[Bioperl-l] out of memory issue

shalabh sharma shalabh.sharma7 at gmail.com
Wed Apr 28 19:05:22 EDT 2010


Thanks for all the valuable suggestions.
I solved the problem by using DB file and BTREE as suggested by Mark . I
will also give a try using SQLite.

Thanks
SHalabh


On Wed, Apr 28, 2010 at 6:16 PM, Chris Fields <cjfields at illinois.edu> wrote:

> Agreed.  I use SQLite quite frequently for bits like this. In fact, Mark
> wrote up a DB_File-like interface for SQLite along those lines, with a tied
> interface:
>
> http://search.cpan.org/perldoc?SQLite_File
>
> chris
>
> On Apr 28, 2010, at 5:05 PM, Dan Kortschak wrote:
>
> > Have you considered using a backend database for this? It will scale
> > better if you want to generalise the problem.
> >
> > Dan
> >
> > On Wed, 2010-04-28 at 12:00 -0400, shalabh.sharma7 at gmail.com wrote:
> >> Hi,
> >> @ Andreas: Actually that is kind of search thing, i am making that
> >> hash so i
> >> can search values out of it.
> >> I will try to look what Dave and Mark has suggested , if it doesn't
> >> work
> >> then i will use some other alternative like batches.
> >>
> >> Thanks
> >> Shalabh
> >
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
>
>


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