[gmx-users] MPI flavours

[Andrea Carotti]

Hi all,
I've found some usefull settings that gained a lot my performances using 
mpich 1.2.5 on a gigabit ethernet dual xeon cluster.
After compiling the mpich using also this configure flags:
--with-pkt-size=524288
--with-comm=shared
I've set the this variable in my .tcshrc using 'setenv P4_SOCKBUFSIZE 
524288'
and I've added these two lines by root in /etc/sysctl.conf
net.core.rmem_max=1048576
net.core.wmem_max=1048578
...reboot....
Now the latency is hardly reduced....so I'm happy. ;-)
Bye
Andrea


----- Original Message ----- 
From: "Alan Dodd" <anoddlad at yahoo.com>
To: "Discussion list for GROMACS users" <gmx-users at gromacs.org>
Sent: Wednesday, February 01, 2006 2:48 PM
Subject: Re: [gmx-users] MPI flavours


> Our cluster at Bristol uses mpich 1.2.5.  Gromacs
> works OK with it, runs are unstable (connections have
> a habit of dropping off the network temporarily every
> week or two), processes cannot be properly
> backgrounded and scaling works poorly with more than a
> handful of nodes, but it does work.  I've no idea how
> easy it was to compile.
>
> --- Mark Abraham <Mark.Abraham at anu.edu.au> wrote:
>
>> Andrea Carotti wrote:
>> > Hi all,
>> > a simple and direct question: has anyone tried
>> other flavours of mpi
>> > such as mpich 2 within gromacs?
>> > Does it compile?what about the performances?
>>
>> People have tried and have reported problems on this
>> list. LAM is
>> recommended. Check out the installation guide, FAQ
>> and mailing list
>> archives, all on the gromacs website.
>>
>> Mark
>> _______________________________________________
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>
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