Parsing command to mothur from shell

Feature requests
1

Hi,
It would be really great if one could parse commands to mothur directly from shell without the need to create a text file.
e.g.

$ mothur summary.seqs(fasta=sequences.fasta) unique.seqs(fasta=sequences.fasta)

This way it would be possible to streamline the work with mothur in concert with other languages/working environments e.g. having a combined bash/mothur or R/mothur codes.

Thanks
Roey

2

You can do that with a command like:

$ mothur “#summary.seqs(fasta=sequences.fasta);unique.seqs(fasta=sequences.fasta);”