libMesh::LaspackMatrix< T > Class Template Reference

#include <laspack_matrix.h>

Inheritance diagram for libMesh::LaspackMatrix< T >:

Public Member Functions
	LaspackMatrix (const Parallel::Communicator &comm)
	LaspackMatrix (LaspackMatrix &&)=delete
	LaspackMatrix (const LaspackMatrix &)=delete
LaspackMatrix &	operator= (const LaspackMatrix &)=delete
LaspackMatrix &	operator= (LaspackMatrix &&)=delete
virtual	~LaspackMatrix ()
virtual bool	need_full_sparsity_pattern () const override
virtual void	update_sparsity_pattern (const SparsityPattern::Graph &) override
virtual void	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=30, const numeric_index_type noz=10, const numeric_index_type blocksize=1) override
virtual void	init () override
virtual void	clear () override
virtual void	zero () override
virtual void	close () override
virtual numeric_index_type	m () const override
virtual numeric_index_type	n () const override
virtual numeric_index_type	row_start () const override
virtual numeric_index_type	row_stop () const override
virtual void	set (const numeric_index_type i, const numeric_index_type j, const T value) override
virtual void	add (const numeric_index_type i, const numeric_index_type j, const T value) override
virtual void	add_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &rows, const std::vector< numeric_index_type > &cols) override
virtual void	add_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &dof_indices) override
virtual void	add (const T a, const SparseMatrix< T > &X) override
virtual T	operator() (const numeric_index_type i, const numeric_index_type j) const override
virtual Real	l1_norm () const override
virtual Real	linfty_norm () const override
virtual bool	closed () const override
virtual void	print_personal (std::ostream &os=libMesh::out) const override
virtual void	get_diagonal (NumericVector< T > &dest) const override
virtual void	get_transpose (SparseMatrix< T > &dest) const override
virtual bool	initialized () const
void	attach_dof_map (const DofMap &dof_map)
virtual void	zero_rows (std::vector< numeric_index_type > &rows, T diag_value=0.0)
virtual void	flush ()
virtual void	add_block_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &brows, const std::vector< numeric_index_type > &bcols)
virtual void	add_block_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &dof_indices)
void	print (std::ostream &os=libMesh::out, const bool sparse=false) const
template<>
void	print (std::ostream &os, const bool sparse) const
virtual void	print_matlab (const std::string &="") const
virtual void	create_submatrix (SparseMatrix< T > &submatrix, const std::vector< numeric_index_type > &rows, const std::vector< numeric_index_type > &cols) const
virtual void	reinit_submatrix (SparseMatrix< T > &submatrix, const std::vector< numeric_index_type > &rows, const std::vector< numeric_index_type > &cols) const
void	vector_mult (NumericVector< T > &dest, const NumericVector< T > &arg) const
void	vector_mult_add (NumericVector< T > &dest, const NumericVector< T > &arg) const
const Parallel::Communicator &	comm () const
processor_id_type	n_processors () const
processor_id_type	processor_id () const

Static Public Member Functions
static std::unique_ptr< SparseMatrix< T > >	build (const Parallel::Communicator &comm, const SolverPackage solver_package=libMesh::default_solver_package())
static std::string	get_info ()
static void	print_info (std::ostream &out=libMesh::out)
static unsigned int	n_objects ()
static void	enable_print_counter_info ()
static void	disable_print_counter_info ()

Protected Types
typedef std::map< std::string, std::pair< unsigned int, unsigned int > >	Counts

Protected Member Functions
virtual void	_get_submatrix (SparseMatrix< T > &, const std::vector< numeric_index_type > &, const std::vector< numeric_index_type > &, const bool) const
void	increment_constructor_count (const std::string &name)
void	increment_destructor_count (const std::string &name)

Protected Attributes
DofMap const *	_dof_map
bool	_is_initialized
const Parallel::Communicator &	_communicator

Static Protected Attributes
static Counts	_counts
static Threads::atomic< unsigned int >	_n_objects
static Threads::spin_mutex	_mutex
static bool	_enable_print_counter = true

Private Member Functions
numeric_index_type	pos (const numeric_index_type i, const numeric_index_type j) const

Private Attributes
QMatrix	_QMat
std::vector< numeric_index_type >	_csr
std::vector< std::vector< numeric_index_type >::const_iterator >	_row_start
bool	_closed

Friends
class	LaspackVector< T >
class	LaspackLinearSolver< T >

Detailed Description

template<typename T>
class libMesh::LaspackMatrix< T >

The LaspackMatrix class wraps a QMatrix object from the Laspack library. Currently Laspack only supports real datatypes, so this class is a full specialization of SparseMatrix<T> with T = Real. All overridden virtual functions are documented in sparse_matrix.h.

Author

Benjamin S. Kirk

Date

2003

Definition at line 56 of file laspack_matrix.h.

Member Typedef Documentation

Counts

typedef std::map<std::string, std::pair<unsigned int, unsigned int> > libMesh::ReferenceCounter::Counts

protectedinherited

Data structure to log the information. The log is identified by the class name.

Definition at line 117 of file reference_counter.h.

Constructor & Destructor Documentation

LaspackMatrix() [1/3]

template<typename T >

libMesh::LaspackMatrix< T >::LaspackMatrix

(

const Parallel::Communicator &

comm

)

Constructor; initializes the matrix to be empty, without any structure, i.e. the matrix is not usable at all. This constructor is therefore only useful for matrices which are members of a class. All other matrices should be created at a point in the data flow where all necessary information is available.

You have to initialize the matrix before usage with init(...).

Definition at line 234 of file laspack_matrix.C.

                                                                  :
  SparseMatrix<T>(comm),
  _closed (false)
{
}

LaspackMatrix() [2/3]

template<typename T>

libMesh::LaspackMatrix< T >::LaspackMatrix ( LaspackMatrix< T > &&  )

delete

This class manages a C-style struct (QMatrix) manually, so we don't want to allow any automatic copy/move functions to be generated, and we can't default the destructor.

LaspackMatrix() [3/3]

template<typename T>

libMesh::LaspackMatrix< T >::LaspackMatrix ( const LaspackMatrix< T > &  )

delete

~LaspackMatrix()

template<typename T >

libMesh::LaspackMatrix< T >::~LaspackMatrix ( )

virtual

Definition at line 243 of file laspack_matrix.C.

{
  this->clear ();
}

Member Function Documentation

_get_submatrix()

template<typename T>

virtual void libMesh::SparseMatrix< T >::_get_submatrix ( SparseMatrix< T > &  , const std::vector< numeric_index_type > &  , const std::vector< numeric_index_type > &  , const bool    ) const

inlineprotectedvirtualinherited

Protected implementation of the create_submatrix and reinit_submatrix routines.

Note

This function must be overridden in derived classes for it to work properly!

Reimplemented in libMesh::PetscMatrix< T >.

Definition at line 414 of file sparse_matrix.h.

Referenced by libMesh::SparseMatrix< ValOut >::create_submatrix(), and libMesh::SparseMatrix< ValOut >::reinit_submatrix().

  {
    libmesh_not_implemented();
  }

add() [1/2]

template<typename T >

void libMesh::LaspackMatrix< T >::add ( const numeric_index_type  i, const numeric_index_type  j, const T  value  )

overridevirtual

Add value to the element (i,j). Throws an error if the entry does not exist. Zero values can be "added" to non-existent entries.

Implements libMesh::SparseMatrix< T >.

Definition at line 353 of file laspack_matrix.C.

References libMesh::initialized(), and value.

{
  libmesh_assert (this->initialized());
  libmesh_assert_less (i, this->m());
  libmesh_assert_less (j, this->n());

  const numeric_index_type position = this->pos(i,j);

  // Sanity check
  libmesh_assert_equal_to (*(_row_start[i]+position), j);

  Q_AddVal (&_QMat, i+1, position, value);
}

add() [2/2]

template<typename T >

void libMesh::LaspackMatrix< T >::add ( const T  a, const SparseMatrix< T > &  X  )

overridevirtual

Compute A += a*X for scalar a, matrix X.

Note

LASPACK does not provide a true axpy for matrices, so a hand-coded version with hopefully acceptable performance is provided.

Implements libMesh::SparseMatrix< T >.

Definition at line 381 of file laspack_matrix.C.

References libMesh::initialized(), libMesh::SparseMatrix< T >::m(), libMesh::SparseMatrix< T >::n(), and value.

{
  libmesh_assert (this->initialized());
  libmesh_assert_equal_to (this->m(), X_in.m());
  libmesh_assert_equal_to (this->n(), X_in.n());

  const LaspackMatrix<T> * X =
    cast_ptr<const LaspackMatrix<T> *> (&X_in);

  _LPNumber a = static_cast<_LPNumber> (a_in);

  libmesh_assert(X);

  // loops taken from LaspackMatrix<T>::zero ()

  const numeric_index_type n_rows = this->m();

  for (numeric_index_type row=0; row<n_rows; row++)
    {
      auto r_start = _row_start[row];

      const numeric_index_type len = (_row_start[row+1] - _row_start[row]);

      // Make sure we agree on the row length
      libmesh_assert_equal_to (len, Q_GetLen(&_QMat, row+1));
      // compare matrix sparsity structures
      libmesh_assert_equal_to (len, Q_GetLen(&(X->_QMat), row+1));


      for (numeric_index_type l=0; l<len; l++)
        {
          const numeric_index_type j = *(r_start + l);

          // Make sure the data structures are working
          libmesh_assert_equal_to ((j+1), Q_GetPos (&_QMat, row+1, l));

          const _LPNumber value = a * Q_GetEl(const_cast<QMatrix*>(&(X->_QMat)), row+1, j+1);
          Q_AddVal   (&_QMat, row+1, l, value);
        }
    }
}

add_block_matrix() [1/2]

template<typename T>

void libMesh::SparseMatrix< T >::add_block_matrix ( const DenseMatrix< T > &  dm, const std::vector< numeric_index_type > &  brows, const std::vector< numeric_index_type > &  bcols  )

virtualinherited

Add the full matrix dm to the SparseMatrix. This is useful for adding an element matrix at assembly time. The matrix is assumed blocked, and brow, bcol correspond to the block row and column indices.

Reimplemented in libMesh::PetscMatrix< T >.

Definition at line 56 of file sparse_matrix.C.

Referenced by libMesh::SparseMatrix< ValOut >::add_block_matrix().

{
  libmesh_assert_equal_to (dm.m() / brows.size(), dm.n() / bcols.size());

  const numeric_index_type blocksize = cast_int<numeric_index_type>
    (dm.m() / brows.size());

  libmesh_assert_equal_to (dm.m()%blocksize, 0);
  libmesh_assert_equal_to (dm.n()%blocksize, 0);

  std::vector<numeric_index_type> rows, cols;

  rows.reserve(blocksize*brows.size());
  cols.reserve(blocksize*bcols.size());

  for (std::size_t ib=0; ib<brows.size(); ib++)
    {
      numeric_index_type i=brows[ib]*blocksize;

      for (unsigned int v=0; v<blocksize; v++)
        rows.push_back(i++);
    }

  for (std::size_t jb=0; jb<bcols.size(); jb++)
    {
      numeric_index_type j=bcols[jb]*blocksize;

      for (unsigned int v=0; v<blocksize; v++)
        cols.push_back(j++);
    }

  this->add_matrix (dm, rows, cols);
}

add_block_matrix() [2/2]

template<typename T>

virtual void libMesh::SparseMatrix< T >::add_block_matrix ( const DenseMatrix< T > &  dm, const std::vector< numeric_index_type > &  dof_indices  )

inlinevirtualinherited

Same as add_block_matrix(), but assumes the row and column maps are the same. Thus the matrix dm must be square.

Reimplemented in libMesh::PetscMatrix< T >.

Definition at line 253 of file sparse_matrix.h.

  { this->add_block_matrix (dm, dof_indices, dof_indices); }

add_matrix() [1/2]

template<typename T >

void libMesh::LaspackMatrix< T >::add_matrix ( const DenseMatrix< T > &  dm, const std::vector< numeric_index_type > &  rows, const std::vector< numeric_index_type > &  cols  )

overridevirtual

Add the full matrix dm to the SparseMatrix. This is useful for adding an element matrix at assembly time.

Implements libMesh::SparseMatrix< T >.

Definition at line 198 of file laspack_matrix.C.

References libMesh::initialized(), libMesh::DenseMatrixBase< T >::m(), and libMesh::DenseMatrixBase< T >::n().

{
  libmesh_assert (this->initialized());
  unsigned int n_rows = cast_int<unsigned int>(rows.size());
  unsigned int n_cols = cast_int<unsigned int>(cols.size());
  libmesh_assert_equal_to (dm.m(), n_rows);
  libmesh_assert_equal_to (dm.n(), n_cols);


  for (unsigned int i=0; i<n_rows; i++)
    for (unsigned int j=0; j<n_cols; j++)
      this->add(rows[i],cols[j],dm(i,j));
}

add_matrix() [2/2]

template<typename T >

void libMesh::LaspackMatrix< T >::add_matrix ( const DenseMatrix< T > &  dm, const std::vector< numeric_index_type > &  dof_indices  )

overridevirtual

Same as add_matrix, but assumes the row and column maps are the same. Thus the matrix dm must be square.

Implements libMesh::SparseMatrix< T >.

Definition at line 372 of file laspack_matrix.C.

{
  this->add_matrix (dm, dof_indices, dof_indices);
}

attach_dof_map()

template<typename T>

void libMesh::SparseMatrix< T >::attach_dof_map ( const DofMap &  dof_map )

inlineinherited

Get a pointer to the DofMap to use.

Definition at line 109 of file sparse_matrix.h.

Referenced by libMesh::__libmesh_tao_hessian(), and libMesh::DofMap::attach_matrix().

  { _dof_map = &dof_map; }

build()

template<typename T >

std::unique_ptr< SparseMatrix< T > > libMesh::SparseMatrix< T >::build ( const Parallel::Communicator &  comm, const SolverPackage  solver_package = libMesh::default_solver_package()  )

staticinherited

Builds a SparseMatrix<T> using the linear solver package specified by solver_package

Definition at line 130 of file sparse_matrix.C.

Referenced by libMesh::ImplicitSystem::add_matrix(), libMesh::EigenSystem::init_data(), and libMesh::EigenSystem::init_matrices().

{
  // Avoid unused parameter warnings when no solver packages are enabled.
  libmesh_ignore(comm);

  // Build the appropriate vector
  switch (solver_package)
    {

#ifdef LIBMESH_HAVE_LASPACK
    case LASPACK_SOLVERS:
      return libmesh_make_unique<LaspackMatrix<T>>(comm);
#endif


#ifdef LIBMESH_HAVE_PETSC
    case PETSC_SOLVERS:
      return libmesh_make_unique<PetscMatrix<T>>(comm);
#endif


#ifdef LIBMESH_TRILINOS_HAVE_EPETRA
    case TRILINOS_SOLVERS:
      return libmesh_make_unique<EpetraMatrix<T>>(comm);
#endif


#ifdef LIBMESH_HAVE_EIGEN
    case EIGEN_SOLVERS:
      return libmesh_make_unique<EigenSparseMatrix<T>>(comm);
#endif

    default:
      libmesh_error_msg("ERROR:  Unrecognized solver package: " << solver_package);
    }
}

clear()

template<typename T >

void libMesh::LaspackMatrix< T >::clear ( )

overridevirtual

Restores the SparseMatrix<T> to a pristine state.

Implements libMesh::SparseMatrix< T >.

Definition at line 251 of file laspack_matrix.C.

References libMesh::libMeshPrivateData::_is_initialized, and libMesh::initialized().

{
  if (this->initialized())
    {
      Q_Destr(&_QMat);
    }

  _csr.clear();
  _row_start.clear();
  _closed = false;
  this->_is_initialized = false;
}

close()

template<typename T >

void libMesh::LaspackMatrix< T >::close ( )

overridevirtual

Calls the SparseMatrix's internal assembly routines, ensuring that the values are consistent across processors.

Implements libMesh::SparseMatrix< T >.

Definition at line 464 of file laspack_matrix.C.

References libMesh::initialized().

Referenced by libMesh::LaspackLinearSolver< T >::adjoint_solve(), and libMesh::LaspackLinearSolver< T >::solve().

{
  libmesh_assert(this->initialized());

  this->_closed = true;

  // We've probably changed some entries so we need to tell LASPACK
  // that cached data is now invalid.
  *_QMat.DiagElAlloc = _LPFalse;
  *_QMat.ElSorted = _LPFalse;
  if (*_QMat.ILUExists)
    {
      *_QMat.ILUExists = _LPFalse;
      Q_Destr(_QMat.ILU);
    }
}

closed()

template<typename T>

virtual bool libMesh::LaspackMatrix< T >::closed ( ) const

inlineoverridevirtual

Returns

true if the matrix has been assembled.

Implements libMesh::SparseMatrix< T >.

Definition at line 151 of file laspack_matrix.h.

References libMesh::LaspackMatrix< T >::_closed.

{ return _closed; }

comm()

const Parallel::Communicator& libMesh::ParallelObject::comm ( ) const

inlineinherited

Returns

A reference to the Parallel::Communicator object used by this mesh.

Definition at line 89 of file parallel_object.h.

References libMesh::ParallelObject::_communicator.

Referenced by libMesh::__libmesh_petsc_diff_solver_jacobian(), libMesh::__libmesh_petsc_diff_solver_monitor(), libMesh::__libmesh_petsc_diff_solver_residual(), libMesh::__libmesh_tao_equality_constraints(), libMesh::__libmesh_tao_equality_constraints_jacobian(), libMesh::__libmesh_tao_gradient(), libMesh::__libmesh_tao_hessian(), libMesh::__libmesh_tao_inequality_constraints(), libMesh::__libmesh_tao_inequality_constraints_jacobian(), libMesh::__libmesh_tao_objective(), libMesh::MeshRefinement::_coarsen_elements(), libMesh::ExactSolution::_compute_error(), libMesh::UniformRefinementEstimator::_estimate_error(), libMesh::BoundaryInfo::_find_id_maps(), libMesh::SlepcEigenSolver< T >::_petsc_shell_matrix_get_diagonal(), libMesh::PetscLinearSolver< T >::_petsc_shell_matrix_get_diagonal(), libMesh::SlepcEigenSolver< T >::_petsc_shell_matrix_mult(), libMesh::PetscLinearSolver< T >::_petsc_shell_matrix_mult(), libMesh::PetscLinearSolver< T >::_petsc_shell_matrix_mult_add(), libMesh::EquationSystems::_read_impl(), libMesh::MeshRefinement::_refine_elements(), libMesh::MeshRefinement::_smooth_flags(), libMesh::PetscDMWrapper::add_dofs_helper(), libMesh::PetscDMWrapper::add_dofs_to_section(), libMesh::ImplicitSystem::add_matrix(), libMesh::System::add_vector(), libMesh::UnstructuredMesh::all_second_order(), libMesh::MeshTools::Modification::all_tri(), libMesh::LaplaceMeshSmoother::allgather_graph(), libMesh::FEMSystem::assemble_qoi(), libMesh::MeshCommunication::assign_global_indices(), libMesh::DofMap::attach_matrix(), libMesh::MeshTools::Generation::build_extrusion(), libMesh::BoundaryInfo::build_node_list_from_side_list(), libMesh::EquationSystems::build_parallel_elemental_solution_vector(), libMesh::EquationSystems::build_parallel_solution_vector(), libMesh::PetscDMWrapper::build_section(), libMesh::PetscDMWrapper::build_sf(), libMesh::MeshBase::cache_elem_dims(), libMesh::System::calculate_norm(), libMesh::DofMap::check_dirichlet_bcid_consistency(), libMesh::PetscDMWrapper::check_section_n_dofs(), libMesh::Nemesis_IO_Helper::compute_num_global_elem_blocks(), libMesh::Nemesis_IO_Helper::compute_num_global_nodesets(), libMesh::Nemesis_IO_Helper::compute_num_global_sidesets(), libMesh::Problem_Interface::computeF(), libMesh::Problem_Interface::computeJacobian(), libMesh::Problem_Interface::computePreconditioner(), libMesh::ExodusII_IO::copy_elemental_solution(), libMesh::MeshTools::correct_node_proc_ids(), libMesh::MeshTools::create_bounding_box(), libMesh::MeshTools::create_nodal_bounding_box(), libMesh::MeshRefinement::create_parent_error_vector(), libMesh::MeshTools::create_processor_bounding_box(), libMesh::MeshTools::create_subdomain_bounding_box(), libMesh::MeshCommunication::delete_remote_elements(), libMesh::DofMap::distribute_dofs(), DMlibMeshFunction(), DMlibMeshJacobian(), DMlibMeshSetSystem_libMesh(), DMVariableBounds_libMesh(), libMesh::MeshRefinement::eliminate_unrefined_patches(), libMesh::EpetraVector< T >::EpetraVector(), libMesh::WeightedPatchRecoveryErrorEstimator::estimate_error(), libMesh::PatchRecoveryErrorEstimator::estimate_error(), libMesh::JumpErrorEstimator::estimate_error(), libMesh::AdjointRefinementEstimator::estimate_error(), libMesh::ExactErrorEstimator::estimate_error(), libMesh::MeshRefinement::flag_elements_by_elem_fraction(), libMesh::MeshRefinement::flag_elements_by_error_fraction(), libMesh::MeshRefinement::flag_elements_by_nelem_target(), libMesh::CondensedEigenSystem::get_eigenpair(), libMesh::DofMap::get_info(), libMesh::ImplicitSystem::get_linear_solver(), libMesh::LocationMap< T >::init(), libMesh::TimeSolver::init(), libMesh::SystemSubsetBySubdomain::init(), libMesh::PetscDMWrapper::init_and_attach_petscdm(), libMesh::EigenSystem::init_data(), libMesh::EigenSystem::init_matrices(), libMesh::OptimizationSystem::initialize_equality_constraints_storage(), libMesh::OptimizationSystem::initialize_inequality_constraints_storage(), libMesh::MeshTools::libmesh_assert_consistent_distributed(), libMesh::MeshTools::libmesh_assert_consistent_distributed_nodes(), libMesh::MeshTools::libmesh_assert_contiguous_dof_ids(), libMesh::MeshTools::libmesh_assert_parallel_consistent_new_node_procids(), libMesh::MeshTools::libmesh_assert_parallel_consistent_procids< Elem >(), libMesh::MeshTools::libmesh_assert_parallel_consistent_procids< Node >(), libMesh::MeshTools::libmesh_assert_topology_consistent_procids< Node >(), libMesh::MeshTools::libmesh_assert_valid_boundary_ids(), libMesh::MeshTools::libmesh_assert_valid_dof_ids(), libMesh::MeshTools::libmesh_assert_valid_neighbors(), libMesh::DistributedMesh::libmesh_assert_valid_parallel_flags(), libMesh::DistributedMesh::libmesh_assert_valid_parallel_object_ids(), libMesh::DistributedMesh::libmesh_assert_valid_parallel_p_levels(), libMesh::MeshTools::libmesh_assert_valid_refinement_flags(), libMesh::MeshTools::libmesh_assert_valid_unique_ids(), libMesh::libmesh_petsc_snes_fd_residual(), libMesh::libmesh_petsc_snes_jacobian(), libMesh::libmesh_petsc_snes_mffd_residual(), libMesh::libmesh_petsc_snes_postcheck(), libMesh::libmesh_petsc_snes_residual(), libMesh::libmesh_petsc_snes_residual_helper(), libMesh::MeshRefinement::limit_level_mismatch_at_edge(), libMesh::MeshRefinement::limit_level_mismatch_at_node(), libMesh::MeshRefinement::limit_overrefined_boundary(), libMesh::MeshRefinement::limit_underrefined_boundary(), libMesh::MeshRefinement::make_coarsening_compatible(), libMesh::MeshCommunication::make_elems_parallel_consistent(), libMesh::MeshRefinement::make_flags_parallel_consistent(), libMesh::MeshCommunication::make_new_node_proc_ids_parallel_consistent(), libMesh::MeshCommunication::make_new_nodes_parallel_consistent(), libMesh::MeshCommunication::make_node_ids_parallel_consistent(), libMesh::MeshCommunication::make_node_proc_ids_parallel_consistent(), libMesh::MeshCommunication::make_node_unique_ids_parallel_consistent(), libMesh::MeshCommunication::make_nodes_parallel_consistent(), libMesh::MeshCommunication::make_p_levels_parallel_consistent(), libMesh::MeshRefinement::make_refinement_compatible(), libMesh::FEMSystem::mesh_position_set(), libMesh::DistributedMesh::n_active_elem(), libMesh::MeshTools::n_active_levels(), libMesh::BoundaryInfo::n_boundary_conds(), libMesh::BoundaryInfo::n_edge_conds(), libMesh::CondensedEigenSystem::n_global_non_condensed_dofs(), libMesh::MeshTools::n_levels(), libMesh::BoundaryInfo::n_nodeset_conds(), libMesh::MeshTools::n_p_levels(), libMesh::BoundaryInfo::n_shellface_conds(), libMesh::DistributedMesh::parallel_max_elem_id(), libMesh::DistributedMesh::parallel_max_node_id(), libMesh::ReplicatedMesh::parallel_max_unique_id(), libMesh::DistributedMesh::parallel_max_unique_id(), libMesh::DistributedMesh::parallel_n_elem(), libMesh::DistributedMesh::parallel_n_nodes(), libMesh::SparsityPattern::Build::parallel_sync(), libMesh::MeshTools::paranoid_n_levels(), libMesh::petsc_auto_fieldsplit(), libMesh::System::point_gradient(), libMesh::System::point_hessian(), libMesh::System::point_value(), libMesh::MeshBase::prepare_for_use(), libMesh::Nemesis_IO::read(), libMesh::XdrIO::read(), libMesh::CheckpointIO::read_header(), libMesh::XdrIO::read_header(), libMesh::System::read_header(), libMesh::System::read_legacy_data(), libMesh::System::read_SCALAR_dofs(), libMesh::XdrIO::read_serialized_bc_names(), libMesh::XdrIO::read_serialized_bcs_helper(), libMesh::System::read_serialized_blocked_dof_objects(), libMesh::XdrIO::read_serialized_connectivity(), libMesh::XdrIO::read_serialized_nodes(), libMesh::XdrIO::read_serialized_nodesets(), libMesh::XdrIO::read_serialized_subdomain_names(), libMesh::System::read_serialized_vector(), libMesh::MeshBase::recalculate_n_partitions(), libMesh::MeshRefinement::refine_and_coarsen_elements(), libMesh::DistributedMesh::renumber_dof_objects(), libMesh::CheckpointIO::select_split_config(), libMesh::DofMap::set_nonlocal_dof_objects(), libMesh::PetscDMWrapper::set_point_range_in_section(), libMesh::PetscDiffSolver::setup_petsc_data(), libMesh::LaplaceMeshSmoother::smooth(), libMesh::split_mesh(), libMesh::MeshBase::subdomain_ids(), libMesh::BoundaryInfo::sync(), libMesh::MeshRefinement::test_level_one(), libMesh::MeshRefinement::test_unflagged(), libMesh::MeshTools::total_weight(), libMesh::MeshRefinement::uniformly_coarsen(), libMesh::NameBasedIO::write(), libMesh::XdrIO::write(), libMesh::System::write_SCALAR_dofs(), libMesh::XdrIO::write_serialized_bcs_helper(), libMesh::System::write_serialized_blocked_dof_objects(), libMesh::XdrIO::write_serialized_connectivity(), libMesh::XdrIO::write_serialized_nodes(), and libMesh::XdrIO::write_serialized_nodesets().

  { return _communicator; }

create_submatrix()

template<typename T>

virtual void libMesh::SparseMatrix< T >::create_submatrix ( SparseMatrix< T > &  submatrix, const std::vector< numeric_index_type > &  rows, const std::vector< numeric_index_type > &  cols  ) const

inlinevirtualinherited

This function creates a matrix called "submatrix" which is defined by the row and column indices given in the "rows" and "cols" entries. Currently this operation is only defined for the PetscMatrix type.

Definition at line 354 of file sparse_matrix.h.

  {
    this->_get_submatrix(submatrix,
                         rows,
                         cols,
                         false); // false means DO NOT REUSE submatrix
  }

disable_print_counter_info()

void libMesh::ReferenceCounter::disable_print_counter_info ( )

staticinherited

Definition at line 106 of file reference_counter.C.

References libMesh::ReferenceCounter::_enable_print_counter.

Referenced by libMesh::LibMeshInit::LibMeshInit().

{
  _enable_print_counter = false;
  return;
}

enable_print_counter_info()

void libMesh::ReferenceCounter::enable_print_counter_info ( )

staticinherited

Methods to enable/disable the reference counter output from print_info()

Definition at line 100 of file reference_counter.C.

References libMesh::ReferenceCounter::_enable_print_counter.

{
  _enable_print_counter = true;
  return;
}

flush()

template<typename T>

virtual void libMesh::SparseMatrix< T >::flush ( )

inlinevirtualinherited

For PETSc matrix , this function is similar to close but without shrinking memory. This is useful when we want to switch between ADD_VALUES and INSERT_VALUES. close should be called before using the matrix.

Reimplemented in libMesh::PetscMatrix< T >.

Definition at line 182 of file sparse_matrix.h.

{ close(); }

get_diagonal()

template<typename T >

void libMesh::LaspackMatrix< T >::get_diagonal ( NumericVector< T > &  dest ) const

overridevirtual

Copies the diagonal part of the matrix into dest.

Implements libMesh::SparseMatrix< T >.

Definition at line 218 of file laspack_matrix.C.

{
  libmesh_not_implemented();
}

get_info()

std::string libMesh::ReferenceCounter::get_info ( )

staticinherited

Gets a string containing the reference information.

Definition at line 47 of file reference_counter.C.

References libMesh::ReferenceCounter::_counts, and libMesh::Quality::name().

Referenced by libMesh::ReferenceCounter::print_info().

{
#if defined(LIBMESH_ENABLE_REFERENCE_COUNTING) && defined(DEBUG)

  std::ostringstream oss;

  oss << '\n'
      << " ---------------------------------------------------------------------------- \n"
      << "| Reference count information                                                |\n"
      << " ---------------------------------------------------------------------------- \n";

  for (const auto & pr : _counts)
    {
      const std::string name(pr.first);
      const unsigned int creations    = pr.second.first;
      const unsigned int destructions = pr.second.second;

      oss << "| " << name << " reference count information:\n"
          << "|  Creations:    " << creations    << '\n'
          << "|  Destructions: " << destructions << '\n';
    }

  oss << " ---------------------------------------------------------------------------- \n";

  return oss.str();

#else

  return "";

#endif
}

get_transpose()

template<typename T >

void libMesh::LaspackMatrix< T >::get_transpose ( SparseMatrix< T > &  dest ) const

overridevirtual

Copies the transpose of the matrix into dest, which may be *this.

Implements libMesh::SparseMatrix< T >.

Definition at line 226 of file laspack_matrix.C.

{
  libmesh_not_implemented();
}

increment_constructor_count()

void libMesh::ReferenceCounter::increment_constructor_count ( const std::string &  name )

inlineprotectedinherited

Increments the construction counter. Should be called in the constructor of any derived class that will be reference counted.

Definition at line 181 of file reference_counter.h.

References libMesh::ReferenceCounter::_counts, libMesh::Quality::name(), and libMesh::Threads::spin_mtx.

Referenced by libMesh::ReferenceCountedObject< RBParametrized >::ReferenceCountedObject().

{
  Threads::spin_mutex::scoped_lock lock(Threads::spin_mtx);
  std::pair<unsigned int, unsigned int> & p = _counts[name];

  p.first++;
}

increment_destructor_count()

void libMesh::ReferenceCounter::increment_destructor_count ( const std::string &  name )

inlineprotectedinherited

Increments the destruction counter. Should be called in the destructor of any derived class that will be reference counted.

Definition at line 194 of file reference_counter.h.

References libMesh::ReferenceCounter::_counts, libMesh::Quality::name(), and libMesh::Threads::spin_mtx.

Referenced by libMesh::ReferenceCountedObject< RBParametrized >::~ReferenceCountedObject().

{
  Threads::spin_mutex::scoped_lock lock(Threads::spin_mtx);
  std::pair<unsigned int, unsigned int> & p = _counts[name];

  p.second++;
}

init() [1/2]

template<typename T>

virtual void libMesh::LaspackMatrix< 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 = 30, const numeric_index_type  noz = 10, const numeric_index_type  blocksize = 1  )

overridevirtual

Initialize SparseMatrix with the specified sizes.

Parameters

m	The global number of rows.
n	The global number of columns.
m_l	The local number of rows.
n_l	The local number of columns.
nnz	The number of on-diagonal nonzeros per row (defaults to 30).
noz	The number of off-diagonal nonzeros per row (defaults to 10).
blocksize	Optional value indicating dense coupled blocks for systems with multiple variables all of the same type.

Implements libMesh::SparseMatrix< T >.

init() [2/2]

template<typename T >

void libMesh::LaspackMatrix< T >::init ( )

overridevirtual

Initialize this matrix using the sparsity structure computed by dof_map.

Implements libMesh::SparseMatrix< T >.

Definition at line 147 of file laspack_matrix.C.

References libMesh::libMeshPrivateData::_is_initialized, and libMesh::initialized().

{
  // Ignore calls on initialized objects
  if (this->initialized())
    return;

  // We need the DofMap for this!
  libmesh_assert(this->_dof_map);

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

  const numeric_index_type n_rows   = this->_dof_map->n_dofs();
#ifndef NDEBUG
  // The following variables are only used for assertions,
  // so avoid declaring them when asserts are inactive.
  const numeric_index_type n_cols   = n_rows;
  const numeric_index_type n_l = this->_dof_map->n_dofs_on_processor(0);
  const numeric_index_type m_l = n_l;
#endif

  // Laspack Matrices only work for uniprocessor cases
  libmesh_assert_equal_to (n_rows, n_cols);
  libmesh_assert_equal_to (m_l, n_rows);
  libmesh_assert_equal_to (n_l, n_cols);

#ifndef NDEBUG
  // The following variables are only used for assertions,
  // so avoid declaring them when asserts are inactive.
  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();
#endif

  // 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);

  if (n_rows==0)
    return;

  Q_Constr(&_QMat, const_cast<char *>("Mat"), n_rows, _LPFalse, Rowws, Normal, _LPTrue);

  this->_is_initialized = true;

  libmesh_assert_equal_to (n_rows, this->m());
}

initialized()

template<typename T>

virtual bool libMesh::SparseMatrix< T >::initialized ( ) const

inlinevirtualinherited

Returns

true if the matrix has been initialized, false otherwise.

Definition at line 104 of file sparse_matrix.h.

Referenced by libMesh::PetscMatrix< T >::_get_submatrix(), libMesh::ImplicitSystem::assemble(), and libMesh::ImplicitSystem::init_matrices().

{ return _is_initialized; }

l1_norm()

template<typename T>

virtual Real libMesh::LaspackMatrix< T >::l1_norm ( ) const

inlineoverridevirtual

Returns

The -norm of the matrix, that is the max column sum:

This is the natural matrix norm that is compatible with the -norm for vectors, i.e. . (cf. Haemmerlin-Hoffmann : Numerische Mathematik)

Implements libMesh::SparseMatrix< T >.

Definition at line 147 of file laspack_matrix.h.

{ libmesh_not_implemented(); return 0.; }

linfty_norm()

template<typename T>

virtual Real libMesh::LaspackMatrix< T >::linfty_norm ( ) const

inlineoverridevirtual

Returns

The -norm of the matrix, that is the max row sum:

This is the natural matrix norm that is compatible to the -norm of vectors, i.e. . (cf. Haemmerlin-Hoffmann : Numerische Mathematik)

Implements libMesh::SparseMatrix< T >.

Definition at line 149 of file laspack_matrix.h.

{ libmesh_not_implemented(); return 0.; }

m()

template<typename T >

numeric_index_type libMesh::LaspackMatrix< T >::m ( ) const

overridevirtual

Returns

The row-dimension of the matrix.

Implements libMesh::SparseMatrix< T >.

Definition at line 297 of file laspack_matrix.C.

References libMesh::initialized().

{
  libmesh_assert (this->initialized());

  return static_cast<numeric_index_type>(Q_GetDim(const_cast<QMatrix*>(&_QMat)));
}

n()

template<typename T >

numeric_index_type libMesh::LaspackMatrix< T >::n ( ) const

overridevirtual

Returns

The column-dimension of the matrix.

Implements libMesh::SparseMatrix< T >.

Definition at line 307 of file laspack_matrix.C.

References libMesh::initialized().

{
  libmesh_assert (this->initialized());

  return static_cast<numeric_index_type>(Q_GetDim(const_cast<QMatrix*>(&_QMat)));
}

n_objects()

static unsigned int libMesh::ReferenceCounter::n_objects ( )

inlinestaticinherited

Prints the number of outstanding (created, but not yet destroyed) objects.

Definition at line 83 of file reference_counter.h.

References libMesh::ReferenceCounter::_n_objects.

  { return _n_objects; }

n_processors()

processor_id_type libMesh::ParallelObject::n_processors ( ) const

inlineinherited

Returns

The number of processors in the group.

Definition at line 95 of file parallel_object.h.

References libMesh::ParallelObject::_communicator, and libMesh::Parallel::Communicator::size().

Referenced by libMesh::BoundaryInfo::_find_id_maps(), libMesh::PetscDMWrapper::add_dofs_to_section(), libMesh::DistributedMesh::add_elem(), libMesh::DistributedMesh::add_node(), libMesh::LaplaceMeshSmoother::allgather_graph(), libMesh::FEMSystem::assembly(), libMesh::AztecLinearSolver< T >::AztecLinearSolver(), libMesh::BoundaryInfo::build_node_list_from_side_list(), libMesh::EquationSystems::build_parallel_elemental_solution_vector(), libMesh::DistributedMesh::clear(), libMesh::Nemesis_IO_Helper::compute_border_node_ids(), libMesh::Nemesis_IO_Helper::construct_nemesis_filename(), libMesh::UnstructuredMesh::create_pid_mesh(), libMesh::MeshTools::create_processor_bounding_box(), libMesh::DofMap::distribute_dofs(), libMesh::DofMap::distribute_local_dofs_node_major(), libMesh::DofMap::distribute_local_dofs_var_major(), libMesh::EnsightIO::EnsightIO(), libMesh::MeshBase::get_info(), libMesh::SystemSubsetBySubdomain::init(), libMesh::PetscDMWrapper::init_and_attach_petscdm(), libMesh::Nemesis_IO_Helper::initialize(), libMesh::DistributedMesh::insert_elem(), libMesh::MeshTools::libmesh_assert_contiguous_dof_ids(), libMesh::MeshTools::libmesh_assert_parallel_consistent_new_node_procids(), libMesh::MeshTools::libmesh_assert_parallel_consistent_procids< Elem >(), libMesh::MeshTools::libmesh_assert_parallel_consistent_procids< Node >(), libMesh::MeshTools::libmesh_assert_topology_consistent_procids< Node >(), libMesh::MeshTools::libmesh_assert_valid_boundary_ids(), libMesh::MeshTools::libmesh_assert_valid_dof_ids(), libMesh::MeshTools::libmesh_assert_valid_neighbors(), libMesh::MeshTools::libmesh_assert_valid_refinement_flags(), libMesh::DofMap::local_variable_indices(), libMesh::MeshRefinement::make_coarsening_compatible(), libMesh::MeshBase::n_active_elem_on_proc(), libMesh::MeshBase::n_elem_on_proc(), libMesh::MeshBase::n_nodes_on_proc(), libMesh::MeshBase::partition(), libMesh::PetscLinearSolver< T >::PetscLinearSolver(), libMesh::System::point_gradient(), libMesh::System::point_hessian(), libMesh::System::point_value(), libMesh::NameBasedIO::read(), libMesh::Nemesis_IO::read(), libMesh::CheckpointIO::read(), libMesh::CheckpointIO::read_connectivity(), libMesh::XdrIO::read_header(), libMesh::CheckpointIO::read_nodes(), libMesh::System::read_parallel_data(), libMesh::System::read_SCALAR_dofs(), libMesh::System::read_serialized_blocked_dof_objects(), libMesh::System::read_serialized_vector(), libMesh::DistributedMesh::renumber_dof_objects(), libMesh::DofMap::set_nonlocal_dof_objects(), libMesh::PetscDMWrapper::set_point_range_in_section(), libMesh::MeshRefinement::uniformly_coarsen(), libMesh::DistributedMesh::update_parallel_id_counts(), libMesh::GMVIO::write_binary(), libMesh::GMVIO::write_discontinuous_gmv(), libMesh::System::write_parallel_data(), libMesh::System::write_SCALAR_dofs(), libMesh::XdrIO::write_serialized_bcs_helper(), libMesh::System::write_serialized_blocked_dof_objects(), libMesh::XdrIO::write_serialized_connectivity(), libMesh::XdrIO::write_serialized_nodes(), and libMesh::XdrIO::write_serialized_nodesets().

  { return cast_int<processor_id_type>(_communicator.size()); }

need_full_sparsity_pattern()

template<typename T>

virtual bool libMesh::LaspackMatrix< T >::need_full_sparsity_pattern ( ) const

inlineoverridevirtual

The LaspackMatrix needs the full sparsity pattern.

Reimplemented from libMesh::SparseMatrix< T >.

Definition at line 86 of file laspack_matrix.h.

  { return true; }

operator()()

template<typename T >

T libMesh::LaspackMatrix< T >::operator() ( const numeric_index_type  i, const numeric_index_type  j  ) const

overridevirtual

Returns

A copy of matrix entry (i,j).

Note

This may be an expensive operation, and you should always be careful where you call this function.

Implements libMesh::SparseMatrix< T >.

Definition at line 427 of file laspack_matrix.C.

References libMesh::initialized().

{
  libmesh_assert (this->initialized());
  libmesh_assert_less (i, this->m());
  libmesh_assert_less (j, this->n());

  return Q_GetEl (const_cast<QMatrix*>(&_QMat), i+1, j+1);
}

operator=() [1/2]

template<typename T>

LaspackMatrix& libMesh::LaspackMatrix< T >::operator= ( const LaspackMatrix< T > &  )

delete

operator=() [2/2]

template<typename T>

LaspackMatrix& libMesh::LaspackMatrix< T >::operator= ( LaspackMatrix< T > &&  )

delete

pos()

template<typename T >

numeric_index_type libMesh::LaspackMatrix< T >::pos ( const numeric_index_type  i, const numeric_index_type  j  ) const

private

Returns

The position in the compressed row storage scheme of the element.

Definition at line 440 of file laspack_matrix.C.

{
  libmesh_assert_less (i, this->m());
  libmesh_assert_less (j, this->n());
  libmesh_assert_less (i+1, _row_start.size());
  libmesh_assert (_row_start.back() == _csr.end());

  // note this requires the _csr to be sorted
  auto p = std::equal_range (_row_start[i], _row_start[i+1], j);

  // Make sure the row contains the element j
  libmesh_assert (p.first != p.second);

  // Make sure the values match
  libmesh_assert (*p.first == j);

  // Return the position in the compressed row
  return std::distance (_row_start[i], p.first);
}

print() [1/2]

template<>

void libMesh::SparseMatrix< Complex >::print ( std::ostream &  os, const bool  sparse  ) const

inherited

Definition at line 96 of file sparse_matrix.C.

{
  // std::complex<>::operator<<() is defined, but use this form

  if (sparse)
    {
      libmesh_not_implemented();
    }

  os << "Real part:" << std::endl;
  for (numeric_index_type i=0; i<this->m(); i++)
    {
      for (numeric_index_type j=0; j<this->n(); j++)
        os << std::setw(8) << (*this)(i,j).real() << " ";
      os << std::endl;
    }

  os << std::endl << "Imaginary part:" << std::endl;
  for (numeric_index_type i=0; i<this->m(); i++)
    {
      for (numeric_index_type j=0; j<this->n(); j++)
        os << std::setw(8) << (*this)(i,j).imag() << " ";
      os << std::endl;
    }
}

print() [2/2]

template<typename T >

void libMesh::SparseMatrix< T >::print ( std::ostream &  os = libMesh::out, const bool  sparse = false  ) const

inherited

Print the contents of the matrix to the screen in a uniform style, regardless of matrix/solver package being used.

Definition at line 200 of file sparse_matrix.C.

Referenced by libMesh::EigenSparseMatrix< T >::print_personal(), and libMesh::LaspackMatrix< T >::print_personal().

{
  parallel_object_only();

  libmesh_assert (this->initialized());

  if (!this->_dof_map)
    libmesh_error_msg("Error!  Trying to print a matrix with no dof_map set!");

  // We'll print the matrix from processor 0 to make sure
  // it's serialized properly
  if (this->processor_id() == 0)
    {
      libmesh_assert_equal_to (this->_dof_map->first_dof(), 0);
      for (numeric_index_type i=this->_dof_map->first_dof();
           i!=this->_dof_map->end_dof(); ++i)
        {
          if (sparse)
            {
              for (numeric_index_type j=0; j<this->n(); j++)
                {
                  T c = (*this)(i,j);
                  if (c != static_cast<T>(0.0))
                    {
                      os << i << " " << j << " " << c << std::endl;
                    }
                }
            }
          else
            {
              for (numeric_index_type j=0; j<this->n(); j++)
                os << (*this)(i,j) << " ";
              os << std::endl;
            }
        }

      std::vector<numeric_index_type> ibuf, jbuf;
      std::vector<T> cbuf;
      numeric_index_type currenti = this->_dof_map->end_dof();
      for (processor_id_type p=1; p < this->n_processors(); ++p)
        {
          this->comm().receive(p, ibuf);
          this->comm().receive(p, jbuf);
          this->comm().receive(p, cbuf);
          libmesh_assert_equal_to (ibuf.size(), jbuf.size());
          libmesh_assert_equal_to (ibuf.size(), cbuf.size());

          if (ibuf.empty())
            continue;
          libmesh_assert_greater_equal (ibuf.front(), currenti);
          libmesh_assert_greater_equal (ibuf.back(), ibuf.front());

          std::size_t currentb = 0;
          for (;currenti <= ibuf.back(); ++currenti)
            {
              if (sparse)
                {
                  for (numeric_index_type j=0; j<this->n(); j++)
                    {
                      if (currentb < ibuf.size() &&
                          ibuf[currentb] == currenti &&
                          jbuf[currentb] == j)
                        {
                          os << currenti << " " << j << " " << cbuf[currentb] << std::endl;
                          currentb++;
                        }
                    }
                }
              else
                {
                  for (numeric_index_type j=0; j<this->n(); j++)
                    {
                      if (currentb < ibuf.size() &&
                          ibuf[currentb] == currenti &&
                          jbuf[currentb] == j)
                        {
                          os << cbuf[currentb] << " ";
                          currentb++;
                        }
                      else
                        os << static_cast<T>(0.0) << " ";
                    }
                  os << std::endl;
                }
            }
        }
      if (!sparse)
        {
          for (; currenti != this->m(); ++currenti)
            {
              for (numeric_index_type j=0; j<this->n(); j++)
                os << static_cast<T>(0.0) << " ";
              os << std::endl;
            }
        }
    }
  else
    {
      std::vector<numeric_index_type> ibuf, jbuf;
      std::vector<T> cbuf;

      // We'll assume each processor has access to entire
      // matrix rows, so (*this)(i,j) is valid if i is a local index.
      for (numeric_index_type i=this->_dof_map->first_dof();
           i!=this->_dof_map->end_dof(); ++i)
        {
          for (numeric_index_type j=0; j<this->n(); j++)
            {
              T c = (*this)(i,j);
              if (c != static_cast<T>(0.0))
                {
                  ibuf.push_back(i);
                  jbuf.push_back(j);
                  cbuf.push_back(c);
                }
            }
        }
      this->comm().send(0,ibuf);
      this->comm().send(0,jbuf);
      this->comm().send(0,cbuf);
    }
}

print_info()

void libMesh::ReferenceCounter::print_info ( std::ostream &  out = libMesh::out )

staticinherited

Prints the reference information, by default to libMesh::out.

Definition at line 87 of file reference_counter.C.

References libMesh::ReferenceCounter::_enable_print_counter, and libMesh::ReferenceCounter::get_info().

{
  if (_enable_print_counter)
    out_stream << ReferenceCounter::get_info();
}

print_matlab()

template<typename T>

virtual void libMesh::SparseMatrix< T >::print_matlab ( const std::string &  = "" ) const

inlinevirtualinherited

Print the contents of the matrix in Matlab's sparse matrix format. Optionally prints the matrix to the file named name. If name is not specified it is dumped to the screen.

Reimplemented in libMesh::PetscMatrix< T >.

Definition at line 344 of file sparse_matrix.h.

  {
    libmesh_not_implemented();
  }

print_personal()

template<typename T>

virtual void libMesh::LaspackMatrix< T >::print_personal ( std::ostream &  os = libMesh::out ) const

inlineoverridevirtual

Print the contents of the matrix to the screen in a package-personalized style, if available.

Implements libMesh::SparseMatrix< T >.

Definition at line 153 of file laspack_matrix.h.

References libMesh::SparseMatrix< T >::print().

{ this->print(os); }

processor_id()

processor_id_type libMesh::ParallelObject::processor_id ( ) const

inlineinherited

Returns

The rank of this processor in the group.

Definition at line 101 of file parallel_object.h.

References libMesh::ParallelObject::_communicator, and libMesh::Parallel::Communicator::rank().

Referenced by libMesh::BoundaryInfo::_find_id_maps(), libMesh::EquationSystems::_read_impl(), libMesh::PetscDMWrapper::add_dofs_to_section(), libMesh::DistributedMesh::add_elem(), libMesh::BoundaryInfo::add_elements(), libMesh::DofMap::add_neighbors_to_send_list(), libMesh::DistributedMesh::add_node(), libMesh::UnstructuredMesh::all_second_order(), libMesh::MeshTools::Modification::all_tri(), libMesh::FEMSystem::assembly(), libMesh::EquationSystems::build_discontinuous_solution_vector(), libMesh::Nemesis_IO_Helper::build_element_and_node_maps(), libMesh::InfElemBuilder::build_inf_elem(), libMesh::BoundaryInfo::build_node_list_from_side_list(), libMesh::EquationSystems::build_parallel_elemental_solution_vector(), libMesh::DistributedMesh::clear(), libMesh::ExodusII_IO_Helper::close(), libMesh::Nemesis_IO_Helper::compute_border_node_ids(), libMesh::Nemesis_IO_Helper::compute_communication_map_parameters(), libMesh::Nemesis_IO_Helper::compute_internal_and_border_elems_and_internal_nodes(), libMesh::Nemesis_IO_Helper::compute_node_communication_maps(), libMesh::Nemesis_IO_Helper::compute_num_global_elem_blocks(), libMesh::Nemesis_IO_Helper::compute_num_global_nodesets(), libMesh::Nemesis_IO_Helper::compute_num_global_sidesets(), libMesh::Nemesis_IO_Helper::construct_nemesis_filename(), libMesh::MeshTools::correct_node_proc_ids(), libMesh::ExodusII_IO_Helper::create(), libMesh::DistributedMesh::delete_elem(), libMesh::DistributedMesh::delete_node(), libMesh::MeshCommunication::delete_remote_elements(), libMesh::DofMap::distribute_dofs(), libMesh::DofMap::distribute_local_dofs_node_major(), libMesh::DofMap::distribute_local_dofs_var_major(), libMesh::DistributedMesh::DistributedMesh(), libMesh::DofMap::end_dof(), libMesh::DofMap::end_old_dof(), libMesh::EnsightIO::EnsightIO(), libMesh::MeshFunction::find_element(), libMesh::MeshFunction::find_elements(), libMesh::UnstructuredMesh::find_neighbors(), libMesh::DofMap::first_dof(), libMesh::DofMap::first_old_dof(), libMesh::Nemesis_IO_Helper::get_cmap_params(), libMesh::Nemesis_IO_Helper::get_eb_info_global(), libMesh::Nemesis_IO_Helper::get_elem_cmap(), libMesh::Nemesis_IO_Helper::get_elem_map(), libMesh::MeshBase::get_info(), libMesh::DofMap::get_info(), libMesh::Nemesis_IO_Helper::get_init_global(), libMesh::Nemesis_IO_Helper::get_init_info(), libMesh::Nemesis_IO_Helper::get_loadbal_param(), libMesh::Nemesis_IO_Helper::get_node_cmap(), libMesh::Nemesis_IO_Helper::get_node_map(), libMesh::Nemesis_IO_Helper::get_ns_param_global(), libMesh::Nemesis_IO_Helper::get_ss_param_global(), libMesh::SparsityPattern::Build::handle_vi_vj(), libMesh::SystemSubsetBySubdomain::init(), libMesh::ExodusII_IO_Helper::initialize(), libMesh::ExodusII_IO_Helper::initialize_element_variables(), libMesh::ExodusII_IO_Helper::initialize_global_variables(), libMesh::ExodusII_IO_Helper::initialize_nodal_variables(), libMesh::DistributedMesh::insert_elem(), libMesh::DofMap::is_evaluable(), libMesh::SparsityPattern::Build::join(), libMesh::DofMap::last_dof(), libMesh::MeshTools::libmesh_assert_consistent_distributed(), libMesh::MeshTools::libmesh_assert_consistent_distributed_nodes(), libMesh::MeshTools::libmesh_assert_contiguous_dof_ids(), libMesh::MeshTools::libmesh_assert_parallel_consistent_procids< Elem >(), libMesh::MeshTools::libmesh_assert_valid_neighbors(), libMesh::DistributedMesh::libmesh_assert_valid_parallel_object_ids(), libMesh::DofMap::local_variable_indices(), libMesh::MeshRefinement::make_coarsening_compatible(), libMesh::MeshBase::n_active_local_elem(), libMesh::BoundaryInfo::n_boundary_conds(), libMesh::BoundaryInfo::n_edge_conds(), libMesh::DofMap::n_local_dofs(), libMesh::System::n_local_dofs(), libMesh::MeshBase::n_local_elem(), libMesh::MeshBase::n_local_nodes(), libMesh::BoundaryInfo::n_nodeset_conds(), libMesh::BoundaryInfo::n_shellface_conds(), libMesh::SparsityPattern::Build::operator()(), libMesh::DistributedMesh::own_node(), libMesh::System::point_gradient(), libMesh::System::point_hessian(), libMesh::System::point_value(), libMesh::Nemesis_IO_Helper::put_cmap_params(), libMesh::Nemesis_IO_Helper::put_elem_cmap(), libMesh::Nemesis_IO_Helper::put_elem_map(), libMesh::Nemesis_IO_Helper::put_loadbal_param(), libMesh::Nemesis_IO_Helper::put_node_cmap(), libMesh::Nemesis_IO_Helper::put_node_map(), libMesh::NameBasedIO::read(), libMesh::Nemesis_IO::read(), libMesh::XdrIO::read(), libMesh::CheckpointIO::read(), libMesh::ExodusII_IO_Helper::read_elem_num_map(), libMesh::ExodusII_IO_Helper::read_global_values(), libMesh::CheckpointIO::read_header(), libMesh::XdrIO::read_header(), libMesh::System::read_header(), libMesh::System::read_legacy_data(), libMesh::ExodusII_IO_Helper::read_node_num_map(), libMesh::System::read_parallel_data(), libMesh::System::read_SCALAR_dofs(), libMesh::XdrIO::read_serialized_bc_names(), libMesh::XdrIO::read_serialized_bcs_helper(), libMesh::System::read_serialized_blocked_dof_objects(), libMesh::XdrIO::read_serialized_connectivity(), libMesh::System::read_serialized_data(), libMesh::XdrIO::read_serialized_nodes(), libMesh::XdrIO::read_serialized_nodesets(), libMesh::XdrIO::read_serialized_subdomain_names(), libMesh::System::read_serialized_vector(), libMesh::System::read_serialized_vectors(), libMesh::DistributedMesh::renumber_dof_objects(), libMesh::CheckpointIO::select_split_config(), libMesh::DofMap::set_nonlocal_dof_objects(), libMesh::PetscDMWrapper::set_point_range_in_section(), libMesh::LaplaceMeshSmoother::smooth(), libMesh::MeshTools::total_weight(), libMesh::MeshRefinement::uniformly_coarsen(), libMesh::Parallel::Packing< T >::unpack(), libMesh::DistributedMesh::update_parallel_id_counts(), libMesh::NameBasedIO::write(), libMesh::XdrIO::write(), libMesh::CheckpointIO::write(), libMesh::EquationSystems::write(), libMesh::GMVIO::write_discontinuous_gmv(), libMesh::ExodusII_IO::write_element_data(), libMesh::ExodusII_IO_Helper::write_element_values(), libMesh::ExodusII_IO_Helper::write_elements(), libMesh::ExodusII_IO::write_global_data(), libMesh::ExodusII_IO_Helper::write_global_values(), libMesh::System::write_header(), libMesh::ExodusII_IO::write_information_records(), libMesh::ExodusII_IO_Helper::write_information_records(), libMesh::ExodusII_IO_Helper::write_nodal_coordinates(), libMesh::UCDIO::write_nodal_data(), libMesh::ExodusII_IO::write_nodal_data(), libMesh::ExodusII_IO::write_nodal_data_discontinuous(), libMesh::ExodusII_IO_Helper::write_nodal_values(), libMesh::Nemesis_IO_Helper::write_nodesets(), libMesh::ExodusII_IO_Helper::write_nodesets(), libMesh::System::write_parallel_data(), libMesh::System::write_SCALAR_dofs(), libMesh::XdrIO::write_serialized_bc_names(), libMesh::XdrIO::write_serialized_bcs_helper(), libMesh::System::write_serialized_blocked_dof_objects(), libMesh::XdrIO::write_serialized_connectivity(), libMesh::System::write_serialized_data(), libMesh::XdrIO::write_serialized_nodes(), libMesh::XdrIO::write_serialized_nodesets(), libMesh::XdrIO::write_serialized_subdomain_names(), libMesh::System::write_serialized_vector(), libMesh::System::write_serialized_vectors(), libMesh::Nemesis_IO_Helper::write_sidesets(), libMesh::ExodusII_IO_Helper::write_sidesets(), libMesh::ExodusII_IO::write_timestep(), libMesh::ExodusII_IO_Helper::write_timestep(), and libMesh::ExodusII_IO::write_timestep_discontinuous().

  { return cast_int<processor_id_type>(_communicator.rank()); }

reinit_submatrix()

template<typename T>

virtual void libMesh::SparseMatrix< T >::reinit_submatrix ( SparseMatrix< T > &  submatrix, const std::vector< numeric_index_type > &  rows, const std::vector< numeric_index_type > &  cols  ) const

inlinevirtualinherited

This function is similar to the one above, but it allows you to reuse the existing sparsity pattern of "submatrix" instead of reallocating it again. This should hopefully be more efficient if you are frequently extracting submatrices of the same size.

Definition at line 370 of file sparse_matrix.h.

  {
    this->_get_submatrix(submatrix,
                         rows,
                         cols,
                         true); // true means REUSE submatrix
  }

row_start()

template<typename T >

numeric_index_type libMesh::LaspackMatrix< T >::row_start ( ) const

overridevirtual

Returns

The index of the first matrix row stored on this processor.

Implements libMesh::SparseMatrix< T >.

Definition at line 317 of file laspack_matrix.C.

{
  return 0;
}

row_stop()

template<typename T >

numeric_index_type libMesh::LaspackMatrix< T >::row_stop ( ) const

overridevirtual

Returns

The index of the last matrix row (+1) stored on this processor.

Implements libMesh::SparseMatrix< T >.

Definition at line 325 of file laspack_matrix.C.

{
  return this->m();
}

set()

template<typename T >

void libMesh::LaspackMatrix< T >::set ( const numeric_index_type  i, const numeric_index_type  j, const T  value  )

overridevirtual

Set the element (i,j) to value. Throws an error if the entry does not exist. Zero values can be "stored" in non-existent fields.

Implements libMesh::SparseMatrix< T >.

Definition at line 333 of file laspack_matrix.C.

References libMesh::initialized(), and value.

{
  libmesh_assert (this->initialized());
  libmesh_assert_less (i, this->m());
  libmesh_assert_less (j, this->n());

  const numeric_index_type position = this->pos(i,j);

  // Sanity check
  libmesh_assert_equal_to (*(_row_start[i]+position), j);
  libmesh_assert_equal_to ((j+1), Q_GetPos (&_QMat, i+1, position));

  Q_SetEntry (&_QMat, i+1, position, j+1, value);
}

update_sparsity_pattern()

template<typename T >

void libMesh::LaspackMatrix< T >::update_sparsity_pattern ( const SparsityPattern::Graph &  sparsity_pattern )

overridevirtual

Updates the matrix sparsity pattern. This will tell the underlying matrix storage scheme how to map the elements.

Reimplemented from libMesh::SparseMatrix< T >.

Definition at line 39 of file laspack_matrix.C.

References libMesh::TriangleWrapper::init(), and libMesh::initialized().

{
  // 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();

  // Initialize the _row_start data structure,
  // allocate storage for the _csr array
  {
    std::size_t size = 0;

    for (numeric_index_type row=0; row<n_rows; row++)
      size += sparsity_pattern[row].size();

    _csr.resize       (size);
    _row_start.reserve(n_rows + 1);
  }


  // Initialize the _csr data structure.
  {
    std::vector<numeric_index_type>::iterator position = _csr.begin();

    _row_start.push_back (position);

    for (numeric_index_type row=0; row<n_rows; row++)
      {
        // insert the row indices
        for (const auto & col : sparsity_pattern[row])
          {
            libmesh_assert (position != _csr.end());
            *position = col;
            ++position;
          }

        _row_start.push_back (position);
      }
  }


  // Initialize the matrix
  libmesh_assert (!this->initialized());
  this->init ();
  libmesh_assert (this->initialized());
  //libMesh::out << "n_rows=" << n_rows << std::endl;
  //libMesh::out << "m()=" << m() << std::endl;
  libmesh_assert_equal_to (n_rows, this->m());

  // Tell the matrix about its structure.  Initialize it
  // to zero.
  for (numeric_index_type i=0; i<n_rows; i++)
    {
      auto rs = _row_start[i];

      const numeric_index_type length = _row_start[i+1] - rs;

      Q_SetLen (&_QMat, i+1, length);

      for (numeric_index_type l=0; l<length; l++)
        {
          const numeric_index_type j = *(rs+l);

          // sanity check
          //libMesh::out << "m()=" << m() << std::endl;
          //libMesh::out << "(i,j,l) = (" << i
          //          << "," << j
          //          << "," << l
          //           << ")" << std::endl;
          //libMesh::out << "pos(i,j)=" << pos(i,j)
          //              << std::endl;
          libmesh_assert_equal_to (this->pos(i,j), l);
          Q_SetEntry (&_QMat, i+1, l, j+1, 0.);
        }
    }

  // That's it!
  //libmesh_here();
}

vector_mult()

template<typename T>

void libMesh::SparseMatrix< T >::vector_mult ( NumericVector< T > &  dest, const NumericVector< T > &  arg  ) const

inherited

Multiplies the matrix by the NumericVector arg and stores the result in NumericVector dest.

Definition at line 170 of file sparse_matrix.C.

Referenced by libMesh::ImplicitSystem::qoi_parameter_hessian(), and libMesh::ImplicitSystem::qoi_parameter_hessian_vector_product().

{
  dest.zero();
  this->vector_mult_add(dest,arg);
}

vector_mult_add()

template<typename T>

void libMesh::SparseMatrix< T >::vector_mult_add ( NumericVector< T > &  dest, const NumericVector< T > &  arg  ) const

inherited

Multiplies the matrix by the NumericVector arg and adds the result to the NumericVector dest.

Definition at line 180 of file sparse_matrix.C.

Referenced by libMesh::ImplicitSystem::weighted_sensitivity_adjoint_solve().

{
  /* This functionality is actually implemented in the \p
     NumericVector class.  */
  dest.add_vector(arg,*this);
}

zero()

template<typename T >

void libMesh::LaspackMatrix< T >::zero ( )

overridevirtual

Set all entries to 0.

Implements libMesh::SparseMatrix< T >.

Definition at line 267 of file laspack_matrix.C.

{
  const numeric_index_type n_rows = this->m();

  for (numeric_index_type row=0; row<n_rows; row++)
    {
      auto r_start = _row_start[row];

      const numeric_index_type len = (_row_start[row+1] - _row_start[row]);

      // Make sure we agree on the row length
      libmesh_assert_equal_to (len, Q_GetLen(&_QMat, row+1));

      for (numeric_index_type l=0; l<len; l++)
        {
          const numeric_index_type j = *(r_start + l);

          // Make sure the data structures are working
          libmesh_assert_equal_to ((j+1), Q_GetPos (&_QMat, row+1, l));

          Q_SetEntry (&_QMat, row+1, l, j+1, 0.);
        }
    }

  this->close();
}

zero_rows()

template<typename T>

void libMesh::SparseMatrix< T >::zero_rows ( std::vector< numeric_index_type > &  rows, T  diag_value = 0.0  )

virtualinherited

Sets all row entries to 0 then puts diag_value in the diagonal entry.

Reimplemented in libMesh::PetscMatrix< T >.

Definition at line 191 of file sparse_matrix.C.

{
  /* This functionality isn't implemented or stubbed in every subclass yet */
  libmesh_not_implemented();
}

Friends And Related Function Documentation

LaspackLinearSolver< T >

template<typename T>

friend class LaspackLinearSolver< T >

friend

Definition at line 193 of file laspack_matrix.h.

LaspackVector< T >

template<typename T>

friend class LaspackVector< T >

friend

Make other Laspack datatypes friends

Definition at line 192 of file laspack_matrix.h.

Member Data Documentation

_closed

template<typename T>

bool libMesh::LaspackMatrix< T >::_closed

private

Flag indicating if the matrix has been closed yet.

Definition at line 187 of file laspack_matrix.h.

Referenced by libMesh::LaspackMatrix< T >::closed().

_communicator

const Parallel::Communicator& libMesh::ParallelObject::_communicator

protectedinherited

Definition at line 107 of file parallel_object.h.

Referenced by libMesh::EquationSystems::build_parallel_elemental_solution_vector(), libMesh::EquationSystems::build_parallel_solution_vector(), libMesh::ParallelObject::comm(), libMesh::ParallelObject::n_processors(), libMesh::ParallelObject::operator=(), and libMesh::ParallelObject::processor_id().

_counts

ReferenceCounter::Counts libMesh::ReferenceCounter::_counts

staticprotectedinherited

Actually holds the data.

Definition at line 122 of file reference_counter.h.

Referenced by libMesh::ReferenceCounter::get_info(), libMesh::ReferenceCounter::increment_constructor_count(), and libMesh::ReferenceCounter::increment_destructor_count().

_csr

template<typename T>

std::vector<numeric_index_type> libMesh::LaspackMatrix< T >::_csr

private

The compressed row indices.

Definition at line 176 of file laspack_matrix.h.

_dof_map

template<typename T>

DofMap const* libMesh::SparseMatrix< T >::_dof_map

protectedinherited

The DofMap object associated with this object.

Definition at line 425 of file sparse_matrix.h.

Referenced by libMesh::SparseMatrix< ValOut >::attach_dof_map().

_enable_print_counter

bool libMesh::ReferenceCounter::_enable_print_counter = true

staticprotectedinherited

Flag to control whether reference count information is printed when print_info is called.

Definition at line 141 of file reference_counter.h.

Referenced by libMesh::ReferenceCounter::disable_print_counter_info(), libMesh::ReferenceCounter::enable_print_counter_info(), and libMesh::ReferenceCounter::print_info().

_is_initialized

template<typename T>

bool libMesh::SparseMatrix< T >::_is_initialized

protectedinherited

Flag indicating whether or not the matrix has been initialized.

Definition at line 430 of file sparse_matrix.h.

Referenced by libMesh::PetscMatrix< T >::_get_submatrix(), libMesh::EpetraMatrix< T >::EpetraMatrix(), libMesh::PetscMatrix< T >::get_transpose(), libMesh::SparseMatrix< ValOut >::initialized(), and libMesh::PetscMatrix< T >::PetscMatrix().

_mutex

Threads::spin_mutex libMesh::ReferenceCounter::_mutex

staticprotectedinherited

Mutual exclusion object to enable thread-safe reference counting.

Definition at line 135 of file reference_counter.h.

_n_objects

Threads::atomic< unsigned int > libMesh::ReferenceCounter::_n_objects

staticprotectedinherited

The number of objects. Print the reference count information when the number returns to 0.

Definition at line 130 of file reference_counter.h.

Referenced by libMesh::ReferenceCounter::n_objects(), libMesh::ReferenceCounter::ReferenceCounter(), and libMesh::ReferenceCounter::~ReferenceCounter().

_QMat

template<typename T>

QMatrix libMesh::LaspackMatrix< T >::_QMat

private

The Laspack sparse matrix pointer.

Definition at line 171 of file laspack_matrix.h.

Referenced by libMesh::LaspackLinearSolver< T >::adjoint_solve(), and libMesh::LaspackLinearSolver< T >::solve().

_row_start

template<typename T>

std::vector<std::vector<numeric_index_type>::const_iterator> libMesh::LaspackMatrix< T >::_row_start

private

The start of each row in the compressed row index data structure.

Definition at line 182 of file laspack_matrix.h.

---

The documentation for this class was generated from the following files:

• laspack_matrix.h
• laspack_matrix.C