int
main ( int argc, char** argv )
{
#ifdef HAVE_HDF5
#ifdef HAVE_MPI
MPI_Init (&argc, &argv);
boost::shared_ptr<Epetra_Comm> comm (new Epetra_MpiComm (MPI_COMM_WORLD) );
const bool verbose (comm->MyPID() == 0);
// Read first the data needed
if (verbose)
{
std::cout << " -- Reading the data ... " << std::flush;
}
GetPot dataFile ( "data" );
if (verbose)
{
std::cout << " done ! " << std::endl;
}
const UInt Nelements (dataFile ("mesh/nelements", 10) );
if (verbose) std::cout << " ---> Number of elements : "
<< Nelements << std::endl;
// Load mesh part from HDF5
const std::string partsFileName (dataFile ("test/hdf5_file_name", "cube.h5") );
const std::string ioClass (dataFile ("test/io_class", "new") );
boost::shared_ptr<mesh_Type> mesh;
if (! ioClass.compare ("old") )
{
ExporterHDF5Mesh3D<mesh_Type> HDF5Input (dataFile, partsFileName);
HDF5Input.setComm (comm);
mesh = HDF5Input.getMeshPartition();
HDF5Input.closeFile();
}
else
{
PartitionIO<RegionMesh<LinearTetra> > partitionIO (partsFileName, comm);
partitionIO.read (mesh);
}
// Build the FESpaces
if (verbose)
{
std::cout << " -- Building FESpaces ... " << std::flush;
}
std::string uOrder ("P1");
std::string bOrder ("P1");
boost::shared_ptr<FESpace<mesh_Type, MapEpetra> >
uFESpace (new FESpace<mesh_Type, MapEpetra> (mesh, uOrder, 1, comm) );
boost::shared_ptr<FESpace<mesh_Type, MapEpetra> >
betaFESpace (new FESpace<mesh_Type, MapEpetra> (mesh, bOrder, 3, comm) );
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose) std::cout << " ---> Dofs: "
<< uFESpace->dof().numTotalDof() << std::endl;
// Build the assembler and the matrices
if (verbose)
{
std::cout << " -- Building assembler ... " << std::flush;
}
ADRAssembler<mesh_Type, matrix_Type, vector_Type> adrAssembler;
if (verbose)
{
std::cout << " done! " << std::endl;
}
if (verbose)
{
std::cout << " -- Setting up assembler ... " << std::flush;
}
adrAssembler.setup (uFESpace, betaFESpace);
if (verbose)
{
std::cout << " done! " << std::endl;
}
if (verbose)
{
std::cout << " -- Defining the matrix ... " << std::flush;
}
boost::shared_ptr<matrix_Type>
systemMatrix (new matrix_Type (uFESpace->map() ) );
*systemMatrix *= 0.0;
if (verbose)
{
std::cout << " done! " << std::endl;
}
// Perform the assembly of the matrix
if (verbose)
{
std::cout << " -- Adding the diffusion ... " << std::flush;
}
adrAssembler.addDiffusion (systemMatrix, 1);
if (verbose)
{
std::cout << " done! " << std::endl;
}
if (verbose) std::cout << " Time needed : "
<< adrAssembler.diffusionAssemblyChrono().diffCumul()
<< std::endl;
if (verbose)
{
std::cout << " -- Closing the matrix ... " << std::flush;
}
systemMatrix->globalAssemble();
if (verbose)
{
std::cout << " done ! " << std::endl;
}
Real matrixNorm (systemMatrix->norm1() );
if (verbose)
{
std::cout << " ---> Norm 1 : " << matrixNorm << std::endl;
}
if (std::fabs (matrixNorm - 1.68421) > 1e-3)
{
std::cout << " <!> Matrix has changed !!! <!> " << std::endl;
return EXIT_FAILURE;
}
// Definition and assembly of the RHS
if (verbose)
{
std::cout << " -- Building the RHS ... " << std::flush;
}
vector_Type rhs (uFESpace->map(), Repeated);
rhs *= 0.0;
vector_Type fInterpolated (uFESpace->map(), Repeated);
fInterpolated *= 0.0;
uFESpace->interpolate ( static_cast<function_Type> ( fRhs ), fInterpolated, 0.0);
adrAssembler.addMassRhs (rhs, fInterpolated);
rhs.globalAssemble();
if (verbose)
{
std::cout << " done ! " << std::endl;
}
// Definition and application of the BCs
if (verbose)
{
std::cout << " -- Building the BCHandler ... " << std::flush;
}
BCHandler bchandler;
BCFunctionBase BCu (exactSolution);
bchandler.addBC ("Dirichlet", 1, Essential, Full, BCu, 1);
for (UInt i (2); i <= 6; ++i)
{
bchandler.addBC ("Dirichlet", i, Essential, Full, BCu, 1);
}
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose)
{
std::cout << " -- Updating the BCs ... " << std::flush;
}
bchandler.bcUpdate (*uFESpace->mesh(), uFESpace->feBd(), uFESpace->dof() );
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose)
{
std::cout << " -- Applying the BCs ... " << std::flush;
}
vector_Type rhsBC (rhs, Unique);
bcManage (*systemMatrix, rhsBC, *uFESpace->mesh(),
uFESpace->dof(), bchandler, uFESpace->feBd(), 1.0, 0.0);
rhs = rhsBC;
if (verbose)
{
std::cout << " done ! " << std::endl;
}
// Definition of the solver
if (verbose)
{
std::cout << " -- Building the solver ... " << std::flush;
}
SolverAztecOO linearSolver;
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose)
{
std::cout << " -- Setting up the solver ... " << std::flush;
}
linearSolver.setDataFromGetPot (dataFile, "solver");
linearSolver.setupPreconditioner (dataFile, "prec");
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose) std::cout << " -- Setting matrix in the solver ... "
<< std::flush;
linearSolver.setMatrix (*systemMatrix);
if (verbose)
{
std::cout << " done ! " << std::endl;
}
linearSolver.setCommunicator (comm);
// Definition of the solution
if (verbose)
{
std::cout << " -- Defining the solution ... " << std::flush;
}
vector_Type solution (uFESpace->map(), Unique);
solution *= 0.0;
if (verbose)
{
std::cout << " done ! " << std::endl;
}
// Solve the solution
if (verbose)
{
std::cout << " -- Solving the system ... " << std::flush;
}
linearSolver.solveSystem (rhsBC, solution, systemMatrix);
if (verbose)
{
std::cout << " done ! " << std::endl;
}
// Error computation
if (verbose)
{
std::cout << " -- Computing the error ... " << std::flush;
}
vector_Type solutionErr (solution);
solutionErr *= 0.0;
uFESpace->interpolate ( static_cast<function_Type> ( exactSolution ), solutionErr, 0.0);
solutionErr -= solution;
solutionErr.abs();
Real l2error (uFESpace->l2Error (exactSolution,
vector_Type (solution, Repeated), 0.0) );
if (verbose)
{
std::cout << " -- done ! " << std::endl;
}
if (verbose)
{
std::cout << " ---> Norm L2 : " << l2error << std::endl;
}
Real linferror (solutionErr.normInf() );
if (verbose)
{
std::cout << " ---> Norm Inf : " << linferror << std::endl;
}
if (l2error > 0.0055)
{
std::cout << " <!> Solution has changed !!! <!> " << std::endl;
return EXIT_FAILURE;
}
if (linferror > 0.0046)
{
std::cout << " <!> Solution has changed !!! <!> " << std::endl;
return EXIT_FAILURE;
}
// Exporter definition and use
if (verbose)
{
std::cout << " -- Defining the exporter ... " << std::flush;
}
ExporterHDF5<mesh_Type> exporter (dataFile, mesh,
"solution", comm->MyPID() ) ;
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose) std::cout << " -- Defining the exported quantities ... "
<< std::flush;
boost::shared_ptr<vector_Type>
solutionPtr (new vector_Type (solution, Repeated) );
boost::shared_ptr<vector_Type>
solutionErrPtr (new vector_Type (solutionErr, Repeated) );
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose) std::cout << " -- Updating the exporter ... "
<< std::flush;
exporter.addVariable ( ExporterData<mesh_Type>::ScalarField,
"solution", uFESpace, solutionPtr, UInt (0) );
exporter.addVariable ( ExporterData<mesh_Type>::ScalarField,
"error", uFESpace, solutionErrPtr, UInt (0) );
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose)
{
std::cout << " -- Exporting ... " << std::flush;
}
exporter.postProcess (0);
exporter.closeFile();
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose)
{
std::cout << "End Result: TEST PASSED" << std::endl;
}
MPI_Finalize();
#else
std::cout << "This test needs MPI to run. Aborting." << std::endl;
return (EXIT_FAILURE);
#endif /* HAVE_MPI */
#else
std::cout << "This test needs HDF5 to run. Aborting." << std::endl;
return (EXIT_FAILURE);
#endif /* HAVE_HDF5 */
return ( EXIT_SUCCESS );
}
int main (int argc, char** argv)
{
#ifdef LIFEV_HAS_HDF5
#ifdef HAVE_MPI
typedef RegionMesh<LinearTetra> mesh_Type;
MPI_Init (&argc, &argv);
boost::shared_ptr<Epetra_Comm> comm (new Epetra_MpiComm (MPI_COMM_WORLD) );
if (comm->NumProc() != 1)
{
std::cout << "This test needs to be run "
<< "with a single process. Aborting."
<< std::endl;
return (EXIT_FAILURE);
}
GetPot commandLine (argc, argv);
string dataFileName = commandLine.follow ("data", 2, "-f", "--file");
GetPot dataFile (dataFileName);
const UInt numElements (dataFile ("mesh/nelements", 10) );
const UInt numParts (dataFile ("test/num_parts", 4) );
const std::string partsFileName (dataFile ("test/hdf5_file_name", "cube.h5") );
const std::string ioClass (dataFile ("test/io_class", "new") );
std::cout << "Number of elements in mesh: " << numElements << std::endl;
std::cout << "Number of parts: " << numParts << std::endl;
std::cout << "Name of HDF5 container: " << partsFileName << std::endl;
boost::shared_ptr<mesh_Type> fullMeshPtr (new mesh_Type ( comm ) );
regularMesh3D (*fullMeshPtr, 1, numElements, numElements, numElements,
false, 2.0, 2.0, 2.0, -1.0, -1.0, -1.0);
MeshPartitioner<mesh_Type> meshPart;
meshPart.setup (numParts, comm);
meshPart.attachUnpartitionedMesh (fullMeshPtr);
meshPart.doPartitionGraph();
meshPart.doPartitionMesh();
// Release the original mesh from the MeshPartitioner object and
// delete the RegionMesh object
meshPart.releaseUnpartitionedMesh();
fullMeshPtr.reset();
// Write mesh parts to HDF5 container
if (! ioClass.compare ("old") )
{
ExporterHDF5Mesh3D<mesh_Type> HDF5Output (dataFile,
meshPart.meshPartition(),
partsFileName,
comm->MyPID() );
HDF5Output.addPartitionGraph (meshPart.elementDomains(), comm);
HDF5Output.addMeshPartitionAll (meshPart.meshPartitions(), comm);
HDF5Output.postProcess (0);
HDF5Output.closeFile();
}
else
{
boost::shared_ptr<Epetra_MpiComm> mpiComm =
boost::dynamic_pointer_cast<Epetra_MpiComm> (comm);
PartitionIO<mesh_Type> partitionIO (partsFileName, mpiComm);
partitionIO.write (meshPart.meshPartitions() );
}
MPI_Finalize();
#else
std::cout << "This test needs MPI to run. Aborting." << std::endl;
return (EXIT_FAILURE);
#endif /* HAVE_MPI */
#else
std::cout << "This test needs HDF5 to run. Aborting." << std::endl;
return (EXIT_FAILURE);
#endif /* LIFEV_HAS_HDF5 */
return (EXIT_SUCCESS);
}
int
main ( int argc, char** argv )
{
#ifdef LIFEV_HAS_HDF5
#ifdef HAVE_MPI
MPI_Init (&argc, &argv);
boost::shared_ptr<Epetra_MpiComm> comm (new Epetra_MpiComm (MPI_COMM_WORLD) );
const bool verbose (comm->MyPID() == 0);
// Read first the data needed
if (verbose)
{
std::cout << " -- Reading the data ... " << std::flush;
}
// GetPot dataFile ( "data" );
if (verbose)
{
std::cout << " done ! " << std::endl;
}
GetPot cl (argc, argv);
// partitionerType should be MeshPartitioner, MeshPartitionTool_ParMETIS or
// MeshPartitionTool_Zoltan
const std::string partitionerType = cl.follow ("MeshPartitioner",
"--partitioner-type");
std::string partsFile;
partsFile.reserve (50);
partsFile += "cube_";
partsFile += partitionerType;
partsFile += ".h5";
boost::shared_ptr<mesh_Type> mesh;
{
PartitionIO<RegionMesh<LinearTetra> > partitionIO (partsFile, comm);
partitionIO.read (mesh);
}
// Build the FESpaces
if (verbose)
{
std::cout << " -- Building FESpaces ... " << std::flush;
}
std::string uOrder ("P1");
std::string bOrder ("P1");
boost::shared_ptr<FESpace<mesh_Type, MapEpetra> >
uFESpace (new FESpace<mesh_Type, MapEpetra> (mesh, uOrder, 1, comm) );
boost::shared_ptr<FESpace<mesh_Type, MapEpetra> >
betaFESpace (new FESpace<mesh_Type, MapEpetra> (mesh, bOrder, 3, comm) );
if (verbose)
{
std::cout << " done ! " << std::endl;
}
if (verbose) std::cout << " ---> Dofs: "
<< uFESpace->dof().numTotalDof() << std::endl;
// Build the assembler and the matrices
if (verbose)
{
std::cout << " -- Building assembler ... " << std::flush;
}
ADRAssembler<mesh_Type, matrix_Type, vector_Type> adrAssembler;
if (verbose)
{
std::cout << " done! " << std::endl;
}
if (verbose)
{
std::cout << " -- Setting up assembler ... " << std::flush;
}
adrAssembler.setup (uFESpace, betaFESpace);
if (verbose)
{
std::cout << " done! " << std::endl;
}
if (verbose)
{
std::cout << " -- Defining the matrix ... " << std::flush;
}
boost::shared_ptr<matrix_Type>
systemMatrix (new matrix_Type (uFESpace->map() ) );
*systemMatrix *= 0.0;
if (verbose)
{
std::cout << " done! " << std::endl;
}
// Perform the assembly of the matrix
if (verbose)
{
std::cout << " -- Adding the diffusion ... " << std::flush;
}
adrAssembler.addDiffusion (systemMatrix, 1);
if (verbose)
{
std::cout << " done! " << std::endl;
}
if (verbose) std::cout << " Time needed : "
<< adrAssembler.diffusionAssemblyChrono().diffCumul()
<< std::endl;
if (verbose)
{
std::cout << " -- Closing the matrix ... " << std::flush;
}
systemMatrix->globalAssemble();
if (verbose)
{
std::cout << " done ! " << std::endl;
}
Real matrixNorm (systemMatrix->normFrobenius() );
if (verbose)
{
std::cout << " ---> Norm 2 : " << matrixNorm << std::endl;
}
if (std::fabs (matrixNorm - 35.908) > 1e-3)
{
std::cout << " <!> Matrix has changed !!! <!> " << std::endl;
return EXIT_FAILURE;
}
if (verbose)
{
std::cout << "End Result: TEST PASSED" << std::endl;
}
MPI_Finalize();
#else
std::cout << "This test needs MPI to run. Aborting." << std::endl;
return (EXIT_FAILURE);
#endif /* HAVE_MPI */
#else
std::cout << "This test needs HDF5 to run. Aborting." << std::endl;
return (EXIT_FAILURE);
#endif /* LIFEV_HAS_HDF5 */
return ( EXIT_SUCCESS );
}