[Mitgcm-support] Re: mitgcm with limited memory

[mitgcm-support at dev.mitgcm.org]

Arne,

What are messages do you get when you try to run the model?

A.


Arne Biastoch wrote:
> 
> Alistair,
> 
> thanks for the fast answer.
> The problem does seem to be on the machine size. When I do a "size
> mitgcmuv" I get
> 
> cauchy> size -d mitgcmuv
> text    data    bss              dec     hex
> 598016  32768   337077888       337708672       14210680
> 
> That would mean not more than 350 MB, right?
> 
> The limits seem to be ok, too:
> cputime         unlimited
> filesize        unlimited
> datasize        131072 kbytes
> stacksize       32768 kbytes
> coredumpsize    unlimited
> memoryuse       1996800 kbytes
> descriptors     4096 files
> addressspace    4194304 kbytes
> 
> Since the machine has 2GB memory there seem to be another limitation.
> Please note that the model has 450 x 210 x 30 grid points, and I've
> excluded all uncessary packages (except for the new advection/diffusion
> schemes).
> 
> -Arne
> 
> Alistair Adcroft wrote:
> 
> > Arne,
> >
> > First trick is to "disable" unused packages. e.g.
> >
> >  genmake -disable=mom_vecinv,ptracers,shap_filt,zonal_filt,gmredi,kpp,flt
> >
> > This should reduce the size of the executable:
> >
> > % size mitgcmuv
> >    text    data     bss     dec     hex filename
> >  603413   33068 28024384        28660865        1b55481 mitgcmuv
> >
> > Fourth number is size in decimal.
> >
> > % nm --size-sort -t d mitgcmuv
> > ...
> > 00343040 B orlanski_store__
> > 00462336 B tdfields_
> > 00528384 B gw_r__
> > 00528384 B sfp3d_common_r8__
> > 00726016 B cg3d_wk_r__
> > 00792576 B tr1_r__
> > 01585184 B cg3d_r__
> > 03203328 B tave_statevars__
> > 03469568 B grid_r__
> > 03500544 B dynvars_r__
> >
> > This (at least in Linux) shows the memory assigned to each symbol. The ones you
> > see
> > above are the common blocks. DYNVARS_R is approximate 13* a 3-D array (include
> > the
> > overlaps).
> > This will show you what is using up the memory and things that might appear are
> > tave and cg3d which can both be turned off.
> >
> > Also, are you using the C-D scheme or non-hydrostatic? If not #undef them since
> > they use six plus one 3-D arrays.
> >
> > A.
> >
> >
> >
> 
> --
> 
> Dr. Arne Biastoch
> 
> Institute for Marine Research         phone: ++49 431 600-4013
> FB1 Ocean Circulation and Climate     fax  : ++49 431 600-1515
> Duesternbrooker Weg 20                email: abiastoch at ifm.uni-kiel.de
> 24105 Kiel, Germany
> 
> http://www.ifm.uni-kiel.de/to/data/pers/abiastoch.html