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Update CLI arguments

There are two modes:

  • check a pair of bio files with the --annot and --predict arguments,
  • check several pairs of bio files with the --csv and --folder arguments.

There is a mutually exclusive group between the --annot and --csv arguments but we can still mix other parameters (and use this command for example nerval -c demo/mapping_file.csv -f demo -p demo/toy_test_predict.bio).

Can we use a mutually exclusive group between groups (and not just between parameters)? Or perhaps we can revise this command by always using a folder?