On 7 Apr 2008, at 10:52, Alessio Moscato wrote:
> Hi all,
>
> I'm trying to install SGE on my linux (SuSE 10.2) machine following
> the
> tutorials on fsl wiki page
> (https://www.fmrib.ox.ac.uk/phpwiki/index.php/FslSge). Unfortunately
> i'm
> experimenting some problems. Probably these problems arise from a not
> perfect knowledge about a linux system.
> My first aim is to install sge to parallelize fdt on both the cpu i
> have on
> my pc.
> So the first question is: am I right?
SGE is suitable, but possibly overkill, for parallelising on a single,
multi-core, machine. While SGE, or similar, is essential for managing
clusters of multiple users and multiple machines, you could do things
a bit simpler on a single machine. For starters simply processing two
discrete subjects at a time. The builtin unix "batch" program might be
able to achieve this. My FC5 machine has a batch which "...executes
commands when system load levels permit; in other words, when
the load average drops below 0.8..."
BedpostX is about the only program we actually parallelise within a
subject analysis the rest of our SGE usage just manages distributing
serial tasks over a cluster as a compute-farm. If you want to do this
you'd need to look at bedpostx_*.sh scripts for inspiration.
NB. You probably already realise this but: if you parallelise on
single dual-core host you will only get results twice as quickly at a
cost of making the machine virtually unusable for anything else during
the run. If this is your desktop machine this may not be worth the cost.
> My second problem is that the SGE installation failed. An error
> message
> comes out saying that the machine default ip (127.0.0.1) is not valid.
This looks like a networking ambiguity regarding localhost/hostname
definition in your OS setup. How are you referring to your computer in
the SGE setup: localhost; hostname; hostname@domain-name? The address
resolver will try to match the name to an address in your local hosts
file, NIS maps, or DNS server, etc., to decide how to contact the
host. If this isn't setup correctly then SGE won't work. You may need
to get some local IT support as this will depend heavily on how your
local sys-admin has configured the networking.
Cheers, Dave
--
Dave Flitney, IT Manager
Oxford Centre for Functional MRI of the Brain
E:[log in to unmask] W:+44-1865-222713 F:+44-1865-222717
URL: http://www.fmrib.ox.ac.uk/~flitney
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