[Beowulf] Docker in HPC

Peter Clapham pc7 at sanger.ac.uk
Wed Nov 27 07:49:14 PST 2013

Not at all. The restriction / affinity of jobs / process to a given core 
or core subset is very much in mind. Memory management is also 
potentially rather useful. In the case of most schedulers the memory 
used is obtained via a poll report.

The enforcement of the memory limit has to date either been via wrapping 
jobs on startup by the scheduler with ulimit or via a local daemon 
sending a kill command when it notices that the job or job component 
exceeded the initial set limits.

Both the above approaches have limitations which can confuse users. The 
CGROUP approach seems to effectively take on the roll of ulimits on 
steroids and allows for accurate memory tracking and enforcement. This 
ensures that the job output includes the actual memory usage when killed 
as well as ensuring that the job cannot break the set limits.


On 27/11/13 15:39, John Hearns wrote:
> I use cpusets very successfully.
> I rather idly wonder if on a cluster with manycore nodes (such as we 
> have these days) if cgroups should be used to keep the OS processes on 
> the first core,
> and  as Igor says let the scheduler run the applications in separate 
> cgroups.
> The aim being to reduce 'OS jitter'  .
> I suppose it depends on the application being run of course.
> Apologies if I am, yet again, wittering.
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