[Bioperl-guts-l] [Bug 2559] Out of memory with large seqs (malloc error)

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Fri Nov 21 00:01:54 EST 2008


cjfields at bioperl.org changed:

           What    |Removed                     |Added
             Status|NEW                         |RESOLVED
         Resolution|                            |WONTFIX
            Summary|Out of memory (malloc error)|Out of memory with large
                   |                            |seqs (malloc error)

------- Comment #3 from cjfields at bioperl.org  2008-11-21 00:01 EST -------
I don't see this being accomplished using the current Bio::Seq implementation,
sorry.  We would need to have a new class which could deal with lazy
calculations so as not to tank memory, but as Jason mentioned a C-based
solution (or similar) is probably the best idea.

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