Is the 2.7GB RAM estimate new for v5?  For v3 and v4, 2GB seems to have been sufficient (using a hard limit on a cluster).  We haven't switched to v5 yet (waiting for 5.1 or 5.2), so would like to know what to expect when we do.

> From: nicks@nmr.mgh.harvard.edu
> To: daniel.geisler@gmail.com
> Date: Wed, 22 Sep 2010 16:50:59 -0400
> CC: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] System requirements
>
> the second option is best because it uses the x86 processor (amd
> opteron), which is our common distribution. the first option uses the
> Itanium processor which we dont actively support because we no longer
> have access to a build machine.
>
> the recon-all stream is not parallelized so you wouldnt benefit from
> multi-cores or any special parallelization hardware. runtime on the amd
> cluster would be about 25 hours per subject, and consume a peak of about
> 2.7GB of ram. each subject consumes around 400MB of hard disk space
> (budget 500MB per subject). negligible temporary hard disk space is
> used.
>
> n.
>
> On Wed, 2010-09-22 at 19:17 +0200, daniel geisler wrote:
> > Dear Freesurfers!
> >
> > I am a new user of freesurfer and I intend to install it on a HPC
> > system. There are two different systems available (see end of
> > message). Could you please give me a hint which one is best suited wrt
> > hardware and software.
> >
> > In order to use these systems one also has to state some estimations
> > of the needed resources. In detail, I have to estimate:
> >
> > * CPU time
> > * maximal number of parallel used CPUs
> > * size of used RAM
> > * size of permanent HDD usage
> > * size of temporary HDD usage
> >
> > Could you share some experience how many resources are usually used
> > for the segmentation (recon-all) of a single subject?
> >
> > Thank you & best wishes from Dresden,
> > Daniel
> >
> > ---
> > 1.SGI Altix 4700 (Mars)
> >
> > * For highly parallel and memory-intensive applications
> > * 2048 cores Intel Itanium II Montecito 1.6 GHz
> > * 6,5 TB memory
> > * One partition for interactive operation with 128 cores
> > * 68 TB SAN disk storage
> > * 1 PB SAN tape archive
> > * SuSE Linux Enterprise Server 10, SGI ProPack 5, batch system LSF
> > * 13,1 TFlop/s peak performance
> >
> > 2. Linux Networx Evolocity II PC-Farm (Deimos)
> >
> > * For capacity computing
> > * 2576 cores AMD Opteron 2,6 GHz
> > * 5,4 TB memory
> > * 724 nodes with 1, 2, or 4 dual-core CPUs each
> > * 68 TB SAN disk storage
> > * SuSE Linux Enterprise Server 10, batch system LSF
> > * 13,9 TFlop/s peak performance
> >
> > For software specification please refer to:
> > http://tu-dresden.de/die_tu_dresden/zentrale_einrichtungen/zih/hpc/hochleistungsrechner/hpc_software?set_language=en&cl=en
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