From marc_schwartz at me.com  Wed Mar  3 20:46:34 2010
From: marc_schwartz at me.com (Marc Schwartz)
Date: Wed, 03 Mar 2010 13:46:34 -0600
Subject: [Rd] Rmpi on CentOS (64bit)
In-Reply-To: <alpine.LFD.2.00.1003031921550.29730@gannet.stats.ox.ac.uk>
References: <20100303065320.GA633@slingshot.co.nz>
	<alpine.LFD.2.00.1003030732430.11176@gannet.stats.ox.ac.uk>
	<20100303191529.GB633@slingshot.co.nz>
	<alpine.LFD.2.00.1003031921550.29730@gannet.stats.ox.ac.uk>
Message-ID: <37BEE6C2-9F37-48E8-BCDC-76938913AC73@me.com>

On Mar 3, 2010, at 1:24 PM, Prof Brian Ripley wrote:

> On Thu, 4 Mar 2010, Patrick Connolly wrote:
> 
>> On Wed, 03-Mar-2010 at 08:42AM +0000, Prof Brian Ripley wrote:
>> 
>>> There are many different versions of OpenMPI about.  It looks like
>>> you have one that is set up for specialized hardware.  Either this
>>> is the wrong version or a configuration error, and you will need to
>>> talk to your 'local System Administrator'.
>> 
>> He knows less about it (MPI, at least) than I do.  Perhaps this is
>> 'specialized hardware' in that it's a dual quad-core processor machine
>> -- but I'd have thought that's not particularly special nowadays.
> 
> No, it is high-speed interconnects, used in high-performance clusters.
> 
>> I notice that my Fedora installation has no dat.conf file.  Perhaps
>> it pertains to something special on the CentOS machine.  I can't
>> check the CentOS machine right now, but at one time, I did find the
>> rpm that is associated with the dat.conf file.  Fedora seems not to
>> need that one.
> 
> It does if you have that sort of hardware (and we do on one of the clusters we use).
> 
>>> Incidentally, you should not have to set LD_LIBRARY_PATH, but I
>> 
>> It might not be elegant, but at least it got over that problem.  Is
>> there any possibility that doing it so inelegantly has a bearing on
>> the issues I have now?
> 
> Unlikely, unless you got the wrong libmpi.
> 
>>> frequently have had to add configuration files in /etc/ld.so.conf.d,
>>> including for openmpi on Fedora 12. On Fedora 10 (but not 12) MPI was
>> 
>> Fedora 11 would appear to be like F12.  I'll check later if CentOS is
>> more like the way F10 was.

<snip>

Patrick, just as an FYI, I did not see which variant of CentOS you are using, but:

CentOS 4, which is based upon RHEL 4, is in turn based upon Fedora Core 3 (2004).

CentOS 5, which is based upon RHEL 5, is in turn based upon Fedora Core 6 (2006).

So to reinforce, there is a substantial and intentional lag between RHEL/CentOS and Fedora. Recall that RHEL and CentOS are targeted for stable server use, whereas Fedora is a bleeding edge distro.

HTH,

Marc Schwartz



[Rd] Rmpi on CentOS (64bit)
Marc Schwartz