[Bioperl-l] Out of memory errors running Bio::ASN1::EntrezGeneagainst latest Homo_sapiens.ags file

Hilmar Lapp hlapp at gmx.net
Sat Oct 13 17:49:49 EDT 2007

On Oct 12, 2007, at 2:19 PM, Kevin Brown wrote:

> IIRC most of the IO handlers for BioPerl load entire file contents  
> into memory to process them

As was determined already this most likely isn't the issue here, but  
I'm still confused by your statement. Most BioPerl Bio::SeqIO,  
Bio::ClusterIO, and Bio::OntologyIO parsers read an input file line  
by line, or at least by chunk.

Did you possibly mean something else?

: Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :

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