You can use this script with the following example:
  Rscript inst/scripts/prepare_params.R

Usage:
  prepare_params.R  [--fil-pat=<fil-pat>] [--gnps-id=<gnps-id>] [--gnps-workflow=<gnps-workflow>] [--ms-pol=<ms-pol>] [--org-tax=<org-tax>]

Arguments:
  fil-pat                    Pattern to identify the files. STRING
  gnps-id                    GNPS job ID. STRING
  gnps-workflow              Workflow used within GNPS. Currently "fbmn" or "classical" supported. STRING
  ms-pol                     Polarity used. Must be "pos" or "neg". STRING
  org-tax                    OPTIONAL. Force all features to be attributed to given taxon. Example: "Homo sapiens". STRING

Options:
  -h --help                  Shows this screen.
  -v --version               Shows version.