[Trilinos-Users] R: error executing Sundance
Shota Soga
ssoga at ncsu.edu
Fri Dec 9 12:13:33 MST 2011
Hi Andrea,
I installed Trilinos 10.8.3. If you enable SEACAS, it should
automatically enable exodus, too (do not set secondary stable off).
Now, you should find libexodus in your installation folders. You can use
this exodus for exodusMeshReader object.
The attachment is quick check if Exodus is enabled or not. If SEACAS is
properly enabled, then Exodus must be enabled.
Hope this answers your questions.
Best Regards,
Shota
On Thu, Dec 8, 2011 at 7:09 PM, Andrea Penza <pepe.aero at alice.it> wrote:
> Dear Shota,
>
> If i understand right your suggestion i've to try to configure Trilinos
> with a script like this:
>
>
> > > EXTRA_ARGS=$@
> > >
> > > cmake
> > > -D CMAKE_BUILD_TYPE:STRING=DEBUG
> > > -D Trilinos_ENABLE_Sundance:BOOL=ON
> >> -D Trilinos_ENABLE_seacas:BOOL=ON
> > > -D Trilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=ON
> > > -D Trilinos_ENABLE_TESTS:BOOL=ON
>
> > > $EXTRA_ARGS
> > > ${TRILINOS_HOME}
>
> Do you think that this will let me able to use the ExodusMeshReader
> object? Now i'm trying compiling this...i will let you know if it works.
> At least...thank you very much for you support, you answer me a lot of
> time in this months, and you will definitely insert in the acknowledges of
> my MSc thesis. Your kindness is really appreciated!
>
> Andrea
>
> -- msg. originale --
> Oggetto: Re: [Trilinos-Users] R: error executing Sundance
> Da: Shota Soga <ssoga at ncsu.edu>
> Data: 08/12/2011 23:24
>
> Hi Andrea,
>
> I am not sure the following is true for version 10.8 since I thought
> Sundance uses SEACAS in 10.8 for Exodus II.
>
> In 10.8, you should enable SEACAS for exodus. Let me try if this is true...
>
> If you use 10.6 or previous version, you should have Exodus II installed
> on your system. If not, you need to install HDF5 and NetCDF to compile
> Exodus II from the source.
>
> After that, you can add a line
>
> -D TPL_ENABLE_ExodusII:BOOL=ON \
>
> Shota
>
> On Thu, Dec 8, 2011 at 4:47 PM, Andrea Penza <pepe.aero at alice.it> wrote:
>
> > Hi Shota, thanks for your reply. I think that the problem is what you are
> > telling. I hoped to fix it configuring the building of Trilinos with a
> > script like this:
> >
> >
> > > EXTRA_ARGS=$@
> > >
> > > cmake
> > > -D CMAKE_BUILD_TYPE:STRING=DEBUG
> > > -D Trilinos_ENABLE_TESTS:BOOL=ON
> > > -D Trilinos_ENABLE_Sundance:BOOL=ON
> > > -D Trilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=ON
> > > -D Trilinos_ENABLE_TESTS:BOOL=ON
> > > -D TPL_ENABLE_MPI:BOOL=ON
> > > -D MPI_INCLUDE_DIRS:PATH=/usr/lib/openmpi/include
> > > -D
> > >
> > >
> >
> MPI_LIBRARY_NAMES:STRING="mpi;mpi_cxx;mpi_f77;mpi_f90;openmpi_malloc;open-pal;open_rte;otf;vt;vt.fmpi;vt.mpi;vt.omp;vt.ompi"
> > >
> > > -D MPI_LIBRARY_DIRS:PATH=/usr/lib/openmpi/lib
> > > -D TPL_ENABLE_Netcdf:BOOL=ON
> > > -D
> > >
> > >
> Netcdf_INCLUDE_DIRS:PATH=/home/andre/Projects/netcdf-4.1.3/BUILD/include
> > >
> > > -D Netcdf_LIBRARY_NAMES:STRING="netcdf;netcdf_c++;netcdff;"
> > > -D
> > > Netcdf_LIBRARY_DIRS:PATH=/home/andre/Projects/netcdf-4.1.3/BUILD/lib
> > > $EXTRA_ARGS
> > > ${TRILINOS_HOME}
> >
> > In which i've included the commands for building the third-party library
> > MPI, ExodusII and Netcdf. There's something wrong in this part in your
> > opinion? Thanks for the support,your help is really appreciated! Kind
> > regards,
> >
> > Andrea
> >
> >
> > -- msg. originale --
> > Oggetto: Re: [Trilinos-Users] R: error executing Sundance
> > Da: Shota Soga <ssoga at ncsu.edu>
> > Data: 08/12/2011 17:59
> >
> > Hi Andrea,
> >
> > I think you should enable Exodus II when you install Sundance.
> >
> > Or, you can use triangle mesh file in stead of exodus file reader.
> >
> >
> > Hope this will hel you.
> >
> > Shota
> >
> >
> > On Thu, Dec 8, 2011 at 11:35 AM, Andrea Penza <pepe.aero at alice.it>
> wrote:
> >
> > > Thanks to the answer of Alberto i'm now able to execute my Sundance
> > > application.
> > > It still remains a problem. trying to use ExodusII mesh file the system
> > > report this error while i call the ExodusMeshReader object:
> > >
> > >
> > > Throw number = 1
> > >
> > > Throw test that evaluated to true: true
> > >
> > > ExodusMeshReader called for a build without ExodusII
> > > caught in
> > >
> >
> /home/andre/Projects/trilinos-10.8.3-Source/packages/src-std-mesh/Sources/SundanceMeshSource.cpp:69
> > >
> > > Is someone understands what it means?
> > > Thank you all so much again.
> > > Kind regards,
> > >
> > > Andrea
> > >
> > > -- msg. originale --
> > > Oggetto: Re: [Trilinos-Users] error executing Sundance
> > > Da: Alberto F. Martín-Huertas <amartin at cimne.upc.edu>
> > > Data: 08/12/2011 12:15
> > >
> > > Hi Andrea,
> > >
> > > did you add /home/andre/Projects/netcdf-4.1.3/BUILD/lib
> > > to the LD_LIBRARY_PATH environment variable ?
> > >
> > > Regards,
> > > Alberto
> > >
> > >
> > > On Thu, 8 Dec 2011 11:25:29 +0100, Andrea Penza wrote:
> > > > Hi all,
> > > >
> > > > i'm trying to configure Trilinos to use Sundance working with MPI,
> > > > ExodusII library and Netcdf. All are installed on my system.
> > > > I've run a configuration script like this:
> > > >
> > > > EXTRA_ARGS=$@
> > > >
> > > > cmake
> > > > -D CMAKE_BUILD_TYPE:STRING=DEBUG
> > > > -D Trilinos_ENABLE_TESTS:BOOL=ON
> > > > -D Trilinos_ENABLE_Sundance:BOOL=ON
> > > > -D Trilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=ON
> > > > -D Trilinos_ENABLE_TESTS:BOOL=ON
> > > > -D TPL_ENABLE_MPI:BOOL=ON
> > > > -D MPI_INCLUDE_DIRS:PATH=/usr/lib/openmpi/include
> > > > -D
> > > >
> > > >
> > >
> >
> MPI_LIBRARY_NAMES:STRING="mpi;mpi_cxx;mpi_f77;mpi_f90;openmpi_malloc;open-pal;open_rte;otf;vt;vt.fmpi;vt.mpi;vt.omp;vt.ompi"
> > > >
> > > > -D MPI_LIBRARY_DIRS:PATH=/usr/lib/openmpi/lib
> > > > -D TPL_ENABLE_Netcdf:BOOL=ON
> > > > -D
> > > >
> > > >
> > Netcdf_INCLUDE_DIRS:PATH=/home/andre/Projects/netcdf-4.1.3/BUILD/include
> > > >
> > > > -D Netcdf_LIBRARY_NAMES:STRING="netcdf;netcdf_c++;netcdff;"
> > > > -D
> > > > Netcdf_LIBRARY_DIRS:PATH=/home/andre/Projects/netcdf-4.1.3/BUILD/lib
> > > > $EXTRA_ARGS
> > > > ${TRILINOS_HOME}
> > > >
> > > > and the configuration was done successfully. Then i've built and
> > > > installed and all was ok.
> > > > My system is able to compile .cpp file and make .exe file but when a
> > > > try to run the exe file it reports this error:
> > > >
> > > > "error while loading shared libraries: libnetcdf.so.7: cannot open
> > > > shared object file: No such file or directory."
> > > >
> > > > I've checked that the library libnetcdf.so.7 is present in my system
> > > > at the path i've insert, /home/andre/Projects/netcdf-4.1.3/BUILD/lib
> > > > .
> > > > Has someone an idea of waht could be the problem? Thank you very
> > > > much, your help is really appreciated!
> > > > Kind regards,
> > > >
> > > > Andrea
> > >
> > > --
> > > Alberto F. Martín-Huertas
> > > Centre Internacional de Mètodes Numèrics a l'Enginyeria (CIMNE)
> > > Parc Mediterrani de la Tecnologia, UPC
> > > Esteve Terrades 5, Building C3, Office 210,
> > > 08860 Castelldefels (Barcelona, Spain)
> > > Tel.: (+34) 9341 34223
> > > e-mail: amartin at cimne.upc.edu
> > >
> > > ________________
> > > IMPORTANT NOTICE
> > > All personal data contained on this mail will be processed
> > > confidentially and registered in a file property of CIMNE in
> > > order to manage corporate communications. You may exercise the rights
> > > of access, rectification, erasure and object by
> > > letter sent to Ed. C1 Campus Norte UPC. Gran Capitán s/n Barcelona.
> > >
> > >
> > > _______________________________________________
> > > Trilinos-Users mailing list
> > > Trilinos-Users at software.sandia.gov
> > > http://software.sandia.gov/mailman/listinfo/trilinos-users
> > >
> > >
> > >
> > > _______________________________________________
> > > Trilinos-Users mailing list
> > > Trilinos-Users at software.sandia.gov
> > > http://software.sandia.gov/mailman/listinfo/trilinos-users
> > >
> >
> >
> >
> > --
> > Shota Soga
> > Graduate Assistant at North Carolina State University
> >
> > Email: ssoga at ncsu.edu
> > URL:http://abdelk.ne.ncsu.edu/<
> > http://abdelk.ne.ncsu.edu/wiki/index.php/Shota_Soga>
> > w/
> >
> >
> >
>
>
> --
> Shota Soga
> Graduate Assistant at North Carolina State University
>
> Email: ssoga at ncsu.edu
> URL:http://abdelk.ne.ncsu.edu/<
> http://abdelk.ne.ncsu.edu/wiki/index.php/Shota_Soga>
> w/
>
>
>
--
Shota Soga
Graduate Assistant at North Carolina State University
Email: ssoga at ncsu.edu
URL:http://abdelk.ne.ncsu.edu/<http://abdelk.ne.ncsu.edu/wiki/index.php/Shota_Soga>
w/
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/*
* <Ignore>
* This boilerplate doesn't go in the documentation
*/
#include "Sundance.hpp"
#include "SundanceElementIntegral.hpp"
using Sundance::List;
// This test depends on Exodus, so skip it if Expdus hasn't been enabled.
#if defined(HAVE_SUNDANCE_EXODUS)
int main(int argc, char** argv)
{
Sundance::init(&argc, &argv);
std::cout << "Exodus is enabled.";
Sundance::finalize();
}
#else
int main(int argc, char** argv)
{
Sundance::init(&argc, &argv);
std::cout << "Exodus is not enabled." << std::endl;
Sundance::finalize();
return 0;
}
#endif
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