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

[Ewan Birney]

On Thu, 30 Nov 2000, Hilmar Lapp wrote:

> 
> 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?


It is the GAME DTD which does not provide a "parse unit" tag (I think) and
I think this is a clear bug in GAME. As people have noticed, if we dump
ensembl in GAME (feasible now) then loading the whole thing up in a non
chunk by chunk way will be murder (this is about 10GB of data). 

I would propose that either <game>  </game> becomes an official "parse
unit" tag or that the game people figure out another tag that we can chunk
on...




 > 
> 	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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