[Bioperl-l] Call to users/developers -- user cases that bringBioperl to its knees
Kevin.M.Brown at asu.edu
Mon Feb 23 13:10:32 EST 2009
Try loading the Genbank file or files for the human genome.
Last time I tried to load them each chromosome took 30+ minutes to load
and chewed up lots of memory to hold onto them.
> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org
> [mailto:bioperl-l-bounces at lists.open-bio.org] On Behalf Of
> Albert Vilella
> Sent: Monday, February 23, 2009 9:06 AM
> To: bioperl-l
> Subject: [Bioperl-l] Call to users/developers -- user cases
> that bringBioperl to its knees
> Hi all,
> I've discovered the profiling wonders of "perl -d:NYTProf -S" and I
> would like to play with it and Bioperl.
> Can interested users/developers provide a URL with a dataset that
> brings bioperl to its knees in
> terms of CPU usage for say, about 1h?
> Preferably no net access, no calling external programs or other
> complications, just data churning within Bioperl.
> And the data must be public, of course.
> The idea would be to try to identify optimizations in the code that
> could benefit us all,
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