[Bioperl-l] perl memory problem

[James D. White]

Sorry about the repost.  I forgot to fix the Subject line the first time.

Jim White

"James D. White" wrote:

> Compiling a 64-bit version of Perl on Solaris is easy.  The hard part is
> getting 64-bit versions of all
> of the prerequisites built properly, but it can be done.  Check out
> <http://aspn.activestate.com/ASPN/Mail/Message/perl-tk/2848095> for some
> notes I wrote about
> building a 64-bit version of Perl 5.8.5 under Solaris 9 with gcc. Once
> you get the 64-bit C libraries
> and the 64-bit non-pure Perl modules built, the main Bioperl installs
> easily.
>
> Jim White
>
> >Date: Thu, 27 Oct 2005 21:11:59 +0200
> >From: J?r?my JUST <jeremy_just at netcourrier.com>
> >Subject: Re: [Bioperl-l] perl memory problem
> >To: bioperl-l at portal.open-bio.org
> >Message-ID: <20051027211159.000025ac at pearson.infobiogen.fr>
> >Content-Type: text/plain; charset=ISO-8859-15
> >
> >On Wed, 26 Oct 2005 11:55:23 -0400
> >Zaigang Liu <Zaigang.Liu at usa.dupont.com> wrote:
> >
> >
> >
> >>> The process always stops and gives a "out of memory" error when the
> >>> memory usage reached about 2G. I used a solaris machine with 40G memory
> >>> so it is not really run out of memory when the program stopped.
> >>
> >>
> >
> >  Are you using a 32 bits Perl binary? To check, use:
> >
> >$ file `which perl`
> >
> >
> >  If you get something like:
> >
> >/usr/bin/perl:  ELF 32-bit MSB executable SPARC Version 1, dynamically linked, stripped
> >
> >then you should compile another binary, in 64 bits.
> >
> >
> > -- Jérémy JUST <jeremy_just at netcourrier.com>
> > ------------------------------
> >

--
James D. White   (jdw at ou.edu)
Director of Bioinformatics
Department of Chemistry and Biochemistry/ACGT
University of Oklahoma
101 David L. Boren Blvd., SRTC 2100
Norman, OK 73019
Phone: (405) 325-4912, FAX: (405) 325-7762