Expose mutually exclusive parameters in Cutadapt to user

[lina-kim]

In our current q2-turducken implementation of Cutadapt, only one of mutually exclusive flags are exposed to the user. The other option should also be available if ever needed; this applies to both processes CUTADAPT_DEMUX and CUTADAPT_TRIM.

e.g. in CUTADAPT_TRIM, the flag --p-indels is exposed but --p-no-indels is not.

This will be a bigger issue for flags that may filter for reads with or without input sequences.