parseFiles: Parse files from command-line options

In bedapub/ribiosArg: Argument handling for command-line, stand-alone R scripts

Description

Parse files from command line option, which can be (1) a string vector of files, (2) a file listing input files (e.g. pointer file), (3) a directory, or (4) a zip/tar/gz file (determined by suffix). In the later two cases, file patterns can be specified.

Usage

parseFiles(
  str,
  sep = ",",
  pattern = NULL,
  recursive = TRUE,
  ignore.case = TRUE
)

Arguments

str	A character string
sep	Seperator used in the string
pattern	Pattern string, if given, only files matching the pattern will be returned
recursive	In cse of directory or compressed files, whether files should be found recursively
ignore.case	In case of directory or compressed files, whether case should be ignored

Note

In case of compressed files, a temp dir will be created: the user should take care of cleaning up!

bedapub/ribiosArg documentation built on Nov. 4, 2021, 1:12 p.m.