Wrapper function for bzip2

bzip2(
  fileToBzip2,
  bzip2 = "Bzip2",
  keep = TRUE,
  force = FALSE,
  small = FALSE,
  blockSize = 1,
  stderr = file.path(dirname(fileToBzip2), paste0(basename(fileToBzip2),
    "_Bzip2_stderr.txt")),
  stdout = file.path(dirname(fileToBzip2), paste0(basename(fileToBzip2),
    "_Bzip2_stdout.txt")),
  useClipRConda = ifelse(is.null(getOption("CLIPflexR.condaEnv")), FALSE, TRUE),
  additional_Args = NULL,
  verbose = FALSE
)

Arguments

fileToBzip2: path to file to bzip.
bzip2: path to bzip2.
keep: keep (don't delete) input files, TRUE (default) or FALSE.
force: overwrite existing output files.
small: use less memory (at most 2500k).
blockSize: set block size to 100k .. 900k.
stderr: path to stderr file.
stdout: path to stdout file.
useClipRConda: use conda environment installed by Herper, TRUE (default) or FALSE.
additional_Args: additional arguments to be passed to system call.
verbose: print messages to screen, TRUE or FALSE (default).

Value

path to bzipped file.

Author

Kathryn Rozen-Gagnon