out of memory error

[Satish Balay]

This matrix should take approximately 20389756*(8+4)=244677072, i.e
app 250MB ram.

i.e the memory usage [upto 3GB] must be somewere else.

One issue coud be memory leak [due to object not being destroyed
properly]. This can be checked with the option -malloc_dump

Satish

On Fri, 7 Mar 2008, li pan wrote:

> hi Gideon,
> is the matrix big? I used to calculate one with more
> than 1 million rows on a PC equiped with 3 GB memory.
> 
> pan
> 
> 
> --- Gideon Simpson <grs2103 at columbia.edu> wrote:
> 
> > Matrix Object:
> >    type=seqaij, rows=218898, cols=218898
> >    total: nonzeros=20389756, allocated
> > nonzeros=20389756
> >      not using I-node routines
> > 
> > On Mar 6, 2008, at 2:36 AM, li pan wrote:
> > 
> > > hi Gideon,
> > > can I ask you how big is the nonzero allocation of
> > > your sparse matrix?
> > >
> > > pan
> > >
> > >
> > > --- Gideon Simpson <grs2103 at columbia.edu> wrote:
> > >
> > >> I'm getting the following error with some code,
> > >> running on a serial
> > >> machine with, i think, 3 gigs of memory.  Is
> > there
> > >> anyway to
> > >> circumvent this error by being clever, or do I
> > >> really need to go to a
> > >> distributed memory machine?
> > >>
> > >> -gideon
> > >>
> > >> Out of memory trying to allocate 112032952 bytes
> > >> [0]PETSC ERROR:
> > >>
> > >
> >
> ------------------------------------------------------------------------
> > >> [0]PETSC ERROR: Caught signal number 10 BUS: Bus
> > >> Error, possibly
> > >> illegal memory access
> > >> [0]PETSC ERROR: Try option -start_in_debugger or
> > -
> > >> on_error_attach_debugger
> > >> [0]PETSC ERROR: or see
> > >>
> > >
> >
> http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal
> > >>
> > >> [0]PETSC ERROR: or try http://valgrind.org on
> > linux
> > >> or man libgmalloc
> > >> on Apple to find memory corruption errors
> > >> [0]PETSC ERROR: likely location of problem given
> > in
> > >> stack below
> > >> [0]PETSC ERROR: ---------------------  Stack
> > Frames
> > >>
> > >> ------------------------------------
> > >> [0]PETSC ERROR: Note: The EXACT line numbers in
> > the
> > >> stack are not
> > >> available,
> > >> [0]PETSC ERROR:       INSTEAD the line number of
> > the
> > >> start of the
> > >> function
> > >> [0]PETSC ERROR:       is given.
> > >> [0]PETSC ERROR: [0] PCSetUp_HYPRE line 95
> > >> src/ksp/pc/impls/hypre/hypre.c
> > >> [0]PETSC ERROR: [0] PCSetUp line 764
> > >> src/ksp/pc/interface/precon.c
> > >> [0]PETSC ERROR: [0] KSPSetUp line 183
> > >> src/ksp/ksp/interface/itfunc.c
> > >> [0]PETSC ERROR: [0] KSPSolve line 305
> > >> src/ksp/ksp/interface/itfunc.c
> > >> [0]PETSC ERROR: --------------------- Error
> > Message
> > >>
> > >> ------------------------------------
> > >> [0]PETSC ERROR: Signal received!
> > >> [0]PETSC ERROR:
> > >>
> > >
> >
> ------------------------------------------------------------------------
> > >> [0]PETSC ERROR: Petsc Release Version 2.3.3,
> > Patch
> > >> 8, Fri Nov 16
> > >> 17:03:40 CST 2007 HG revision:
> > >> 414581156e67e55c761739b0deb119f7590d0f4b
> > >> [0]PETSC ERROR: See docs/changes/index.html for
> > >> recent updates.
> > >> [0]PETSC ERROR: See docs/faq.html for hints about
> > >> trouble shooting.
> > >> [0]PETSC ERROR: See docs/index.html for manual
> > >> pages.
> > >> [0]PETSC ERROR:
> > >>
> > >
> >
> ------------------------------------------------------------------------
> > >> [0]PETSC ERROR: ./bulk3d on a darwin8.1 named
> > >> valkyrie.appmath.columbia.edu by gideon Wed Mar 
> > 5
> > >> 15:53:26 2008
> > >> [0]PETSC ERROR: Libraries linked from
> > >> /Users/gideon/software/
> > >> petsc-2.3.3-p8/lib/darwin8.11.1-cxx-debug
> > >> [0]PETSC ERROR: Configure run at Thu Jan 10
> > 11:00:45
> > >> 2008
> > >> [0]PETSC ERROR: Configure options
> > >> --with-clanguage=cxx --with-mpi-dir=/
> > >> Users/gideon/software --with-mpi-shared=1
> > --with-x11
> > >> --download-
> > >> hypre=1 --with-hypre=1 --download-umfpack=1
> > >> --with-umfpack=1 --with-
> > >> shared=1 --with-dynamic=1
> > >> [0]PETSC ERROR:
> > >>
> > >
> >
> ------------------------------------------------------------------------
> > >> [0]PETSC ERROR: User provided function() line 0
> > in
> > >> unknown directory
> > >> unknown file
> > >>
> > >>
> > >>
> > >>
> > >
> > >
> > >
> > >       
> > >
> >
> ____________________________________________________________________________________
> > > Never miss a thing.  Make Yahoo your home page.
> > > http://www.yahoo.com/r/hs
> > >
> > 
> > 
> 
> 
> 
>       ____________________________________________________________________________________
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