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<div class="moz-cite-prefix">No, this is clear a general x86 issue.
It's described in many places on the web and I can easily
reproduce it on my hex-core Haswell workstation.<br>
<br>
Cheers,<br>
<br>
Berk<br>
<br>
On 09/15/2015 05:26 PM, Mark Abraham wrote:<br>
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cite="mid:CAMNuMAR--S9r2XioF4X9-k+ipEOsWnDpYtt5120uaTDWtm_krg@mail.gmail.com"
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<div dir="ltr">Hi,
<div><br>
</div>
<div>Jenkins mostly runs non-pinned mdrun, and under heavy load
we probably see more thread migration, and thus such de-sync
events. I've only seen the issue on slaves hosted under VM, so
I think it's not clear that this is an x86, rather than VM+x86
property.</div>
<div><br>
</div>
<div>Load is heavy lately because we're running multiple
master-branch configs while getting the new releng machinery
stable. We envisaged a few days that's now been over a week,
and barring this unforeseen issue, I think we're more or less
happy with things now. Teemu is there value in dealing with
more of the releng patches in gerrit before we disable the old
master-branch configs?</div>
<div><br>
</div>
<div>Mark</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr">On Tue, Sep 15, 2015 at 5:17 PM Berk Hess <<a
moz-do-not-send="true" href="mailto:hess@kth.se"><a class="moz-txt-link-abbreviated" href="mailto:hess@kth.se">hess@kth.se</a></a>>
wrote:<br>
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<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">Hi,<br>
<br>
We didn't realize that modern x86 cpus no longer synchronize
clocks<br>
between cores. We should get the fix for this merged asap:<br>
<a moz-do-not-send="true"
href="https://gerrit.gromacs.org/#/c/5091/" rel="noreferrer"
target="_blank">https://gerrit.gromacs.org/#/c/5091/</a><br>
<br>
Cheers,<br>
<br>
Berk<br>
<br>
On 09/15/2015 05:06 PM, David van der Spoel wrote:<br>
> Hi,<br>
><br>
> my patch stumbled over this issue in Jenkins:<br>
><br>
> Program: gmx mdrun, VERSION
5.2-dev-20150915-ef00eb4-local<br>
> Source file: src/gromacs/timing/wallcycle.cpp (line 398)<br>
> Function: void subtract_cycles(wallcc_t *, int, int)<br>
><br>
> Assertion failed:<br>
> Condition: wcc[ewc_main].c >= wcc[ewc_sub].c<br>
> Subcounter cannot have more ticks than parent<br>
><br>
> For more information and tips for troubleshooting, please
check the<br>
> GROMACS<br>
> website at <a moz-do-not-send="true"
href="http://www.gromacs.org/Documentation/Errors"
rel="noreferrer" target="_blank">http://www.gromacs.org/Documentation/Errors</a><br>
><br>
> Any clue? Or is this assertion just overly pedantic?<br>
<br>
--<br>
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