Helper function to harmonize treatment of file import results — .spc_io_postprocess

This function provides two ways of post-processing imported spectra:

.spc_io_postprocess_optional(
  spc,
  filename,
  ...,
  file.remove.emptyspc = hy_get_option("file.remove.emptyspc"),
  file.keep.name = hy_get_option("file.keep.name"),
  tolerance = hy_get_option("tolerance")
)

Arguments

spc: hyperSpec object for file import post-processing.
filename: filename(s) to become extra data column of spc.
...: (ignored).
file.remove.emptyspc: should empty (all NA or all 0) spectra be removed?
file.keep.name: should file names be kept and put into spc$filename?
tolerance: intensities in +/- tolerance are considered 0 for file.remove.emptyspc = TRUE.

Value

hyperSpec object.

Details

optionally remove empty spectra (some spectrograph software will produce empty spectra when measurements are cancelled)
optionally keep the filenames in column spc$filename

The desired overall behavior can be set by options via hy_set_options(). All file import filters should call .spc_io_postprocess_optional() to ensure the same behavior.