Tony, if you need help formulating regular expressions, let me know.


On Mon, Dec 9, 2013 at 11:28 AM, Tony <notifications@github.com> wrote:

> In qiime/extract_barcodes.py:
>
> > +        raise ValueError,("No reverse primers detected in mapping file.")
> > +
> > +    for curr_primer in all_forward_primers:
> > +        all_forward_rc_primers.update([DNA.rc(curr_primer)])
> > +    for curr_primer in all_reverse_primers:
> > +        all_reverse_rc_primers.update([DNA.rc(curr_primer)])
> > +
> > +    # Finding the forward primers, or rc of reverse primers indicates forward
> > +    # read. Finding the reverse primer, or rc of the forward primers, indicates
> > +    # the reverse read, so these sets are merged.
> > +    all_forward_primers.update(all_reverse_rc_primers)
> > +    all_reverse_primers.update(all_forward_rc_primers)
> > +
> > +    return all_forward_primers, all_reverse_primers
> > +
> > +def expand_degeneracies(raw_primers):
>
> Actually will try to remove this function and use regular expression
> matches instead.
>
> —
> Reply to this email directly or view it on GitHub<https://github.com/qiime/qiime/pull/1236/files#r8206677>
> .
>