[Bioperl-l] Indexing large databases / BioSQL

Bánk Beszteri Bank.Beszteri at awi.de
Mon Apr 28 09:51:53 EDT 2008


Chris Fields schrieb:
>
> ...
>
> You should use 'swiss' format instead of 'embl' when loading 
> Uniprot/SwissProt sequences.  Though on the surface they're similar 
> the feature table (among other things) is completely different.  I'm 
> not sure if that's causing all of the issues here but it certainly 
> could contribute to them.
>
> In the meantime, it's much easier for us to track these problems if 
> you file a bug (BioPerl, file for bioperl-db):
>
> http://bugzilla.open-bio.org/
>
Hi Chris,

I will do so; in the meanwhile: I´m not loading Swissprot, but TrEMBL. 
Is swiss also the appropriate format here? By reading 
http://expasy.org/sprot/userman.html#diffEMBL, I concluded that embl 
should be the one I´d need for TrEMBL.

Bank


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