libMesh
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Generic sparse matrix. More...
#include <dof_map.h>
Public Member Functions | |
SparseMatrix (const Parallel::Communicator &comm) | |
Constructor; initializes the matrix to be empty, without any structure, i.e. More... | |
SparseMatrix (SparseMatrix &&)=default | |
The 5 special functions can be defaulted for this class, as it does not manage any memory itself. More... | |
SparseMatrix (const SparseMatrix &)=default | |
SparseMatrix & | operator= (const SparseMatrix &)=default |
SparseMatrix & | operator= (SparseMatrix &&)=default |
virtual | ~SparseMatrix ()=default |
virtual bool | initialized () const |
void | attach_dof_map (const DofMap &dof_map) |
Set a pointer to the DofMap to use. More... | |
void | attach_sparsity_pattern (const SparsityPattern::Build &sp) |
Set a pointer to a sparsity pattern to use. More... | |
virtual bool | need_full_sparsity_pattern () const |
virtual void | update_sparsity_pattern (const SparsityPattern::Graph &) |
Updates the matrix sparsity pattern. More... | |
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)=0 |
Initialize SparseMatrix with the specified sizes. More... | |
virtual void | init (ParallelType type=PARALLEL)=0 |
Initialize this matrix using the sparsity structure computed by dof_map . More... | |
virtual void | clear ()=0 |
Restores the SparseMatrix<T> to a pristine state. More... | |
virtual void | zero ()=0 |
Set all entries to 0. More... | |
virtual std::unique_ptr< SparseMatrix< T > > | zero_clone () const =0 |
virtual std::unique_ptr< SparseMatrix< T > > | clone () const =0 |
virtual void | zero_rows (std::vector< numeric_index_type > &rows, T diag_value=0.0) |
Sets all row entries to 0 then puts diag_value in the diagonal entry. More... | |
virtual void | close ()=0 |
Calls the SparseMatrix's internal assembly routines, ensuring that the values are consistent across processors. More... | |
virtual void | flush () |
For PETSc matrix , this function is similar to close but without shrinking memory. More... | |
virtual numeric_index_type | m () const =0 |
virtual numeric_index_type | local_m () const |
Get the number of rows owned by this process. More... | |
virtual numeric_index_type | local_n () const |
Get the number of columns owned by this process. More... | |
virtual numeric_index_type | n () const =0 |
virtual numeric_index_type | row_start () const =0 |
virtual numeric_index_type | row_stop () const =0 |
virtual numeric_index_type | col_start () const =0 |
virtual numeric_index_type | col_stop () const =0 |
virtual void | set (const numeric_index_type i, const numeric_index_type j, const T value)=0 |
Set the element (i,j) to value . More... | |
virtual void | add (const numeric_index_type i, const numeric_index_type j, const T value)=0 |
Add value to the element (i,j). More... | |
virtual void | add_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &rows, const std::vector< numeric_index_type > &cols)=0 |
Add the full matrix dm to the SparseMatrix. More... | |
virtual void | add_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &dof_indices)=0 |
Same as add_matrix , but assumes the row and column maps are the same. More... | |
virtual void | add_block_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &brows, const std::vector< numeric_index_type > &bcols) |
Add the full matrix dm to the SparseMatrix. More... | |
virtual void | add_block_matrix (const DenseMatrix< T > &dm, const std::vector< numeric_index_type > &dof_indices) |
Same as add_block_matrix() , but assumes the row and column maps are the same. More... | |
virtual void | add (const T a, const SparseMatrix< T > &X)=0 |
Compute \( A \leftarrow A + a*X \) for scalar a , matrix X . More... | |
virtual void | matrix_matrix_mult (SparseMatrix< T > &, SparseMatrix< T > &, bool) |
Compute Y = A*X for matrix X . More... | |
virtual void | add_sparse_matrix (const SparseMatrix< T > &, const std::map< numeric_index_type, numeric_index_type > &, const std::map< numeric_index_type, numeric_index_type > &, const T) |
Add scalar* spm to the rows and cols of this matrix (A): A(rows[i], cols[j]) += scalar * spm(i,j) More... | |
virtual T | operator() (const numeric_index_type i, const numeric_index_type j) const =0 |
virtual Real | l1_norm () const =0 |
virtual Real | linfty_norm () const =0 |
virtual bool | closed () const =0 |
virtual std::size_t | n_nonzeros () const |
void | print (std::ostream &os=libMesh::out, const bool sparse=false) const |
Print the contents of the matrix to the screen in a uniform style, regardless of matrix/solver package being used. More... | |
virtual void | print_personal (std::ostream &os=libMesh::out) const =0 |
Print the contents of the matrix to the screen in a package-personalized style, if available. More... | |
virtual void | print_matlab (const std::string &="") const |
Print the contents of the matrix in Matlab's sparse matrix format. More... | |
virtual void | print_petsc_binary (const std::string &filename) |
Write the contents of the matrix to a file in PETSc's binary sparse matrix format. More... | |
virtual void | print_petsc_hdf5 (const std::string &filename) |
Write the contents of the matrix to a file in PETSc's HDF5 sparse matrix format. More... | |
virtual void | read_matlab (const std::string &filename) |
Read the contents of the matrix from Matlab's sparse matrix format. More... | |
virtual void | read_petsc_binary (const std::string &filename) |
Read the contents of the matrix from a file in PETSc's binary sparse matrix format. More... | |
virtual void | read_petsc_hdf5 (const std::string &filename) |
Read the contents of the matrix from a file in PETSc's HDF5 sparse matrix format. More... | |
virtual void | create_submatrix (SparseMatrix< T > &submatrix, const std::vector< numeric_index_type > &rows, const std::vector< numeric_index_type > &cols) const |
This function creates a matrix called "submatrix" which is defined by the row and column indices given in the "rows" and "cols" entries. More... | |
virtual void | create_submatrix_nosort (SparseMatrix< T > &, const std::vector< numeric_index_type > &, const std::vector< numeric_index_type > &) const |
Similar to the above function, this function creates a submatrix which is defined by the indices given in the rows and cols vectors. More... | |
virtual void | reinit_submatrix (SparseMatrix< T > &submatrix, const std::vector< numeric_index_type > &rows, const std::vector< numeric_index_type > &cols) const |
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. More... | |
void | vector_mult (NumericVector< T > &dest, const NumericVector< T > &arg) const |
Multiplies the matrix by the NumericVector arg and stores the result in NumericVector dest . More... | |
void | vector_mult_add (NumericVector< T > &dest, const NumericVector< T > &arg) const |
Multiplies the matrix by the NumericVector arg and adds the result to the NumericVector dest . More... | |
virtual void | get_diagonal (NumericVector< T > &dest) const =0 |
Copies the diagonal part of the matrix into dest . More... | |
virtual void | get_transpose (SparseMatrix< T > &dest) const =0 |
Copies the transpose of the matrix into dest , which may be *this. More... | |
virtual void | get_row (numeric_index_type i, std::vector< numeric_index_type > &indices, std::vector< T > &values) const =0 |
Get a row from the matrix. More... | |
template<> | |
void | print (std::ostream &os, const bool sparse) 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(), const MatrixBuildType matrix_build_type=MatrixBuildType::AUTOMATIC) |
Builds a SparseMatrix<T> using the linear solver package specified by solver_package . More... | |
static std::string | get_info () |
Gets a string containing the reference information. More... | |
static void | print_info (std::ostream &out_stream=libMesh::out) |
Prints the reference information, by default to libMesh::out . More... | |
static unsigned int | n_objects () |
Prints the number of outstanding (created, but not yet destroyed) objects. More... | |
static void | enable_print_counter_info () |
Methods to enable/disable the reference counter output from print_info() More... | |
static void | disable_print_counter_info () |
Protected Types | |
typedef std::map< std::string, std::pair< unsigned int, unsigned int > > | Counts |
Data structure to log the information. More... | |
Protected Member Functions | |
virtual void | _get_submatrix (SparseMatrix< T > &, const std::vector< numeric_index_type > &, const std::vector< numeric_index_type > &, const bool) const |
Protected implementation of the create_submatrix and reinit_submatrix routines. More... | |
void | increment_constructor_count (const std::string &name) noexcept |
Increments the construction counter. More... | |
void | increment_destructor_count (const std::string &name) noexcept |
Increments the destruction counter. More... | |
Protected Attributes | |
DofMap const * | _dof_map |
The DofMap object associated with this object. More... | |
SparsityPattern::Build const * | _sp |
The sparsity pattern associated with this object. More... | |
bool | _is_initialized |
Flag indicating whether or not the matrix has been initialized. More... | |
const Parallel::Communicator & | _communicator |
Static Protected Attributes | |
static Counts | _counts |
Actually holds the data. More... | |
static Threads::atomic< unsigned int > | _n_objects |
The number of objects. More... | |
static Threads::spin_mutex | _mutex |
Mutual exclusion object to enable thread-safe reference counting. More... | |
static bool | _enable_print_counter = true |
Flag to control whether reference count information is printed when print_info is called. More... | |
Friends | |
std::ostream & | operator<< (std::ostream &os, const SparseMatrix< T > &m) |
Same as the print method above, but allows you to print to a stream in the standard syntax. More... | |
Generic sparse matrix.
This class contains pure virtual members that must be overridden in derived classes. Using a common base class allows for uniform access to sparse matrices from various different solver packages in different formats.
Definition at line 45 of file vector_fe_ex5.C.
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protectedinherited |
Data structure to log the information.
The log is identified by the class name.
Definition at line 119 of file reference_counter.h.
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explicit |
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 53 of file sparse_matrix.C.
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default |
The 5 special functions can be defaulted for this class, as it does not manage any memory itself.
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default |
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virtualdefault |
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inlineprotectedvirtual |
Protected implementation of the create_submatrix and reinit_submatrix routines.
Reimplemented in libMesh::PetscMatrix< T >.
Definition at line 555 of file sparse_matrix.h.
Referenced by libMesh::SparseMatrix< ValOut >::create_submatrix(), and libMesh::SparseMatrix< ValOut >::reinit_submatrix().
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pure virtual |
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.
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::EigenSparseMatrix< T >, and libMesh::LumpedMassMatrix< T >.
Referenced by add_M_C_K_helmholtz(), libMesh::RBConstruction::add_scaled_Aq(), libMesh::TransientRBConstruction::add_scaled_mass_matrix(), assemble_shell(), libMesh::NewmarkSystem::compute_matrix(), libMesh::RBConstruction::compute_residual_dual_norm_slow(), AssembleOptimization::hessian(), libMesh::RBSCMConstruction::load_matrix_B(), LinearElasticityWithContact::residual_and_jacobian(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), SystemsTest::testProjectMatrix3D(), libMesh::TransientRBConstruction::truth_assembly(), and libMesh::RBConstruction::truth_assembly().
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pure virtual |
Compute \( A \leftarrow A + a*X \) for scalar a
, matrix X
.
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::EigenSparseMatrix< T >, and libMesh::LumpedMassMatrix< T >.
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virtual |
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 82 of file sparse_matrix.C.
Referenced by libMesh::SparseMatrix< ValOut >::add_block_matrix().
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inlinevirtual |
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 308 of file sparse_matrix.h.
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pure virtual |
Add the full matrix dm
to the SparseMatrix.
This is useful for adding an element matrix at assembly time.
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::RBConstruction::add_scaled_matrix_and_vector(), assemble(), LinearElasticity::assemble(), HDGProblem::assemble(), assemble_1D(), AssembleOptimization::assemble_A_and_F(), assemble_biharmonic(), assemble_divgrad(), assemble_elasticity(), assemble_ellipticdg(), assemble_func(), assemble_helmholtz(), assemble_laplace(), assemble_mass(), assemble_matrices(), assemble_matrix_and_rhs(), assemble_poisson(), assemble_SchroedingerEquation(), assemble_shell(), assemble_stokes(), assemble_wave(), assembly_with_dg_fem_context(), compute_jacobian(), fe_assembly(), LaplaceYoung::jacobian(), LargeDeformationElasticity::jacobian(), periodic_bc_test_poisson(), Biharmonic::JR::residual_and_jacobian(), LinearElasticityWithContact::residual_and_jacobian(), and OverlappingCouplingGhostingTest::run_sparsity_pattern_test().
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pure virtual |
Same as add_matrix
, but assumes the row and column maps are the same.
Thus the matrix dm
must be square.
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
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inlinevirtual |
Add scalar*
spm
to the rows and cols of this matrix (A): A(rows[i], cols[j]) += scalar * spm(i,j)
Reimplemented in libMesh::PetscMatrix< T >.
Definition at line 327 of file sparse_matrix.h.
void libMesh::SparseMatrix< T >::attach_dof_map | ( | const DofMap & | dof_map | ) |
Set a pointer to the DofMap
to use.
If a separate sparsity pattern is not being used, use the one from the DofMap.
The lifetime of dof_map
must exceed the lifetime of this
.
Definition at line 63 of file sparse_matrix.C.
Referenced by libMesh::__libmesh_tao_hessian(), and libMesh::DofMap::update_sparsity_pattern().
void libMesh::SparseMatrix< T >::attach_sparsity_pattern | ( | const SparsityPattern::Build & | sp | ) |
Set a pointer to a sparsity pattern to use.
Useful in cases where a matrix requires a wider (or for efficiency narrower) pattern than most matrices in the system, or in cases where no system sparsity pattern is being calculated by the DofMap.
The lifetime of sp
must exceed the lifetime of this
.
Definition at line 73 of file sparse_matrix.C.
Referenced by libMesh::DofMap::update_sparsity_pattern().
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static |
Builds a SparseMatrix<T>
using the linear solver package specified by solver_package
.
Definition at line 156 of file sparse_matrix.C.
Referenced by libMesh::TransientRBConstruction::allocate_data_structures(), libMesh::RBConstruction::allocate_data_structures(), libMesh::DofMap::process_mesh_constraint_rows(), ConstraintOperatorTest::test1DCoarseningNewNodes(), ConstraintOperatorTest::test1DCoarseningOperator(), ConstraintOperatorTest::testCoreform(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), and SystemsTest::testProjectMatrix3D().
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pure virtual |
Restores the SparseMatrix<T>
to a pristine state.
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::PetscMatrix< libMesh::Number >::_get_submatrix(), and libMesh::PetscMatrix< libMesh::Number >::get_transpose().
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pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::EigenSparseMatrix< T >, and libMesh::LumpedMassMatrix< T >.
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pure virtual |
Calls the SparseMatrix's internal assembly routines, ensuring that the values are consistent across processors.
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by add_M_C_K_helmholtz(), libMesh::RBConstruction::add_scaled_Aq(), libMesh::RBConstruction::add_scaled_matrix_and_vector(), libMesh::LinearSolver< Number >::adjoint_solve(), assemble(), AssembleOptimization::assemble_A_and_F(), assemble_func(), assemble_matrix_and_rhs(), libMesh::FEMSystem::assembly(), libMesh::LinearImplicitSystem::assembly(), libMesh::NewmarkSystem::compute_matrix(), libMesh::ContinuationSystem::continuation_solve(), libMesh::SparseMatrix< ValOut >::flush(), libMesh::ImplicitSystem::forward_qoi_parameter_sensitivity(), libMesh::RBSCMConstruction::load_matrix_B(), main(), periodic_bc_test_poisson(), libMesh::ImplicitSystem::qoi_parameter_hessian(), libMesh::ImplicitSystem::qoi_parameter_hessian_vector_product(), OverlappingCouplingGhostingTest::run_sparsity_pattern_test(), libMesh::ImplicitSystem::sensitivity_solve(), libMesh::NewtonSolver::solve(), libMesh::CondensedEigenSystem::solve(), ConstraintOperatorTest::test1DCoarseningOperator(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), SystemsTest::testProjectMatrix3D(), libMesh::TransientRBConstruction::truth_assembly(), libMesh::RBConstruction::truth_assembly(), libMesh::ImplicitSystem::weighted_sensitivity_adjoint_solve(), and libMesh::ImplicitSystem::weighted_sensitivity_solve().
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pure virtual |
true
if the matrix has been assembled. Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
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pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::SparseMatrix< ValOut >::local_n().
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pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::SparseMatrix< ValOut >::local_n().
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inlineinherited |
Parallel::Communicator
object used by this mesh. Definition at line 97 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::Partitioner::_find_global_index_by_pid_map(), libMesh::BoundaryInfo::_find_id_maps(), libMesh::SlepcEigenSolver< libMesh::Number >::_petsc_shell_matrix_get_diagonal(), libMesh::PetscLinearSolver< Number >::_petsc_shell_matrix_get_diagonal(), libMesh::SlepcEigenSolver< libMesh::Number >::_petsc_shell_matrix_mult(), libMesh::PetscLinearSolver< Number >::_petsc_shell_matrix_mult(), libMesh::PetscLinearSolver< Number >::_petsc_shell_matrix_mult_add(), libMesh::MeshRefinement::_refine_elements(), libMesh::MeshRefinement::_smooth_flags(), libMesh::DofMap::add_constraints_to_send_list(), add_cube_convex_hull_to_mesh(), libMesh::PetscDMWrapper::add_dofs_helper(), libMesh::PetscDMWrapper::add_dofs_to_section(), libMesh::TransientRBConstruction::add_IC_to_RB_space(), libMesh::EigenSystem::add_matrices(), libMesh::System::add_matrix(), libMesh::RBConstruction::add_scaled_matrix_and_vector(), libMesh::System::add_variable(), libMesh::System::add_variables(), libMesh::System::add_vector(), libMesh::MeshTools::Modification::all_tri(), libMesh::LaplaceMeshSmoother::allgather_graph(), libMesh::DofMap::allgather_recursive_constraints(), libMesh::TransientRBConstruction::allocate_data_structures(), libMesh::RBConstruction::allocate_data_structures(), libMesh::TransientRBConstruction::assemble_affine_expansion(), libMesh::FEMSystem::assemble_qoi(), libMesh::Nemesis_IO::assert_symmetric_cmaps(), libMesh::MeshCommunication::assign_global_indices(), libMesh::Partitioner::assign_partitioning(), 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_data(), libMesh::System::calculate_norm(), libMesh::DofMap::check_dirichlet_bcid_consistency(), libMesh::RBConstruction::compute_Fq_representor_innerprods(), libMesh::RBConstruction::compute_max_error_bound(), 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::RBConstruction::compute_output_dual_innerprods(), libMesh::RBConstruction::compute_residual_dual_norm_slow(), libMesh::RBSCMConstruction::compute_SCM_bounds_on_training_set(), libMesh::DofMap::computed_sparsity_already(), libMesh::Problem_Interface::computeF(), libMesh::Problem_Interface::computeJacobian(), libMesh::Problem_Interface::computePreconditioner(), libMesh::ContinuationSystem::ContinuationSystem(), libMesh::MeshBase::copy_constraint_rows(), libMesh::ExodusII_IO::copy_elemental_solution(), libMesh::ExodusII_IO::copy_nodal_solution(), libMesh::ExodusII_IO::copy_scalar_solution(), libMesh::MeshTools::correct_node_proc_ids(), libMesh::MeshTools::create_bounding_box(), libMesh::DofMap::create_dof_constraints(), 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::PetscMatrix< libMesh::Number >::create_submatrix_nosort(), libMesh::MeshCommunication::delete_remote_elements(), libMesh::RBEIMEvaluation::distribute_bfs(), libMesh::DofMap::distribute_dofs(), DMlibMeshFunction(), DMlibMeshJacobian(), DMlibMeshSetSystem_libMesh(), DMVariableBounds_libMesh(), libMesh::DTKSolutionTransfer::DTKSolutionTransfer(), libMesh::MeshRefinement::eliminate_unrefined_patches(), libMesh::RBEIMConstruction::enrich_eim_approximation_on_interiors(), libMesh::RBEIMConstruction::enrich_eim_approximation_on_nodes(), libMesh::RBEIMConstruction::enrich_eim_approximation_on_sides(), libMesh::TransientRBConstruction::enrich_RB_space(), libMesh::EpetraVector< T >::EpetraVector(), AssembleOptimization::equality_constraints(), libMesh::PatchRecoveryErrorEstimator::estimate_error(), libMesh::WeightedPatchRecoveryErrorEstimator::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_error_tolerance(), libMesh::MeshRefinement::flag_elements_by_mean_stddev(), libMesh::MeshRefinement::flag_elements_by_nelem_target(), libMesh::RBEIMEvaluation::gather_bfs(), libMesh::DofMap::gather_constraints(), libMesh::MeshfreeInterpolation::gather_remote_data(), libMesh::CondensedEigenSystem::get_eigenpair(), libMesh::RBEIMEvaluation::get_eim_basis_function_node_value(), libMesh::RBEIMEvaluation::get_eim_basis_function_side_value(), libMesh::RBEIMEvaluation::get_eim_basis_function_value(), libMesh::MeshBase::get_info(), libMesh::System::get_info(), libMesh::DofMap::get_info(), libMesh::ImplicitSystem::get_linear_solver(), libMesh::RBEIMConstruction::get_max_abs_value(), libMesh::RBEIMConstruction::get_node_max_abs_value(), libMesh::RBEIMEvaluation::get_parametrized_function_node_value(), libMesh::RBEIMEvaluation::get_parametrized_function_side_value(), libMesh::RBEIMEvaluation::get_parametrized_function_value(), libMesh::RBEIMConstruction::get_random_point(), AssembleOptimization::inequality_constraints(), AssembleOptimization::inequality_constraints_jacobian(), libMesh::LocationMap< T >::init(), libMesh::TimeSolver::init(), libMesh::SystemSubsetBySubdomain::init(), libMesh::PetscDMWrapper::init_and_attach_petscdm(), libMesh::ExodusII_IO_Helper::initialize(), libMesh::OptimizationSystem::initialize_equality_constraints_storage(), libMesh::OptimizationSystem::initialize_inequality_constraints_storage(), libMesh::RBEIMConstruction::initialize_parametrized_functions_in_training_set(), libMesh::RBEIMConstruction::inner_product(), integrate_function(), libMesh::MeshTools::libmesh_assert_consistent_distributed(), libMesh::MeshTools::libmesh_assert_consistent_distributed_nodes(), libMesh::MeshTools::libmesh_assert_contiguous_dof_ids(), libMesh::MeshTools::libmesh_assert_equal_connectivity(), libMesh::MeshTools::libmesh_assert_equal_points(), 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_linesearch_shellfunc(), libMesh::libmesh_petsc_preconditioner_apply(), libMesh::libmesh_petsc_recalculate_monitor(), libMesh::libmesh_petsc_snes_fd_residual(), libMesh::libmesh_petsc_snes_jacobian(), libMesh::libmesh_petsc_snes_mffd_interface(), libMesh::libmesh_petsc_snes_mffd_residual(), libMesh::libmesh_petsc_snes_postcheck(), libMesh::libmesh_petsc_snes_precheck(), 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::LinearImplicitSystem::LinearImplicitSystem(), main(), 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_bcids_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::TransientRBConstruction::mass_matrix_scaled_matvec(), libMesh::FEMSystem::mesh_position_set(), libMesh::TriangulatorInterface::MeshedHole::MeshedHole(), LinearElasticityWithContact::move_mesh(), libMesh::DistributedMesh::n_active_elem(), libMesh::MeshTools::n_active_levels(), libMesh::BoundaryInfo::n_boundary_conds(), libMesh::DofMap::n_constrained_dofs(), libMesh::BoundaryInfo::n_edge_conds(), libMesh::CondensedEigenSystem::n_global_non_condensed_dofs(), libMesh::MeshTools::n_levels(), MixedOrderTest::n_neighbor_links(), libMesh::BoundaryInfo::n_nodeset_conds(), libMesh::SparsityPattern::Build::n_nonzeros(), libMesh::MeshTools::n_p_levels(), libMesh::BoundaryInfo::n_shellface_conds(), libMesh::RBEIMEvaluation::node_distribute_bfs(), libMesh::RBEIMEvaluation::node_gather_bfs(), libMesh::RBEIMConstruction::node_inner_product(), libMesh::MeshBase::operator==(), 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::BoundaryInfo::parallel_sync_node_ids(), libMesh::BoundaryInfo::parallel_sync_side_ids(), libMesh::MeshTools::paranoid_n_levels(), libMesh::Partitioner::partition(), libMesh::Partitioner::partition_unpartitioned_elements(), libMesh::petsc_auto_fieldsplit(), libMesh::System::point_gradient(), libMesh::System::point_hessian(), libMesh::System::point_value(), libMesh::MeshBase::prepare_for_use(), libMesh::DofMap::print_dof_constraints(), libMesh::DofMap::process_mesh_constraint_rows(), libMesh::Partitioner::processor_pairs_to_interface_nodes(), libMesh::InterMeshProjection::project_system_vectors(), FEMParameters::read(), libMesh::Nemesis_IO::read(), libMesh::XdrIO::read(), libMesh::EquationSystems::read(), libMesh::ExodusII_IO::read_header(), libMesh::CheckpointIO::read_header(), libMesh::XdrIO::read_header(), libMesh::System::read_header(), libMesh::RBEIMEvaluation::read_in_interior_basis_functions(), libMesh::RBEIMEvaluation::read_in_node_basis_functions(), libMesh::RBEIMEvaluation::read_in_side_basis_functions(), libMesh::RBEvaluation::read_in_vectors_from_multiple_files(), libMesh::System::read_legacy_data(), libMesh::TransientRBConstruction::read_riesz_representors_from_files(), libMesh::RBConstruction::read_riesz_representors_from_files(), 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::Nemesis_IO_Helper::read_var_names_impl(), libMesh::MeshBase::recalculate_n_partitions(), libMesh::MeshRefinement::refine_and_coarsen_elements(), libMesh::DistributedMesh::renumber_dof_objects(), libMesh::DistributedMesh::renumber_nodes_and_elements(), LinearElasticityWithContact::residual_and_jacobian(), OverlappingAlgebraicGhostingTest::run_ghosting_test(), OverlappingCouplingGhostingTest::run_sparsity_pattern_test(), scale_mesh_and_plot(), libMesh::DofMap::scatter_constraints(), libMesh::CheckpointIO::select_split_config(), libMesh::GenericProjector< FFunctor, GFunctor, FValue, ProjectionAction >::send_and_insert_dof_values(), libMesh::TransientRBConstruction::set_error_temporal_data(), libMesh::Partitioner::set_interface_node_processor_ids_BFS(), libMesh::Partitioner::set_interface_node_processor_ids_linear(), libMesh::Partitioner::set_interface_node_processor_ids_petscpartitioner(), libMesh::Partitioner::set_node_processor_ids(), libMesh::DofMap::set_nonlocal_dof_objects(), libMesh::Partitioner::set_parent_processor_ids(), libMesh::PetscDMWrapper::set_point_range_in_section(), libMesh::PetscDiffSolver::setup_petsc_data(), libMesh::RBEIMEvaluation::side_distribute_bfs(), libMesh::RBEIMEvaluation::side_gather_bfs(), libMesh::RBEIMConstruction::side_inner_product(), libMesh::Partitioner::single_partition(), libMesh::LaplaceMeshSmoother::smooth(), libMesh::split_mesh(), libMesh::RBEIMConstruction::store_eim_solutions_for_training_set(), libMesh::MeshBase::subdomain_ids(), libMesh::BoundaryInfo::sync(), ConstraintOperatorTest::test1DCoarseningNewNodes(), ConstraintOperatorTest::test1DCoarseningOperator(), libMesh::MeshRefinement::test_level_one(), MeshfunctionDFEM::test_mesh_function_dfem(), MeshfunctionDFEM::test_mesh_function_dfem_grad(), MeshFunctionTest::test_p_level(), libMesh::MeshRefinement::test_unflagged(), DofMapTest::testBadElemFECombo(), SystemsTest::testBlockRestrictedVarNDofs(), BoundaryInfoTest::testBoundaryOnChildrenErrors(), ConstraintOperatorTest::testCoreform(), MeshInputTest::testExodusIGASidesets(), MeshTriangulationTest::testFoundCenters(), PointLocatorTest::testLocator(), BoundaryInfoTest::testMesh(), PointLocatorTest::testPlanar(), MeshTriangulationTest::testPoly2TriRefinementBase(), SystemsTest::testProjectCubeWithMeshFunction(), BoundaryInfoTest::testRenumber(), CheckpointIOTest::testSplitter(), MeshInputTest::testTetgenIO(), MeshTriangulationTest::testTriangulatorInterp(), MeshTriangulationTest::testTriangulatorMeshedHoles(), MeshTriangulationTest::testTriangulatorRoundHole(), libMesh::MeshTools::total_weight(), libMesh::RBConstruction::train_reduced_basis_with_POD(), libMesh::MeshFunctionSolutionTransfer::transfer(), libMesh::MeshfreeSolutionTransfer::transfer(), libMesh::Poly2TriTriangulator::triangulate(), libMesh::TransientRBConstruction::truth_assembly(), libMesh::RBConstruction::truth_assembly(), libMesh::MeshRefinement::uniformly_coarsen(), libMesh::TransientRBConstruction::update_RB_initial_condition_all_N(), libMesh::TransientRBConstruction::update_RB_system_matrices(), libMesh::RBConstruction::update_RB_system_matrices(), libMesh::TransientRBConstruction::update_residual_terms(), libMesh::RBConstruction::update_residual_terms(), libMesh::NameBasedIO::write(), libMesh::XdrIO::write(), libMesh::VTKIO::write_nodal_data(), libMesh::RBEIMEvaluation::write_out_interior_basis_functions(), libMesh::RBEIMEvaluation::write_out_node_basis_functions(), libMesh::RBEIMEvaluation::write_out_side_basis_functions(), libMesh::RBEvaluation::write_out_vectors(), libMesh::TransientRBConstruction::write_riesz_representors_to_files(), libMesh::RBConstruction::write_riesz_representors_to_files(), 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(), libMesh::XdrIO::write_serialized_nodesets(), libMesh::RBDataSerialization::RBEvaluationSerialization::write_to_file(), libMesh::RBDataSerialization::TransientRBEvaluationSerialization::write_to_file(), libMesh::RBDataSerialization::RBEIMEvaluationSerialization::write_to_file(), and libMesh::RBDataSerialization::RBSCMEvaluationSerialization::write_to_file().
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inlinevirtual |
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. Note: The rows
and cols
vectors need to be sorted; Use the nosort version below if rows
and cols
vectors are not sorted; The rows
and cols
only contain indices that are owned by this processor.
Definition at line 469 of file sparse_matrix.h.
Referenced by libMesh::libmesh_petsc_DMCreateInterpolation(), and libMesh::CondensedEigenSystem::solve().
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inlinevirtual |
Similar to the above function, this function creates a submatrix
which is defined by the indices given in the rows
and cols
vectors.
Note: Both rows
and cols
can be unsorted; Use the above function for better efficiency if your indices are sorted; rows
and cols
can contain indices that are owned by other processors.
Reimplemented in libMesh::PetscMatrix< T >.
Definition at line 487 of file sparse_matrix.h.
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staticinherited |
Definition at line 100 of file reference_counter.C.
References libMesh::ReferenceCounter::_enable_print_counter.
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staticinherited |
Methods to enable/disable the reference counter output from print_info()
Definition at line 94 of file reference_counter.C.
References libMesh::ReferenceCounter::_enable_print_counter.
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inlinevirtual |
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 >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 215 of file sparse_matrix.h.
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pure virtual |
Copies the diagonal part of the matrix into dest
.
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::LumpedMassMatrix< T >::add(), and libMesh::DiagonalMatrix< T >::add().
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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().
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pure virtual |
Get a row from the matrix.
i | The matrix row to get |
indices | A container that will be filled with the column indices corresponding to (possibly) non-zero values |
values | A container holding the column values |
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::MeshBase::copy_constraint_rows().
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pure virtual |
Copies the transpose of the matrix into dest
, which may be *this.
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::EigenSparseLinearSolver< T >::adjoint_solve(), libMesh::LinearSolver< Number >::adjoint_solve(), ConstraintOperatorTest::testCoreform(), and libMesh::ImplicitSystem::weighted_sensitivity_adjoint_solve().
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inlineprotectednoexceptinherited |
Increments the construction counter.
Should be called in the constructor of any derived class that will be reference counted.
Definition at line 183 of file reference_counter.h.
References libMesh::err, libMesh::BasicOStreamProxy< charT, traits >::get(), libMesh::Quality::name(), and libMesh::Threads::spin_mtx.
Referenced by libMesh::ReferenceCountedObject< RBParametrized >::ReferenceCountedObject().
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inlineprotectednoexceptinherited |
Increments the destruction counter.
Should be called in the destructor of any derived class that will be reference counted.
Definition at line 207 of file reference_counter.h.
References libMesh::err, libMesh::BasicOStreamProxy< charT, traits >::get(), libMesh::Quality::name(), and libMesh::Threads::spin_mtx.
Referenced by libMesh::ReferenceCountedObject< RBParametrized >::~ReferenceCountedObject().
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pure virtual |
Initialize SparseMatrix with the specified sizes.
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. |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::EigenSparseMatrix< T >, and libMesh::DiagonalMatrix< T >.
Referenced by libMesh::System::late_matrix_init(), OverlappingCouplingGhostingTest::run_sparsity_pattern_test(), ConstraintOperatorTest::test1DCoarseningOperator(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), and SystemsTest::testProjectMatrix3D().
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pure virtual |
Initialize this matrix using the sparsity structure computed by dof_map
.
type | The serial/parallel/ghosted type of the matrix |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::EigenSparseMatrix< T >, and libMesh::DiagonalMatrix< T >.
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inlinevirtual |
true
if the matrix has been initialized, false
otherwise. Definition at line 109 of file sparse_matrix.h.
Referenced by libMesh::PetscMatrix< libMesh::Number >::_get_submatrix(), libMesh::ImplicitSystem::assemble(), and libMesh::System::init_matrices().
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pure virtual |
This is the natural matrix norm that is compatible with the \( \ell_1 \)-norm for vectors, i.e. \( |Mv|_1 \leq |M|_1 |v|_1 \). (cf. Haemmerlin-Hoffmann : Numerische Mathematik)
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::FEMSystem::assembly().
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pure virtual |
\( |M|_{\infty} = \max_{i} \sum_{j} |M_{ij}| \)
This is the natural matrix norm that is compatible to the \( \ell_{\infty} \)-norm of vectors, i.e. \( |Mv|_{\infty} \leq |M|_{\infty} |v|_{\infty} \). (cf. Haemmerlin-Hoffmann : Numerische Mathematik)
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), and SystemsTest::testProjectMatrix3D().
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inlinevirtual |
Get the number of rows owned by this process.
Reimplemented in libMesh::PetscMatrix< T >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 225 of file sparse_matrix.h.
|
inlinevirtual |
Get the number of columns owned by this process.
Reimplemented in libMesh::PetscMatrix< T >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 230 of file sparse_matrix.h.
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pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::EigenSparseMatrix< T >::add(), libMesh::LaspackMatrix< T >::add(), libMesh::EpetraMatrix< T >::add(), libMesh::PetscMatrix< libMesh::Number >::add(), libMesh::PetscMatrix< libMesh::Number >::add_sparse_matrix(), libMesh::MeshBase::copy_constraint_rows(), and libMesh::PetscMatrix< libMesh::Number >::matrix_matrix_mult().
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inlinevirtual |
Compute Y = A*X for matrix X
.
Reimplemented in libMesh::PetscMatrix< T >.
Definition at line 320 of file sparse_matrix.h.
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pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::EigenSparseMatrix< T >::add(), libMesh::LaspackMatrix< T >::add(), libMesh::EpetraMatrix< T >::add(), libMesh::PetscMatrix< libMesh::Number >::add(), libMesh::PetscMatrix< libMesh::Number >::add_sparse_matrix(), and libMesh::MeshBase::copy_constraint_rows().
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virtual |
Definition at line 229 of file sparse_matrix.C.
Referenced by libMesh::SparseMatrix< ValOut >::n_nonzeros().
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inlinestaticinherited |
Prints the number of outstanding (created, but not yet destroyed) objects.
Definition at line 85 of file reference_counter.h.
References libMesh::ReferenceCounter::_n_objects.
Referenced by libMesh::LibMeshInit::~LibMeshInit().
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inlineinherited |
Definition at line 103 of file parallel_object.h.
References libMesh::ParallelObject::_communicator, libMesh::libmesh_assert(), and TIMPI::Communicator::size().
Referenced by libMesh::Partitioner::_find_global_index_by_pid_map(), libMesh::BoundaryInfo::_find_id_maps(), libMesh::DofMap::add_constraints_to_send_list(), libMesh::PetscDMWrapper::add_dofs_to_section(), libMesh::DistributedMesh::add_elem(), libMesh::DofMap::add_neighbors_to_send_list(), libMesh::DistributedMesh::add_node(), libMesh::System::add_vector(), libMesh::LaplaceMeshSmoother::allgather_graph(), libMesh::DofMap::allgather_recursive_constraints(), libMesh::FEMSystem::assembly(), libMesh::Nemesis_IO::assert_symmetric_cmaps(), libMesh::Partitioner::assign_partitioning(), libMesh::AztecLinearSolver< T >::AztecLinearSolver(), libMesh::EquationSystems::build_parallel_elemental_solution_vector(), libMesh::DistributedMesh::clear(), libMesh::DistributedMesh::clear_elems(), libMesh::Nemesis_IO_Helper::compute_border_node_ids(), libMesh::Nemesis_IO_Helper::construct_nemesis_filename(), libMesh::ExodusII_IO::copy_scalar_solution(), libMesh::Nemesis_IO::copy_scalar_solution(), libMesh::UnstructuredMesh::create_pid_mesh(), libMesh::MeshTools::create_processor_bounding_box(), libMesh::DofMap::distribute_dofs(), libMesh::DofMap::distribute_scalar_dofs(), libMesh::DistributedMesh::DistributedMesh(), libMesh::EnsightIO::EnsightIO(), libMesh::RBEIMEvaluation::gather_bfs(), libMesh::MeshBase::get_info(), libMesh::SystemSubsetBySubdomain::init(), libMesh::PetscDMWrapper::init_and_attach_petscdm(), libMesh::Nemesis_IO_Helper::initialize(), libMesh::ExodusII_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::RBEIMEvaluation::node_gather_bfs(), libMesh::Partitioner::partition(), libMesh::MeshBase::partition(), libMesh::Partitioner::partition_unpartitioned_elements(), libMesh::System::point_gradient(), libMesh::System::point_hessian(), libMesh::System::point_value(), libMesh::DofMap::prepare_send_list(), libMesh::DofMap::print_dof_constraints(), 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::Partitioner::repartition(), OverlappingFunctorTest::run_partitioner_test(), libMesh::DofMap::scatter_constraints(), libMesh::DistributedMesh::set_next_unique_id(), libMesh::DofMap::set_nonlocal_dof_objects(), libMesh::PetscDMWrapper::set_point_range_in_section(), WriteVecAndScalar::setupTests(), libMesh::RBEIMEvaluation::side_gather_bfs(), DistributedMeshTest::testRemoteElemError(), CheckpointIOTest::testSplitter(), libMesh::MeshRefinement::uniformly_coarsen(), libMesh::DistributedMesh::update_parallel_id_counts(), libMesh::GMVIO::write_binary(), libMesh::GMVIO::write_discontinuous_gmv(), libMesh::ExodusII_IO_Helper::write_nodal_coordinates(), libMesh::VTKIO::write_nodal_data(), libMesh::ExodusII_IO::write_nodal_data(), 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().
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inlinevirtual |
true
if this sparse matrix format needs to be fed the graph of the sparse matrix.This is true for LaspackMatrix
, but not PetscMatrix
. In the case where the full graph is not required, we can efficiently approximate it to provide a good estimate of the required size of the sparse matrix.
Reimplemented in libMesh::EpetraMatrix< T >, and libMesh::LaspackMatrix< T >.
Definition at line 138 of file sparse_matrix.h.
Referenced by libMesh::DofMap::attach_matrix(), and libMesh::DofMap::update_sparsity_pattern().
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pure virtual |
(i,j).Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
|
default |
|
default |
void libMesh::SparseMatrix< Complex >::print | ( | std::ostream & | os, |
const bool | sparse | ||
) | const |
Definition at line 122 of file sparse_matrix.C.
void libMesh::SparseMatrix< T >::print | ( | std::ostream & | os = libMesh::out , |
const bool | sparse = false |
||
) | const |
Print the contents of the matrix to the screen in a uniform style, regardless of matrix/solver package being used.
Definition at line 238 of file sparse_matrix.C.
Referenced by libMesh::EigenSparseMatrix< T >::print_personal(), and libMesh::LaspackMatrix< T >::print_personal().
|
staticinherited |
Prints the reference information, by default to libMesh::out
.
Definition at line 81 of file reference_counter.C.
References libMesh::ReferenceCounter::_enable_print_counter, and libMesh::ReferenceCounter::get_info().
Referenced by libMesh::LibMeshInit::~LibMeshInit().
|
virtual |
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 >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 361 of file sparse_matrix.C.
|
pure virtual |
Print the contents of the matrix to the screen in a package-personalized style, if available.
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::DiagonalMatrix< T >, and libMesh::EigenSparseMatrix< T >.
|
virtual |
Write the contents of the matrix to a file in PETSc's binary sparse matrix format.
Reimplemented in libMesh::PetscMatrix< T >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 484 of file sparse_matrix.C.
|
virtual |
Write the contents of the matrix to a file in PETSc's HDF5 sparse matrix format.
Reimplemented in libMesh::PetscMatrix< T >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 493 of file sparse_matrix.C.
|
inlineinherited |
Definition at line 114 of file parallel_object.h.
References libMesh::ParallelObject::_communicator, and TIMPI::Communicator::rank().
Referenced by libMesh::BoundaryInfo::_find_id_maps(), 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::MeshTools::Modification::all_tri(), libMesh::DofMap::allgather_recursive_constraints(), libMesh::FEMSystem::assembly(), libMesh::Nemesis_IO::assert_symmetric_cmaps(), libMesh::Partitioner::assign_partitioning(), libMesh::Nemesis_IO_Helper::build_element_and_node_maps(), libMesh::Partitioner::build_graph(), libMesh::InfElemBuilder::build_inf_elem(), libMesh::BoundaryInfo::build_node_list_from_side_list(), libMesh::EquationSystems::build_parallel_elemental_solution_vector(), libMesh::EquationSystems::build_parallel_solution_vector(), libMesh::DistributedMesh::clear(), libMesh::DistributedMesh::clear_elems(), 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::RBConstruction::compute_max_error_bound(), 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::ExodusII_IO::copy_elemental_solution(), libMesh::ExodusII_IO::copy_nodal_solution(), libMesh::ExodusII_IO::copy_scalar_solution(), libMesh::Nemesis_IO::copy_scalar_solution(), libMesh::MeshTools::correct_node_proc_ids(), libMesh::ExodusII_IO_Helper::create(), libMesh::DistributedMesh::delete_elem(), libMesh::MeshCommunication::delete_remote_elements(), libMesh::DofMap::distribute_dofs(), libMesh::DofMap::distribute_local_dofs_node_major(), libMesh::DofMap::distribute_local_dofs_var_major(), libMesh::DofMap::distribute_scalar_dofs(), libMesh::DistributedMesh::DistributedMesh(), libMesh::DofMap::end_dof(), libMesh::DofMap::end_old_dof(), libMesh::EnsightIO::EnsightIO(), libMesh::GenericProjector< FFunctor, GFunctor, FValue, ProjectionAction >::SubFunctor::find_dofs_to_send(), libMesh::MeshFunction::find_element(), libMesh::MeshFunction::find_elements(), libMesh::UnstructuredMesh::find_neighbors(), libMesh::DofMap::first_dof(), libMesh::DofMap::first_old_dof(), libMesh::RBEIMEvaluation::gather_bfs(), 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::DofMap::get_local_constraints(), 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::LaplaceMeshSmoother::init(), libMesh::SystemSubsetBySubdomain::init(), libMesh::PetscDMWrapper::init_and_attach_petscdm(), HeatSystem::init_data(), 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::TransientRBEvaluation::legacy_write_offline_data_to_files(), libMesh::RBSCMEvaluation::legacy_write_offline_data_to_files(), libMesh::RBEvaluation::legacy_write_offline_data_to_files(), 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(), main(), libMesh::MeshRefinement::make_coarsening_compatible(), AugmentSparsityOnInterface::mesh_reinit(), libMesh::TriangulatorInterface::MeshedHole::MeshedHole(), 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::RBEIMEvaluation::node_gather_bfs(), libMesh::SparsityPattern::Build::operator()(), libMesh::DistributedMesh::own_node(), libMesh::BoundaryInfo::parallel_sync_node_ids(), libMesh::BoundaryInfo::parallel_sync_side_ids(), libMesh::System::point_gradient(), libMesh::System::point_hessian(), libMesh::System::point_value(), libMesh::DofMap::print_dof_constraints(), libMesh::DofMap::process_mesh_constraint_rows(), 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::EquationSystems::read(), libMesh::ExodusII_IO_Helper::read_elem_num_map(), libMesh::ExodusII_IO_Helper::read_global_values(), libMesh::ExodusII_IO::read_header(), libMesh::CheckpointIO::read_header(), libMesh::XdrIO::read_header(), libMesh::System::read_header(), libMesh::System::read_legacy_data(), libMesh::DynaIO::read_mesh(), libMesh::ExodusII_IO_Helper::read_node_num_map(), libMesh::System::read_parallel_data(), libMesh::TransientRBConstruction::read_riesz_representors_from_files(), libMesh::RBConstruction::read_riesz_representors_from_files(), 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::Nemesis_IO_Helper::read_var_names_impl(), libMesh::DistributedMesh::renumber_dof_objects(), libMesh::DistributedMesh::renumber_nodes_and_elements(), libMesh::DofMap::scatter_constraints(), libMesh::CheckpointIO::select_split_config(), libMesh::DistributedMesh::set_next_unique_id(), libMesh::DofMap::set_nonlocal_dof_objects(), libMesh::PetscDMWrapper::set_point_range_in_section(), libMesh::RBEIMEvaluation::side_gather_bfs(), ExodusTest< elem_type >::test_read_gold(), ExodusTest< elem_type >::test_write(), MeshInputTest::testAbaqusRead(), MeshInputTest::testCopyElementSolutionImpl(), MeshInputTest::testCopyElementVectorImpl(), MeshInputTest::testCopyNodalSolutionImpl(), DefaultCouplingTest::testCoupling(), PointNeighborCouplingTest::testCoupling(), MeshInputTest::testDynaFileMappings(), MeshInputTest::testDynaNoSplines(), MeshInputTest::testDynaReadElem(), MeshInputTest::testDynaReadPatch(), MeshInputTest::testExodusFileMappings(), MeshInputTest::testExodusIGASidesets(), MeshInputTest::testExodusWriteElementDataFromDiscontinuousNodalData(), MeshInputTest::testLowOrderEdgeBlocks(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), SystemsTest::testProjectMatrix3D(), BoundaryInfoTest::testShellFaceConstraints(), MeshInputTest::testSingleElementImpl(), WriteVecAndScalar::testSolution(), CheckpointIOTest::testSplitter(), MeshInputTest::testTetgenIO(), libMesh::MeshTools::total_weight(), libMesh::MeshRefinement::uniformly_coarsen(), libMesh::DistributedMesh::update_parallel_id_counts(), libMesh::DTKAdapter::update_variable_values(), 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_element_values_element_major(), libMesh::ExodusII_IO_Helper::write_elements(), libMesh::ExodusII_IO_Helper::write_elemset_data(), libMesh::ExodusII_IO_Helper::write_elemsets(), 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::VTKIO::write_nodal_data(), libMesh::ExodusII_IO::write_nodal_data(), libMesh::ExodusII_IO::write_nodal_data_common(), libMesh::ExodusII_IO::write_nodal_data_discontinuous(), libMesh::ExodusII_IO_Helper::write_nodal_values(), libMesh::ExodusII_IO_Helper::write_nodeset_data(), libMesh::Nemesis_IO_Helper::write_nodesets(), libMesh::ExodusII_IO_Helper::write_nodesets(), libMesh::RBEIMEvaluation::write_out_interior_basis_functions(), libMesh::RBEIMEvaluation::write_out_node_basis_functions(), libMesh::RBEIMEvaluation::write_out_side_basis_functions(), write_output_solvedata(), libMesh::System::write_parallel_data(), libMesh::RBConstruction::write_riesz_representors_to_files(), 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::ExodusII_IO_Helper::write_sideset_data(), 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().
|
virtual |
Read the contents of the matrix from Matlab's sparse matrix format.
If the size and sparsity of the matrix in filename
appears consistent with the existing sparsity of this
then the existing parallel decomposition and sparsity will be retained. If not, then this
will be initialized with the sparsity from the file, linearly partitioned onto the number of processors available.
Definition at line 502 of file sparse_matrix.C.
Referenced by ConstraintOperatorTest::test1DCoarseningNewNodes(), and ConstraintOperatorTest::testCoreform().
|
virtual |
Read the contents of the matrix from a file in PETSc's binary sparse matrix format.
Reimplemented in libMesh::PetscMatrix< T >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 772 of file sparse_matrix.C.
|
virtual |
Read the contents of the matrix from a file in PETSc's HDF5 sparse matrix format.
Reimplemented in libMesh::PetscMatrix< T >, and libMesh::PetscMatrix< libMesh::Number >.
Definition at line 781 of file sparse_matrix.C.
|
inlinevirtual |
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 500 of file sparse_matrix.h.
|
pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::MeshBase::copy_constraint_rows(), libMesh::MatrixFillAction< ValIn, ValOut >::insert(), libMesh::SparseMatrix< ValOut >::local_m(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), and SystemsTest::testProjectMatrix3D().
|
pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by libMesh::MeshBase::copy_constraint_rows(), libMesh::MatrixFillAction< ValIn, ValOut >::insert(), libMesh::SparseMatrix< ValOut >::local_m(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), and SystemsTest::testProjectMatrix3D().
|
pure virtual |
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.
Implemented in libMesh::PetscMatrix< T >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::EigenSparseMatrix< T >, and libMesh::LumpedMassMatrix< T >.
Referenced by AssembleOptimization::equality_constraints_jacobian(), AssembleOptimization::inequality_constraints_jacobian(), libMesh::MatrixFillAction< ValIn, ValOut >::insert(), libMesh::System::projection_matrix(), ConstraintOperatorTest::test1DCoarseningOperator(), SystemsTest::testProjectMatrix1D(), SystemsTest::testProjectMatrix2D(), and SystemsTest::testProjectMatrix3D().
|
inlinevirtual |
Updates the matrix sparsity pattern.
When your SparseMatrix<T>
implementation does not need this data, simply do not override this method.
Reimplemented in libMesh::EpetraMatrix< T >, and libMesh::LaspackMatrix< T >.
Definition at line 146 of file sparse_matrix.h.
Referenced by libMesh::DofMap::update_sparsity_pattern().
void libMesh::SparseMatrix< T >::vector_mult | ( | NumericVector< T > & | dest, |
const NumericVector< T > & | arg | ||
) | const |
Multiplies the matrix by the NumericVector arg
and stores the result in NumericVector dest
.
Definition at line 200 of file sparse_matrix.C.
Referenced by libMesh::TransientRBConstruction::add_IC_to_RB_space(), libMesh::RBSCMConstruction::Aq_inner_product(), libMesh::RBSCMConstruction::B_inner_product(), libMesh::RBConstruction::compute_Fq_representor_innerprods(), libMesh::RBConstruction::compute_output_dual_innerprods(), libMesh::RBConstruction::compute_residual_dual_norm_slow(), libMesh::TransientRBConstruction::enrich_RB_space(), libMesh::RBConstruction::enrich_RB_space(), AssembleOptimization::gradient(), libMesh::TransientRBConstruction::mass_matrix_scaled_matvec(), AssembleOptimization::objective(), libMesh::RBConstruction::print_basis_function_orthogonality(), libMesh::ImplicitSystem::qoi_parameter_hessian(), libMesh::ImplicitSystem::qoi_parameter_hessian_vector_product(), libMesh::TransientRBConstruction::set_error_temporal_data(), libMesh::RBConstruction::train_reduced_basis_with_POD(), libMesh::TransientRBConstruction::truth_assembly(), libMesh::RBConstruction::truth_solve(), libMesh::TransientRBConstruction::update_RB_system_matrices(), libMesh::RBConstruction::update_RB_system_matrices(), libMesh::TransientRBConstruction::update_residual_terms(), and libMesh::RBConstruction::update_residual_terms().
void libMesh::SparseMatrix< T >::vector_mult_add | ( | NumericVector< T > & | dest, |
const NumericVector< T > & | arg | ||
) | const |
Multiplies the matrix by the NumericVector arg
and adds the result to the NumericVector dest
.
Definition at line 210 of file sparse_matrix.C.
Referenced by libMesh::ImplicitSystem::weighted_sensitivity_adjoint_solve().
|
pure virtual |
Set all entries to 0.
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, and libMesh::EigenSparseMatrix< T >.
Referenced by add_M_C_K_helmholtz(), libMesh::RBSCMConstruction::Aq_inner_product(), libMesh::ImplicitSystem::assemble(), AssembleOptimization::assemble_A_and_F(), libMesh::RBConstruction::assemble_Aq_matrix(), libMesh::RBConstruction::assemble_inner_product_matrix(), libMesh::TransientRBConstruction::assemble_L2_matrix(), libMesh::TransientRBConstruction::assemble_mass_matrix(), libMesh::TransientRBConstruction::assemble_Mq_matrix(), libMesh::FEMSystem::assembly(), libMesh::NewmarkSystem::compute_matrix(), libMesh::RBConstruction::compute_residual_dual_norm_slow(), libMesh::RBSCMConstruction::compute_SCM_bounding_box(), AssembleOptimization::equality_constraints_jacobian(), libMesh::RBSCMConstruction::evaluate_stability_constant(), AssembleOptimization::hessian(), AssembleOptimization::inequality_constraints_jacobian(), LargeDeformationElasticity::jacobian(), libMesh::libmesh_petsc_snes_residual(), libMesh::RBSCMConstruction::load_matrix_B(), main(), LinearElasticityWithContact::residual_and_jacobian(), libMesh::TransientRBConstruction::truth_assembly(), and libMesh::RBConstruction::truth_assembly().
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pure virtual |
Implemented in libMesh::PetscMatrix< T >, libMesh::PetscMatrix< libMesh::Number >, libMesh::EpetraMatrix< T >, libMesh::DiagonalMatrix< T >, libMesh::LaspackMatrix< T >, libMesh::EigenSparseMatrix< T >, and libMesh::LumpedMassMatrix< T >.
|
virtual |
Sets all row entries to 0 then puts diag_value
in the diagonal entry.
Reimplemented in libMesh::PetscMatrix< T >, and libMesh::DiagonalMatrix< T >.
Definition at line 221 of file sparse_matrix.C.
|
friend |
Same as the print method above, but allows you to print to a stream in the standard syntax.
This method seems to be the "preferred" technique, see http://www.parashift.com/c++-faq-lite/template-friends.html
Definition at line 593 of file sparse_matrix.h.
|
protectedinherited |
Definition at line 120 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=(), libMesh::ParallelObject::processor_id(), and libMesh::BoundaryInfo::regenerate_id_sets().
|
staticprotectedinherited |
Actually holds the data.
Definition at line 124 of file reference_counter.h.
Referenced by libMesh::ReferenceCounter::get_info().
|
protected |
The DofMap
object associated with this object.
May be queried for degree-of-freedom counts on processors.
Definition at line 567 of file sparse_matrix.h.
|
staticprotectedinherited |
Flag to control whether reference count information is printed when print_info is called.
Definition at line 143 of file reference_counter.h.
Referenced by libMesh::ReferenceCounter::disable_print_counter_info(), libMesh::ReferenceCounter::enable_print_counter_info(), and libMesh::ReferenceCounter::print_info().
|
protected |
Flag indicating whether or not the matrix has been initialized.
Definition at line 579 of file sparse_matrix.h.
Referenced by libMesh::PetscMatrix< libMesh::Number >::_get_submatrix(), libMesh::PetscMatrix< libMesh::Number >::create_submatrix_nosort(), libMesh::EpetraMatrix< T >::EpetraMatrix(), libMesh::PetscMatrix< libMesh::Number >::get_transpose(), and libMesh::SparseMatrix< ValOut >::initialized().
|
staticprotectedinherited |
Mutual exclusion object to enable thread-safe reference counting.
Definition at line 137 of file reference_counter.h.
|
staticprotectedinherited |
The number of objects.
Print the reference count information when the number returns to 0.
Definition at line 132 of file reference_counter.h.
Referenced by libMesh::ReferenceCounter::n_objects(), libMesh::ReferenceCounter::ReferenceCounter(), and libMesh::ReferenceCounter::~ReferenceCounter().
|
protected |
The sparsity
pattern associated with this object.
Should be queried for entry counts (or with need_full_sparsity_pattern, patterns) when needed.
Definition at line 574 of file sparse_matrix.h.