[Trilinos-Users] Exodus and MPI

[Kevin Long]

Hi Andrea,

There are several options as mentioned by Brent and Shota

(1) Use the scripts provided with Sundance
(2) Use the nem_split/nem_spread utilities bundled with SEACAS

Kevin

On 12/13/2011 04:20 PM, Andrea Penza wrote:
> Hi Shota,
>
> thanks for your answer.
> So, do you think that without a Cubit License it could be impossible 
> to use parallel computing with an ExodusII mesh?
> I've tried also with Triangle mesh file, and the problem was the same: 
> the system was looking for two splitted mesh file .par . If I've 
> understood right the python script you named should create this *.par 
> file...right?
> Thanks a lot, kind regards.
>
> Andrea
>
>
> Il giorno 13/dic/2011, alle ore 23.01, Shota Soga ha scritto:
>
>> HI Andrea,
>>
>> When you run Sundance with multi-dore, it asks to distributed mesh by 
>> default for parallel computing.
>>
>> I do not know how to generate distributed mesh with exodus (probably 
>> Cubit can do this?), but in the source directory, I thought there is 
>> python script to convert Exodus file to partitioned triangle mesh. 
>> Then, use Triangle Mesh reader for partitioned triangle mesh.
>>
>> Shota
>>
>> On Tue, Dec 13, 2011 at 4:43 PM, Andrea Penza <pepe.aero at alice.it 
>> <mailto:pepe.aero at alice.it>> wrote:
>>
>>     Hi all,
>>
>>     I have problems executing Sundance with ExodusII mesh. I'm trying
>>     to run
>>     it with MPI on the two processors of my DualCore. I've tested MPI and
>>     Exodus separately and everything was working.
>>     Now the problem is that my system look for two splitted files for the
>>     mesh, particularly it search *.pxo file format.
>>     The system reports this message at runtime:
>>
>>     andrea at andrea-MacBookPro:~/Projects/trilinos-10.8.3-Source/MyApps/LaplaceScalar$
>>     time mpirun -np 2 ./LaplaceScalarExo.exe
>>     Teuchos::GlobalMPISession::GlobalMPISession(): started processor with
>>     name andrea-MacBookPro and rank 0!
>>     Teuchos::GlobalMPISession::GlobalMPISession(): started processor with
>>     name andrea-MacBookPro and rank 1!
>>     Simulation built using Sundance version 2.3.0 (10 May 2008)
>>     Sundance is copyright
>>      (C) 2005-2008 Sandia National Laboratories
>>      (C) 2007-2008 Texas Tech University
>>     and is licensed under the GNU Lesser General Public License,
>>     version 2.1
>>     [1]
>>     Sundance detected exception:
>>     /home/andrea/Projects/trilinos-10.8.3-Source/packages/Sundance/src-utils/Utilities/SundancePathUtils.cpp:58:
>>
>>     Throw number = 1
>>
>>     Throw test that evaluated to true: true
>>
>>     could not find file ../Mesh/exodusii/square-2-0.pxo in path
>>     {.,
>>     /home/andrea/Projects/trilinos-10.8.3-Source/BUILD/packages/Sundance/etc,
>>     /usr/local/etc, NOTFOUND/Sundance/meshes,
>>     /home/andrea/Projects/trilinos-10.8.3-Source/BUILD/packages/Sundance/examples-tutorial/data,
>>     /usr/local/examples-tutorial/data}
>>     caught
>>     in
>>     /home/andrea/Projects/trilinos-10.8.3-Source/packages/Sundance/src-std-mesh/Sources/SundanceExodusMeshReader.cpp:474
>>
>>     caught
>>     in
>>     /home/andrea/Projects/trilinos-10.8.3-Source/packages/Sundance/src-std-mesh/Sources/SundanceMeshSource.cpp:69
>>
>>     test FAILED
>>     Sundance detected exception:
>>     /home/andrea/Projects/trilinos-10.8.3-Source/packages/Sundance/src-utils/Utilities/SundancePathUtils.cpp:58:
>>
>>     Throw number = 1
>>
>>     Throw test that evaluated to true: true
>>
>>     could not find file ../Mesh/exodusii/square-2-1.pxo in path
>>     {.,
>>     /home/andrea/Projects/trilinos-10.8.3-Source/BUILD/packages/Sundance/etc,
>>     /usr/local/etc, NOTFOUND/Sundance/meshes,
>>     /home/andrea/Projects/trilinos-10.8.3-Source/BUILD/packages/Sundance/examples-tutorial/data,
>>     /usr/local/examples-tutorial/data}
>>     caught
>>     in
>>     /home/andrea/Projects/trilinos-10.8.3-Source/packages/Sundance/src-std-mesh/Sources/SundanceExodusMeshReader.cpp:474
>>
>>     caught
>>     in
>>     /home/andrea/Projects/trilinos-10.8.3-Source/packages/Sundance/src-std-mesh/Sources/SundanceMeshSource.cpp:69
>>
>>     test FAILED
>>
>>
>>     As you can see, my system look for a
>>     file ../Mesh/exodusii/square-2-0.pxo for the process with rank 0, and
>>     the file ../Mesh/exodusii/square-2-1.pxo for the rank 1.
>>     The source mesh file name is square.exo in the dir Mesh/exodusii.
>>     Thanks a lot to everyone could help me!
>>     Kind regards,
>>
>>     Andrea
>>
>>
>>     _______________________________________________
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>>     Trilinos-Users at software.sandia.gov
>>     <mailto:Trilinos-Users at software.sandia.gov>
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>>
>>
>>
>>
>> -- 
>> Shota Soga
>> Graduate Assistant at North Carolina State University
>>
>> Email: ssoga at ncsu.edu <mailto:ssoga at ncsu.edu>
>> URL:http://abdelk.ne.ncsu.edu/ 
>> <http://abdelk.ne.ncsu.edu/wiki/index.php/Shota_Soga>w/
>>
>>
>


-- 
Kevin Long
Associate Professor
Department of Mathematics and Statistics
Texas Tech University

"The end of fear is the beginning of wisdom"
- Bertrand Russell

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