[Beowulf] slow jobs when run through queue

Chris Samuel chris at csamuel.org
Wed Dec 6 02:39:20 PST 2017

On Wednesday, 6 December 2017 8:09:20 PM AEDT Peter Kjellström wrote:

> If you got only a 4x performance reduction when running a 48x over
> subscribe on 1/48 the amount of cores then something is wrong with
> your base line. That is, the "run without queue system" case seems
> suspicsious.

If this is, as I suspect is likely, bioinformatics code it could well be that 
it is a pipeline type application and only part of the application may be able 
to make use of parallelism (and then might not be very good at it).

All the best,
 Chris Samuel  :  http://www.csamuel.org/  :  Melbourne, VIC

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