Peter Cock | 5 Oct 11:50 2013

Re: can't get seq with bioperl

On Wed, Sep 25, 2013 at 11:07 PM, Danyu Wu <danyuwu <at> hotmail.com> wrote:
>
> Hello,
>
> I can not get the seq from a genbank format entry using
> bioperl when both CONTIG and ORIGIN are present.  Any
> help is greatly appreciated!
>

See point [2] in this NCBI RefSeq announcement:
http://www.ncbi.nlm.nih.gov/mailman/pipermail/refseq-announce/2013q3/000110.html

Scott Markel raised this potential issue in July,

http://lists.open-bio.org/pipermail/bioperl-l/2013-July/037427.html
http://lists.open-bio.org/pipermail/bioperl-l/2013-July/037428.html

I'd fixed this in Biopython but it sounds like BioPerl may
still need updating.

Regards,

Peter

Gmane