<html>
<head>
<meta content="text/html; charset=ISO-8859-1"
http-equiv="Content-Type">
</head>
<body text="#000000" bgcolor="#FFFFFF">
Hi Oliver,<br>
<br>
thanks a lot, I just cloned the dune-common repository and switched
to the releases/2.2 branch with "git checkout -b releases/2.2". I
guess this is newer than the 2.2.1 tarball and contains further
bugfixes? It already seems to contain the MPICH 3 fix already and
compiles ok on ARCHER.<br>
<br>
ARCHER (
<meta http-equiv="content-type" content="text/html;
charset=ISO-8859-1">
<a href="http://www.archer.ac.uk/">http://www.archer.ac.uk/</a>) has
actually less cores than HECToR (~70,000) but they are Intel
Ivybridge (instead of AMD Opterons) and roughly 2x faster (according
to other's peoples experiences). On HECToR the DUNE multigrid is
about a factor 2x slower than my handwritten Fortran code, so I want
to check whether this difference disappears when I go to ARCHER. I
also tried to play around with the compiler flags on HECToR, but
there I never gain more than 5% (addmitedly I only changed the flags
for my own DUNE multigrid module, and didn't recompile UG or
DUNE-grid, but the code only has a 10%-20% overhead from iterating
over the grid, so that should not make a big difference).<br>
<br>
I'm hoping to still do a 80,000 core run on HECToR anyway before it
is decommisioned in March.<br>
<br>
Cheers,<br>
<br>
Eike<br>
<br>
<div class="moz-cite-prefix">On 24/01/14 08:25, Oliver Sander wrote:<br>
</div>
<blockquote cite="mid:52E22365.5000407@igpm.rwth-aachen.de"
type="cite">
<pre wrap="">Am 24.01.2014 00:11, schrieb Eike Mueller:
</pre>
<blockquote type="cite">
<pre wrap="">Hi Steffen and Markus,
thanks a lot, I looked at the mpi.h on my system and it indeed looks like it's MPICH 3.0 (there's a #define MPICH_VERSION "3.0.3"). Yes, I'm using version 2.2.1 of DUNE.
As for UG, I was also using a slightly older version (patched with patch10-rc4), so I have now updated this with the latest patch as well, which fixes the problem there, I can configure, compile and install UG Grid with this.
I also downloaded the 2.2.1 tarball of DUNE again and successfully applied the patch you describe for m4/mpi-config.m4. Unfortunately that does not seem to help, and I suspect this is because the tarball contains aclocal.m4, which does not contain the test_mpich3() marco. I don't know much about autotools, but when I try to delete aclocal.m4 and regenerate it with aclocal I run into a different problem:
eike@eslogin004 $ aclocal
configure.ac:6: error: m4_defn: undefined macro: _m4_divert_diversion
configure.ac:6: the top level
autom4te: /usr/bin/m4 failed with exit status: 1
aclocal: autom4te failed with exit status: 1
</pre>
</blockquote>
<pre wrap="">
Hi Eike,
quick solution:
clone into dune-common, change to the 2.2 branch, apply the patch there and do a 'make dist'.
That gives you a tarball with the patch.
ideal solution: we do that for you, and do a 2.2.2 release of dune-common.
PS: That Archer thing has how many processors? What's your goal with UG?
Cheers,
Oliver [waiting for new bugreports :-) ]
</pre>
<blockquote type="cite">
<pre wrap="">
Apart from this, just looking through the patch, running ./conftest in mpi_trybuild_run() might not work as the MPI compiler is configued to cross-compile for the compute nodes, so I'm not sure I can execute anything on the login nodes, but I will find out once the configure runs.
Thanks,
Eike
On 23 Jan 2014, at 19:00, Steffen Müthing <a class="moz-txt-link-rfc2396E" href="mailto:steffen.muething@iwr.uni-heidelberg.de"><steffen.muething@iwr.uni-heidelberg.de></a> wrote:
</pre>
<blockquote type="cite">
<pre wrap="">
Am 23.01.2014 um 19:56 schrieb Markus Blatt <a class="moz-txt-link-rfc2396E" href="mailto:markus@dr-blatt.de"><markus@dr-blatt.de></a>:
</pre>
<blockquote type="cite">
<pre wrap="">On Thu, Jan 23, 2014 at 07:49:20PM +0100, Steffen Müthing wrote:
</pre>
<blockquote type="cite">
<pre wrap="">Hi Eike,
what is the version of MPICH as reported by the command mpichversion or the module
system? There was a problem with MPICH 3.x which has been fixed in the master branch
of Dune (and I think also in the development version of UG), but I don’t know whether those
fixes have made it to the releases yet…
</pre>
</blockquote>
<pre wrap="">
That one is in the release.
</pre>
</blockquote>
<pre wrap="">
Ah, that’s good! :-)
But if Eike is still on 2.2.1, he doesn’t have that patch yet...
</pre>
<blockquote type="cite">
<pre wrap="">
--
Do you need more support with DUNE or HPC in general?
Dr. Markus Blatt - HPC-Simulation-Software & Services <a class="moz-txt-link-freetext" href="http://www.dr-blatt.de">http://www.dr-blatt.de</a>
Hans-Bunte-Str. 8-10, 69123 Heidelberg, Germany
Tel.: +49 (0) 160 97590858 Fax: +49 (0)322 1108991658
_______________________________________________
Dune mailing list
<a class="moz-txt-link-abbreviated" href="mailto:Dune@dune-project.org">Dune@dune-project.org</a>
<a class="moz-txt-link-freetext" href="http://lists.dune-project.org/mailman/listinfo/dune">http://lists.dune-project.org/mailman/listinfo/dune</a>
</pre>
</blockquote>
<pre wrap="">
_______________________________________________
Dune mailing list
<a class="moz-txt-link-abbreviated" href="mailto:Dune@dune-project.org">Dune@dune-project.org</a>
<a class="moz-txt-link-freetext" href="http://lists.dune-project.org/mailman/listinfo/dune">http://lists.dune-project.org/mailman/listinfo/dune</a>
</pre>
</blockquote>
<pre wrap="">
_______________________________________________
Dune mailing list
<a class="moz-txt-link-abbreviated" href="mailto:Dune@dune-project.org">Dune@dune-project.org</a>
<a class="moz-txt-link-freetext" href="http://lists.dune-project.org/mailman/listinfo/dune">http://lists.dune-project.org/mailman/listinfo/dune</a>
</pre>
</blockquote>
<pre wrap="">
</pre>
<br>
<fieldset class="mimeAttachmentHeader"></fieldset>
<br>
<pre wrap="">_______________________________________________
Dune mailing list
<a class="moz-txt-link-abbreviated" href="mailto:Dune@dune-project.org">Dune@dune-project.org</a>
<a class="moz-txt-link-freetext" href="http://lists.dune-project.org/mailman/listinfo/dune">http://lists.dune-project.org/mailman/listinfo/dune</a>
</pre>
</blockquote>
<br>
<pre class="moz-signature" cols="72">--
Dr Eike Hermann Mueller
Research Officer (PostDoc)
Department of Mathematical Sciences
University of Bath
Bath BA2 7AY, United Kingdom
+44 1225 38 5633
<a class="moz-txt-link-abbreviated" href="mailto:e.mueller@bath.ac.uk">e.mueller@bath.ac.uk</a>
<a class="moz-txt-link-freetext" href="http://people.bath.ac.uk/em459/">http://people.bath.ac.uk/em459/</a>
</pre>
</body>
</html>