[Bioperl-l] problems parsing EBI interposscan.xml

[Allen Day]

yeah, it should be in there.  i don't have time to do it right now -- feel 
free.  brian, you interested in this?

btw, update on the parse: i am in the process of testing iprscan 4.0, 
which supposedly fixes the invalid xml bug.  there are other issues with 
it though, such as it is missing index files, and files necessary to run 
on a SGE cluster... when i can actually get some output i will post here.

-allen

On Wed, 8 Dec 2004, Hilmar Lapp wrote:

> That was my thought too when I saw it ... didn't want to be the jerk 
> again so I left it where it was ... any comment from the authors?
> 
> 	-hilmar
> 
> On Dec 8, 2004, at 4:35 PM, Robson Francisco de Souza {S} wrote:
> 
> > Hello,
> >
> >
> > On Wed, Dec 08, 2004 at 04:18:34PM -0800, Hilmar Lapp wrote:
> >> It looks you're trying to parse an interpro scan match file with the
> >> InterPro ontology file parser (Bio::OntologyIO). Maybe what you need 
> >> is
> >> the interpro parser in Bio::SeqIO?
> >
> > By the way, wouldn't the SeqIO/interpro.pm be better placed under the
> > FeatureIO hierarchy? It only collects data related to similarity and
> > pattern matches on protein sequences...
> > Just a thought...
> > Cheers,
> > Robson
> >
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> >
>