[Bioperl-l] load_seqdatabase didn't load the taxon ids

[Angshu Kar]

Thanks Torsten

On 12/14/05, Torsten Seemann <torsten.seemann at infotech.monash.edu.au> wrote:
>
> > Thanks for your help. But I've loaded the taxon tables.
> > Only thing I'm doing differently is loading my data from a fasta file
> > instead of the genbank, swissprot format. Does that matter anyhow?
>
> A FASTA file usually contains much less non-sequence information than a
> Genbank or Swissprot file. The latter usually
> have /taxon_id, /organism, /strain fields etc which I assume can be used
> to make the correct links in the BioSQL database.
>
> Depending on what is stored in the ">" lines in your FASTA file, you may
> need to write a custom SeqProccesor class, as Hilmar Lapp has mentioned
> before in his replies to you:
>
> See http://bioperl.org/pipermail/bioperl-l/2005-August/019579.html
>
> --
> Torsten Seemann <torsten.seemann at infotech.monash.edu.au>
> Victorian Bioinformatics Consortium
>
>