AMBER Archive (2009)

Subject: Re: [AMBER] What is the parallel efficiency of amber10

From: Tom Joseph (ttjoseph_at_gmail.com)
Date: Mon Jun 08 2009 - 01:07:29 CDT

Efficiency depends, among other things, on the size of your simulated
system and the latency of your network interconnect. For large numbers
of atoms and something better than Ethernet with modern CPUs, the
efficiency/wallclock time tradeoff will likely be worth it. The best
way to answer this question is simply to try it yourself.

--Tom

On Sun, Jun 7, 2009 at 10:19 PM, Catein Catherine<askamber23_at_hotmail.com> wrote:
>
> Dear Sir/Madam,
>
>
>
> Could you mind to share your experience with me about the parallel efficiency of amber10.  It seems to me  that we can run AMBER10 efficiently in 8 processors on the same node.
>
>
>
> However, the jobs may have problem to run on 2 nodes with 8 processors each.
>
>
>
> Is it better to do the sander within the same node?  Could you pls kindly share your experiences with me?
>
>
>
> Best regards,
>
>
>
> Cat
>
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