[Bioperl-l] Bio::SeqIO::game

[Bradley Marshall]

> These days sequences are getting bigger, not
> shorter. I think it is
> absolutely worthwhile to try to avoid slurping in a
> whole file of
> sequences whenever possible.


Right.  This is the main thing I have avoided.


> 
> I agree. File handles as general streams should be
> supported. This way
> you can pass in a socket or any emulation of a
> stream.

I agree.  As of right now I'm not sure of what it'll
take to support this.

> 
> Unfortunately not. I also don't know the internals
> of the perl SAX
> interface, but in general SAX was exactly defined
> for one-pass
> chunk-by-chunk stream reading. Does the perl SAX
> parser not adhere to
> this concept, or are there pecularities of the GAME
> DTD that prohibit
> this?

Yep.  See other post.

> 
> 	Hilmar
> 
> -- 
>
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> Hilmar Lapp                                email:
> hlapp@gmx.net
> GNF, San Diego, Ca. 92122                  phone: +1
> 858 812 1757
>
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