[Dune] Identifying MPICH during configure

Fri Jan 24 14:30:32 CET 2014

Dear all,

it's all working now. What I wrote earlier today was only partially 
correct, once I use the correct git command "git checkout releases/2.2" 
(i.e. without the -b) I change the working copy the release 2.2 branch 
and that does indeed not contain the patch, so I applied it manually.

Once I've done this I can compile DUNE (with UGGrid and ALUGrid) and 
also the multigrid code.

Thanks a lot again for your help!

Eike

On 24/01/14 10:20, Eike Mueller wrote:
> Hi Oliver,
>
> 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.
>
> ARCHER ( http://www.archer.ac.uk/) 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).
>
> I'm hoping to still do a 80,000 core run on HECToR anyway before it is 
> decommisioned in March.
>
> Cheers,
>
> Eike
>
> On 24/01/14 08:25, Oliver Sander wrote:
>> Am 24.01.2014 00:11, schrieb Eike Mueller:
>>> 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 at 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
>> 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 :-) ]
>>
>>
>>> 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<steffen.muething at iwr.uni-heidelberg.de>  wrote:
>>>
>>>> Am 23.01.2014 um 19:56 schrieb Markus Blatt<markus at dr-blatt.de>:
>>>>
>>>>> On Thu, Jan 23, 2014 at 07:49:20PM +0100, Steffen Müthing wrote:
>>>>>> 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...
>>>>>>
>>>>> That one is in the release.
>>>> Ah, that's good! :-)
>>>>
>>>> But if Eike is still on 2.2.1, he doesn't have that patch yet...
>>>>
>>>>> -- 
>>>>> Do you need more support with DUNE or HPC in general?
>>>>>
>>>>> Dr. Markus Blatt - HPC-Simulation-Software & Serviceshttp://www.dr-blatt.de
>>>>> Hans-Bunte-Str. 8-10, 69123 Heidelberg, Germany
>>>>> Tel.: +49 (0) 160 97590858  Fax: +49 (0)322 1108991658
>>>>> _______________________________________________
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>>
>>
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>
> -- 
> Dr Eike Hermann Mueller
> Research Officer (PostDoc)
>
> Department of Mathematical Sciences
> University of Bath
> Bath BA2 7AY, United Kingdom
>
> +44 1225 38 5633
> e.mueller at bath.ac.uk
> http://people.bath.ac.uk/em459/
>
>
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-- 
Dr Eike Hermann Mueller
Research Officer (PostDoc)

Department of Mathematical Sciences
University of Bath
Bath BA2 7AY, United Kingdom

+44 1225 38 5633
e.mueller at bath.ac.uk
http://people.bath.ac.uk/em459/

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