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<p>Dimitris,</p>
<p>I've done many runs with obcs cut-out from a global setup, but
never had this issue before. So I don't think other setups would
help me much, but they might be of use to others.</p>
<p>My code directory is pretty simple, there's hardly anything
changed in there and the same code directory (apart from changes
in the size of the vertical grid) have been used successfully
before.</p>
<p>How do I compile and link with array-bound checks turned on? I
haven't tried that before...</p>
<p>cheers,</p>
<p>Andreas<br>
</p>
<br>
<div class="moz-cite-prefix">On 18/05/18 23:04, Dimitris Menemenlis
wrote:<br>
</div>
<blockquote type="cite"
cite="mid:7779f301-dd83-4b0e-7988-5b916e51ed44@jpl.nasa.gov">
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charset=windows-1252">
Andreas, I have done something similar quite a few times (i.e.,
increase <br>
horizontal and/or vertical resolution in regional domains with
obcs <br>
cut-out from a global set-up) and did not have same issue. If
helpful I <br>
can dig out and commit to contrib some examples that you can
compare <br>
your set-up against. Actually, you remind me that I already
promised to <br>
do this for Gael but that it fell off the bottom of my todo list
:-(<br>
<br>
Do you have any custom routines in your "code" directory? Have you
<br>
tried compiling and linking with array-bound checks turned on?<br>
<br>
Dimitris Menemenlis<br>
On 05/17/2018 11:45 PM, Andreas Klocker wrote:<br>
> Matt,<br>
> <br>
> I cut all the unnecessary packages and still have the same
issue.<br>
> <br>
> I also checked 'size mitgcmuv' and compared the size to other
runs which <br>
> work - it asks for about half the size of other runs which
work fine <br>
> (same machine, same queue, same compiling options, etc).<br>
> <br>
> The tiles are already down to 32x32 grid points, and I'm
happily running <br>
> configurations with a tile size almost twice as big and the
same amount <br>
> of vertical layers.<br>
> <br>
> I will try some different tile sizes but I think the problem
must be <br>
> somewhere else..<br>
> <br>
> Andreas<br>
> <br>
> <br>
> <br>
> <br>
> On 18/05/18 00:35, Matthew Mazloff wrote:<br>
>> Sounds like a memory issue. I think your executable has
become too big <br>
>> for you machine. You will need to reduce tile size or do
something <br>
>> else (e.g. reduce number of diagnostics or cut a package)<br>
>><br>
>> and check<br>
>> size mitgcmuv<br>
>> to get a ballpark idea of how much memory you are
requesting<br>
>><br>
>> Matt<br>
>><br>
>><br>
>><br>
>>> On May 16, 2018, at 11:27 PM, Andreas Klocker <br>
>>> <<a class="moz-txt-link-abbreviated" href="mailto:andreas.klocker@utas.edu.au">andreas.klocker@utas.edu.au</a>
<a class="moz-txt-link-rfc2396E" href="mailto:andreas.klocker@utas.edu.au"><mailto:andreas.klocker@utas.edu.au></a>> wrote:<br>
>>><br>
>>> Hi guys,<br>
>>><br>
>>> I've taken a working 1/24 degree nested simulation
(of Drake Passage)<br>
>>> with 42 vertical layers and tried to increase the
vertical layers to 150<br>
>>> (without changing anything else apart from obviously
my boundary files<br>
>>> for OBCS and recompiling with 150 vertical layers).
Suddenly I get the<br>
>>> following error message:<br>
>>><br>
>>> forrtl: severe (174): SIGSEGV, segmentation fault
occurred<br>
>>> Image PC Routine Line
Source<br>
>>> <a moz-do-not-send="true" href="http://libirc.so">libirc.so</a> <<a moz-do-not-send="true" href="http://libirc.so">http://libirc.so</a>>
00002BA1704BC2C9 Unknown <br>
>>> Unknown Unknown<br>
>>> <a moz-do-not-send="true" href="http://libirc.so">libirc.so</a> <<a moz-do-not-send="true" href="http://libirc.so">http://libirc.so</a>>
00002BA1704BAB9E Unknown <br>
>>> Unknown Unknown<br>
>>> libifcore.so.5 00002BA1722B5F3F Unknown Unknown
Unknown<br>
>>> libifcore.so.5 00002BA17221DD7F Unknown Unknown
Unknown<br>
>>> libifcore.so.5 00002BA17222EF43 Unknown Unknown
Unknown<br>
>>> libpthread.so.0 00002BA1733B27E0 Unknown Unknown
Unknown<br>
>>> mitgcmuv_drake24_ 00000000004E61BC mom_calc_visc_
3345 mom_calc_visc.f<br>
>>> mitgcmuv_drake24_ 0000000000415127 mom_vecinv_ 3453
mom_vecinv.f<br>
>>> mitgcmuv_drake24_ 0000000000601C33 dynamics_ 3426
dynamics.f<br>
>>> mitgcmuv_drake24_ 0000000000613C2B forward_step_
2229 forward_step.f<br>
>>> mitgcmuv_drake24_ 000000000064581E main_do_loop_
1886 main_do_loop.f<br>
>>> mitgcmuv_drake24_ 000000000065E500 the_main_loop_
1904 the_main_loop.f<br>
>>> mitgcmuv_drake24_ 000000000065E6AE the_model_main_
2394 <br>
>>> the_model_main.f<br>
>>> mitgcmuv_drake24_ 00000000005C6439 MAIN__ 3870
main.f<br>
>>> mitgcmuv_drake24_ 0000000000406776 Unknown Unknown
Unknown<br>
>>> libc.so.6 00002BA1737E2D1D Unknown Unknown
Unknown<br>
>>> mitgcmuv_drake24_ 0000000000406669 Unknown Unknown
Unknown<br>
>>><br>
>>> First this error pointed to a line in mom_calc_visc.f
on which<br>
>>> calculations regarding the Leith viscosity are done.
As a test I then<br>
>>> used a Smagorinsky viscosity instead and now it
crashes with the same<br>
>>> error, but pointing to a line where Smagorinsky
calculations are done. I<br>
>>> assume I must be chasing a way more fundamental
problem than one related<br>
>>> to these two viscosity choices...but I'm not sure
what this might be....<br>
>>><br>
>>> Has anyone got any idea of what could be going wrong
here?<br>
>>><br>
>>> Thanks in advance!<br>
>>><br>
>>> Andreas<br>
>>><br>
>>><br>
>>><br>
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> <br>
> -- <br>
>
===============================================================<br>
> Dr. Andreas Klocker<br>
> Physical Oceanographer<br>
> <br>
> ARC Centre of Excellence for Climate System Science<br>
> &<br>
> Institute for Marine and Antarctic Studies<br>
> University of Tasmania<br>
> 20 Castray Esplanade<br>
> Battery Point, TAS<br>
> 7004 Australia<br>
> <br>
> M: +61 437 870 182<br>
> W:<a moz-do-not-send="true" href="http://www.utas.edu.au/profiles/staff/imas/andreas-klocker">http://www.utas.edu.au/profiles/staff/imas/andreas-klocker</a><br>
> skype: andiklocker<br>
>
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<br>
<pre class="moz-signature" cols="72">--
===============================================================
Dr. Andreas Klocker
Physical Oceanographer
ARC Centre of Excellence for Climate System Science
&
Institute for Marine and Antarctic Studies
University of Tasmania
20 Castray Esplanade
Battery Point, TAS
7004 Australia
M: +61 437 870 182
W: <a class="moz-txt-link-freetext" href="http://www.utas.edu.au/profiles/staff/imas/andreas-klocker">http://www.utas.edu.au/profiles/staff/imas/andreas-klocker</a>
skype: andiklocker
===============================================================</pre>
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