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trilinos_epetra_matrix.C

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// The libMesh Finite Element Library.
// Copyright (C) 2002-2012 Benjamin S. Kirk, John W. Peterson, Roy H. Stogner

// This library is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free Software Foundation; either
// version 2.1 of the License, or (at your option) any later version.

// This library is distributed in the hope that it will be useful,
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
// Lesser General Public License for more details.

// You should have received a copy of the GNU Lesser General Public
// License along with this library; if not, write to the Free Software
// Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA


// C++ includes
#include "libmesh/libmesh_config.h"

#ifdef LIBMESH_HAVE_TRILINOS

// Local includes
#include "libmesh/trilinos_epetra_matrix.h"
#include "libmesh/trilinos_epetra_vector.h"
#include "libmesh/dof_map.h"
#include "libmesh/dense_matrix.h"
#include "libmesh/parallel.h"
#include "libmesh/sparsity_pattern.h"

namespace libMesh
{



//-----------------------------------------------------------------------
//EpetraMatrix members

template <typename T>
void EpetraMatrix<T>::update_sparsity_pattern (const SparsityPattern::Graph &sparsity_pattern)
{
  // clear data, start over
  this->clear ();

  // big trouble if this fails!
  libmesh_assert(this->_dof_map);

  const numeric_index_type n_rows = sparsity_pattern.size();

  const numeric_index_type m   = this->_dof_map->n_dofs();
  const numeric_index_type n   = m;
  const numeric_index_type n_l = this->_dof_map->n_dofs_on_processor(libMesh::processor_id());
  const numeric_index_type m_l = n_l;

  // error checking
#ifndef NDEBUG
  {
    libmesh_assert_equal_to (n, m);
    libmesh_assert_equal_to (n_l, m_l);

    numeric_index_type
      summed_m_l = m_l,
      summed_n_l = n_l;

    CommWorld.sum (summed_m_l);
    CommWorld.sum (summed_n_l);

    libmesh_assert_equal_to (m, summed_m_l);
    libmesh_assert_equal_to (n, summed_n_l);
  }
#endif

  // build a map defining the data distribution
  _map = new Epetra_Map (static_cast<int>(m),
                         m_l,
                         0,
                         Epetra_MpiComm (libMesh::COMM_WORLD));

  libmesh_assert_equal_to (static_cast<numeric_index_type>(_map->NumGlobalPoints()), m);
  libmesh_assert_equal_to (static_cast<numeric_index_type>(_map->MaxAllGID()+1), m);

  const std::vector<numeric_index_type>& n_nz = this->_dof_map->get_n_nz();
  const std::vector<numeric_index_type>& n_oz = this->_dof_map->get_n_oz();

   // Make sure the sparsity pattern isn't empty
  libmesh_assert_equal_to (n_nz.size(), n_l);
  libmesh_assert_equal_to (n_oz.size(), n_l);

  // Epetra wants the total number of nonzeros, both local and remote.
  std::vector<int> n_nz_tot;  n_nz_tot.reserve(n_nz.size());

  for (numeric_index_type i=0; i<n_nz.size(); i++)
    n_nz_tot.push_back(std::min(n_nz[i] + n_oz[i], n));

  if (m==0)
    return;

  _graph = new Epetra_CrsGraph(Copy, *_map, &n_nz_tot[0]);

  // Tell the matrix about its structure.  Initialize it
  // to zero.
  for (numeric_index_type i=0; i<n_rows; i++)
    _graph->InsertGlobalIndices(_graph->GRID(i),
                                sparsity_pattern[i].size(),
                                const_cast<int *>((const int *)&sparsity_pattern[i][0]));

  _graph->FillComplete();

  //Initialize the matrix
  libmesh_assert (!this->initialized());
  this->init ();
  libmesh_assert (this->initialized());
}



template <typename T>
void EpetraMatrix<T>::init (const numeric_index_type m,
                            const numeric_index_type n,
                            const numeric_index_type m_l,
                            const numeric_index_type n_l,
                            const numeric_index_type nnz,
                            const numeric_index_type noz)
{
  if ((m==0) || (n==0))
    return;

  {
    // Clear initialized matrices
    if (this->initialized())
      this->clear();

    libmesh_assert (!this->_mat);
    libmesh_assert (!this->_map);

    this->_is_initialized = true;
  }

  // error checking
#ifndef NDEBUG
  {
    libmesh_assert_equal_to (n, m);
    libmesh_assert_equal_to (n_l, m_l);

    numeric_index_type
      summed_m_l = m_l,
      summed_n_l = n_l;

    CommWorld.sum (summed_m_l);
    CommWorld.sum (summed_n_l);

    libmesh_assert_equal_to (m, summed_m_l);
    libmesh_assert_equal_to (n, summed_n_l);
  }
#endif

  // build a map defining the data distribution
  _map = new Epetra_Map (static_cast<int>(m),
                         m_l,
                         0,
                         Epetra_MpiComm (libMesh::COMM_WORLD));

  libmesh_assert_equal_to (static_cast<numeric_index_type>(_map->NumGlobalPoints()), m);
  libmesh_assert_equal_to (static_cast<numeric_index_type>(_map->MaxAllGID()+1), m);

  _mat = new Epetra_FECrsMatrix (Copy, *_map, nnz + noz);
}




template <typename T>
void EpetraMatrix<T>::init ()
{
  libmesh_assert(this->_dof_map);

  {
    // Clear initialized matrices
    if (this->initialized())
      this->clear();

    this->_is_initialized = true;
  }


  _mat = new Epetra_FECrsMatrix (Copy, *_graph);
}



template <typename T>
void EpetraMatrix<T>::zero ()
{
  libmesh_assert (this->initialized());

  _mat->Scale(0.0);
}



template <typename T>
void EpetraMatrix<T>::clear ()
{
//  delete _mat;
//  delete _map;

  this->_is_initialized = false;

  libmesh_assert (!this->initialized());
}



template <typename T>
Real EpetraMatrix<T>::l1_norm () const
{
  libmesh_assert (this->initialized());

  libmesh_assert(_mat);

  return static_cast<Real>(_mat->NormOne());
}



template <typename T>
Real EpetraMatrix<T>::linfty_norm () const
{
  libmesh_assert (this->initialized());


  libmesh_assert(_mat);

  return static_cast<Real>(_mat->NormInf());
}



template <typename T>
void EpetraMatrix<T>::print_matlab (const std::string) const
{
  libmesh_assert (this->initialized());

  // libmesh_assert (this->closed());
  this->close();

  libmesh_not_implemented();
}




template <typename T>
void EpetraMatrix<T>::add_matrix(const DenseMatrix<T>& dm,
                                 const std::vector<numeric_index_type>& rows,
                                 const std::vector<numeric_index_type>& cols)
{
  libmesh_assert (this->initialized());

  const numeric_index_type m = dm.m();
  const numeric_index_type n = dm.n();

  libmesh_assert_equal_to (rows.size(), m);
  libmesh_assert_equal_to (cols.size(), n);

  _mat->SumIntoGlobalValues(m, (int *)&rows[0], n, (int *)&cols[0], &dm.get_values()[0]);
}






template <typename T>
void EpetraMatrix<T>::get_diagonal (NumericVector<T>& dest) const
{
  // Convert vector to EpetraVector.
  EpetraVector<T>* epetra_dest = libmesh_cast_ptr<EpetraVector<T>*>(&dest);

  // Call Epetra function.
  _mat->ExtractDiagonalCopy(*(epetra_dest->vec()));
}



template <typename T>
void EpetraMatrix<T>::get_transpose (SparseMatrix<T>& dest) const
{
  // Make sure the SparseMatrix passed in is really a EpetraMatrix
  EpetraMatrix<T>& epetra_dest = libmesh_cast_ref<EpetraMatrix<T>&>(dest);

  if(&epetra_dest != this)
    epetra_dest = *this;

  epetra_dest._use_transpose = !epetra_dest._use_transpose;
  epetra_dest._mat->SetUseTranspose(epetra_dest._use_transpose);
}



template <typename T>
EpetraMatrix<T>::EpetraMatrix()
  : _destroy_mat_on_exit(true),
    _use_transpose(false)
{}




template <typename T>
EpetraMatrix<T>::EpetraMatrix(Epetra_FECrsMatrix * m)
 : _destroy_mat_on_exit(false),
   _use_transpose(false) // dumb guess is the best we can do...
{
  this->_mat = m;
  this->_is_initialized = true;
}




template <typename T>
EpetraMatrix<T>::~EpetraMatrix()
{
  this->clear();
}



template <typename T>
void EpetraMatrix<T>::close () const
{
  libmesh_assert(_mat);

  _mat->GlobalAssemble();
}



template <typename T>
numeric_index_type EpetraMatrix<T>::m () const
{
  libmesh_assert (this->initialized());

  return static_cast<numeric_index_type>(_mat->NumGlobalRows());
}



template <typename T>
numeric_index_type EpetraMatrix<T>::n () const
{
  libmesh_assert (this->initialized());

  return static_cast<numeric_index_type>(_mat->NumGlobalCols());
}



template <typename T>
numeric_index_type EpetraMatrix<T>::row_start () const
{
  libmesh_assert (this->initialized());
  libmesh_assert(_map);

  return static_cast<numeric_index_type>(_map->MinMyGID());
}



template <typename T>
numeric_index_type EpetraMatrix<T>::row_stop () const
{
  libmesh_assert (this->initialized());
  libmesh_assert(_map);

  return static_cast<numeric_index_type>(_map->MaxMyGID())+1;
}



template <typename T>
void EpetraMatrix<T>::set (const numeric_index_type i,
                           const numeric_index_type j,
                           const T value)
{
  libmesh_assert (this->initialized());

  int
    epetra_i = static_cast<int>(i),
    epetra_j = static_cast<int>(j);

  T epetra_value = value;

  if (_mat->Filled())
    _mat->ReplaceGlobalValues (epetra_i, 1, &epetra_value, &epetra_j);
  else
    _mat->InsertGlobalValues (epetra_i, 1, &epetra_value, &epetra_j);
}



template <typename T>
void EpetraMatrix<T>::add (const numeric_index_type i,
                           const numeric_index_type j,
                           const T value)
{
  libmesh_assert (this->initialized());

  int
    epetra_i = static_cast<int>(i),
    epetra_j = static_cast<int>(j);

  T epetra_value = value;

  _mat->SumIntoGlobalValues (epetra_i, 1, &epetra_value, &epetra_j);
}



template <typename T>
void EpetraMatrix<T>::add_matrix(const DenseMatrix<T>& dm,
                                 const std::vector<numeric_index_type>& dof_indices)
{
  this->add_matrix (dm, dof_indices, dof_indices);
}



template <typename T>
void EpetraMatrix<T>::add (const T a_in, SparseMatrix<T> &X_in)
{
  libmesh_assert (this->initialized());

  // sanity check. but this cannot avoid
  // crash due to incompatible sparsity structure...
  libmesh_assert_equal_to (this->m(), X_in.m());
  libmesh_assert_equal_to (this->n(), X_in.n());

  EpetraMatrix<T>* X = libmesh_cast_ptr<EpetraMatrix<T>*> (&X_in);

  EpetraExt::MatrixMatrix::Add  (*X->_mat, false, a_in, *_mat, 1.);
}




template <typename T>
T EpetraMatrix<T>::operator () (const numeric_index_type i,
                                const numeric_index_type j) const
{
  libmesh_assert (this->initialized());
  libmesh_assert(this->_mat);
  libmesh_assert (this->_mat->MyGlobalRow(static_cast<int>(i)));
  libmesh_assert_greater_equal (i, this->row_start());
  libmesh_assert_less (i, this->row_stop());


  int row_length, *row_indices;
  double *values;

  _mat->ExtractMyRowView (i-this->row_start(),
                          row_length,
                          values,
                          row_indices);

  //libMesh::out << "row_length=" << row_length << std::endl;

  int *index = std::lower_bound (row_indices, row_indices+row_length, j);

  libmesh_assert_less (*index, row_length);
  libmesh_assert_equal_to (static_cast<numeric_index_type>(row_indices[*index]), j);

  //libMesh::out << "val=" << values[*index] << std::endl;

  return values[*index];
}




template <typename T>
bool EpetraMatrix<T>::closed() const
{
  libmesh_assert (this->initialized());
  libmesh_assert(this->_mat);

  return this->_mat->Filled();
}


template <typename T>
void EpetraMatrix<T>::swap(EpetraMatrix<T> & m)
{
   std::swap(_mat, m._mat);
   std::swap(_destroy_mat_on_exit, m._destroy_mat_on_exit);
}





template <typename T>
void EpetraMatrix<T>::print_personal(std::ostream& os) const
{
  libmesh_assert (this->initialized());
  libmesh_assert(_mat);

  os << *_mat;
}



//------------------------------------------------------------------
// Explicit instantiations
template class EpetraMatrix<Number>;

} // namespace libMesh


#endif // #ifdef LIBMESH_HAVE_TRILINOS

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Last modified: February 05 2013 19:54:49 UTC

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