[BioPython] Clustalw.parse_file errors

[Peter]

On Wed, Aug 6, 2008 at 12:19 AM, Nick Matzke <matzke at berkeley.edu> wrote:
> (My alignment wasn't generated by Clustal anyway, so I also added this
> header line to make the parser happy: "CLUSTAL W (1.83) formatted alignment
> done with PROMALS3D")

I've just tried an alignment from PROMALS3D in their Clustal W output format:
http://prodata.swmed.edu/promals3d/promals3d.php

I tried their default settings, a wrap of 50, and unwrapped long lines
- and with all of these the CVS Biopython Bio.AlignIO parser seems
fine.

However, as you point out, when using Bio.Clustalw there is a problem.
 The missing version number causes an error, which I regard as a bug
worth fixing.

http://bugzilla.open-bio.org/show_bug.cgi?id=2564

Peter