AW: inconsistency between "Benchmark" and "Timing" output

From: Norman Geist (norman.geist_at_uni-greifswald.de)
Date: Tue Nov 26 2013 - 01:08:31 CST

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Norman Geist.

> -----Ursprüngliche Nachricht-----
> Von: owner-namd-l_at_ks.uiuc.edu [mailto:owner-namd-l_at_ks.uiuc.edu] Im
> Auftrag von Vlad Cojocaru
> Gesendet: Montag, 25. November 2013 16:09
> An: NAMD
> Betreff: namd-l: inconsistency between "Benchmark" and "Timing" output
>
> Dear all,
>
> I am facing some weird performance issue with NAMD (CVS code from
> 2013-10-02 compiled with intel compiler 13.0 and intel mpi 4.1.0).
> Below are the "Benchmark" and "Timing" outputs. You will notice some
> weird jumps in performance during some time chuncks ...
>
> I am running on an intel-based cluster with infiniband.
>
> Does anybody have any idea what can cause this ?
>
> Best wishes
> Vlad
>
>
>
> Info: Benchmark time: 320 CPUs 0.0065802 s/step 0.0507731 days/ns
> 657.715 MB memory
> Info: Benchmark time: 320 CPUs 0.00668338 s/step 0.0515693 days/ns
> 657.715 MB memory
> Info: Benchmark time: 320 CPUs 0.00624472 s/step 0.0481846 days/ns
> 657.715 MB memory
> Info: Benchmark time: 320 CPUs 0.00594146 s/step 0.0458446 days/ns
> 657.715 MB memory
> Info: Benchmark time: 320 CPUs 0.00611934 s/step 0.0472171 days/ns
> 657.715 MB memory
> Info: Benchmark time: 320 CPUs 0.00609806 s/step 0.0470529 days/ns
> 657.715 MB memory
>
>
> TIMING: 83046000 CPU: 194.989, 0.00685107/step Wall: 194.989,
> 0.00685107/step, 0.14844 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83048000 CPU: 207.793, 0.0064024/step Wall: 207.793,
> 0.0064024/step, 0.135162 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83050000 CPU: 220.836, 0.00652158/step Wall: 220.836,
> 0.00652158/step, 0.134055 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83052000 CPU: 282.356, 0.0307597/step Wall: 282.356,
> 0.0307597/step, 0.615194 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83054000 CPU: 295.411, 0.00652754/step Wall: 295.411,
> 0.00652754/step, 0.126924 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83056000 CPU: 317.971, 0.0112801/step Wall: 317.971,
> 0.0112801/step, 0.213069 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83058000 CPU: 330.732, 0.00638029/step Wall: 330.732,
> 0.00638029/step, 0.116972 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83060000 CPU: 384.659, 0.0269637/step Wall: 384.659,
> 0.0269637/step, 0.479355 hours remaining, 665.828125 MB of memory in
> use.
> TIMING: 83062000 CPU: 397.824, 0.0065825/step Wall: 397.824,
> 0.0065825/step, 0.113365 hours remaining, 666.015625 MB of memory in
> use.
> TIMING: 83064000 CPU: 410.618, 0.00639666/step Wall: 410.618,
> 0.00639666/step, 0.106611 hours remaining, 666.015625 MB of memory in
> use.
>
> --
> Dr. Vlad Cojocaru
> Max Planck Institute for Molecular Biomedicine
> Department of Cell and Developmental Biology
> Röntgenstrasse 20, 48149 Münster, Germany
> Tel: +49-251-70365-324; Fax: +49-251-70365-399
> Email: vlad.cojocaru[at]mpi-muenster.mpg.de
> http://www.mpi-muenster.mpg.de/research/teams/groups/rgcojocaru

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