built on May 28, 2019, 12:43 p.m.