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#include <pseudo_elastic_preconditioner.h>

Inheritance diagram for oomph::PseudoElasticPreconditioner:

Public Types
enum	Elastic_preconditioner_type { Exact_block_preconditioner , Block_diagonal_preconditioner , Block_lower_triangular_preconditioner , Block_upper_triangular_preconditioner }
	The augmented elasticity system can be preconditioned in one of four ways. 0 - Exact preconditioner 1 - Block diagonal preconditioning 2 - Block upper triangular preconditioner 3 - Block lower triangular preconditioner We group together the different components of the displacement vector field for the block decomposition. More...

typedef Preconditioner (	SubsidiaryPreconditionerFctPt) ()
	This preconditioner includes the option to use subsidiary operators other than SuperLUPreconditioner for this problem. This is the typedef of a function that should return an instance of a subsidiary preconditioning operator. This preconditioner is responsible for the destruction of the subsidiary preconditioners. More...

Public Member Functions
	PseudoElasticPreconditioner ()
	Default (and only) constructor. More...

virtual	~PseudoElasticPreconditioner ()
	destructor More...

	PseudoElasticPreconditioner (const PseudoElasticPreconditioner &)=delete
	Broken copy constructor. More...

void	setup ()
	Broken assignment operator. More...

void	preconditioner_solve (const DoubleVector &r, DoubleVector &z)
	Apply the preconditioner. Method implemented in two other methods (elastic and lagrange multiplier subsidiary preocnditioner) for the PseudoElasticFSIPreconditioner. More...

void	set_elastic_mesh (Mesh *mesh_pt)
	Access function to mesh containing the block-preconditionable elastic elements. More...

void	set_lagrange_multiplier_mesh (Mesh *mesh_pt)
	Access function to mesh containing the block-preconditionable lagrange multiplier elements. More...

void	enable_inf_norm_of_s_scaling ()
	Call to use the inf norm of S as scaling. More...

void	disable_inf_norm_of_s_scaling ()
	Call to use no scaling. More...

void	set_lagrange_multiplier_subsidiary_preconditioner (SubsidiaryPreconditionerFctPt prec_fn)
	By default the Lagrange multiplier subsidiary systems are preconditioner with SuperLUPreconditioner. For a different preconditioner, pass a function to this method returning a different subsidiary operator. More...

void	set_elastic_subsidiary_preconditioner (SubsidiaryPreconditionerFctPt prec_fn)
	By default the elastic subsidiary systems are preconditioner with SuperLUPreconditioner. For a different preconditioner, pass a function to this method returning a different subsidiary operator. More...

Elastic_preconditioner_type &	elastic_preconditioner_type ()
	Set the type of preconditioner applied to the elastic: 0 - Exact preconditioner 1 - Block diagonal preconditioning 2 - Block upper triangular preconditioner 3 - Block lower triangular preconditioner We group together the different components of the displacement vector field for the block decomposition. More...

void	clean_up_memory ()
	Clears the memory. More...

Public Member Functions inherited from oomph::BlockPreconditioner< CRDoubleMatrix >
	BlockPreconditioner ()
	Constructor. More...

	BlockPreconditioner (const BlockPreconditioner &)=delete
	Broken copy constructor. More...

virtual	~BlockPreconditioner ()
	Destructor. More...

void	operator= (const BlockPreconditioner &)=delete
	Broken assignment operator. More...

CRDoubleMatrix *	matrix_pt () const
	Access function to matrix_pt. If this is the master then cast the matrix pointer to MATRIX*, error check and return. Otherwise ask the master for its matrix pointer. More...

void	turn_on_recursive_debug_flag ()
	Toggles on the recursive debug flag. The change goes up the block preconditioning hierarchy. More...

void	turn_off_recursive_debug_flag ()
	Toggles off the recursive debug flag. The change goes up the block preconditioning hierarchy. More...

void	turn_on_debug_flag ()
	Toggles on the debug flag. More...

void	turn_off_debug_flag ()
	Toggles off the debug flag. More...

void	turn_into_subsidiary_block_preconditioner (BlockPreconditioner< CRDoubleMatrix > *master_block_prec_pt, const Vector< unsigned > &doftype_in_master_preconditioner_coarse)
	Function to turn this preconditioner into a subsidiary preconditioner that operates within a bigger "master block preconditioner (e.g. a Navier-Stokes 2x2 block preconditioner dealing with the fluid sub-blocks within a 3x3 FSI preconditioner. Once this is done the master block preconditioner deals with the block setup etc. The vector doftype_in_master_preconditioner_coarse must specify the dof number in the master preconditioner that corresponds to a dof number in this preconditioner. 1. The length of the vector is used to determine the number of blocks in this preconditioner therefore it must be correctly sized. 2. block_setup(...) should be called in the master preconditioner before this method is called. 3. block_setup(...) should be called in the corresponding subsidiary preconditioner after this method is called. More...

void	turn_into_subsidiary_block_preconditioner (BlockPreconditioner< CRDoubleMatrix > *master_block_prec_pt, const Vector< unsigned > &doftype_in_master_preconditioner_coarse, const Vector< Vector< unsigned >> &doftype_coarsen_map_coarse)
	Function to turn this preconditioner into a subsidiary preconditioner that operates within a bigger "master block preconditioner (e.g. a Navier-Stokes 2x2 block preconditioner dealing with the fluid sub-blocks within a 3x3 FSI preconditioner. Once this is done the master block preconditioner deals with the block setup etc. The vector doftype_in_master_preconditioner_coarse must specify the dof number in the master preconditioner that corresponds to a dof number in this preconditioner. 1. The length of the vector is used to determine the number of blocks in this preconditioner therefore it must be correctly sized. 2. block_setup(...) should be called in the master preconditioner before this method is called. 3. block_setup(...) should be called in the corresponding subsidiary preconditioner after this method is called. More...

virtual void	block_setup ()
	Determine the size of the matrix blocks and setup the lookup schemes relating the global degrees of freedom with their "blocks" and their indices (row/column numbers) in those blocks. The distributions of the preconditioner and the internal blocks are automatically specified (and assumed to be uniform) at this stage. This method should be used if the identity dof-to-block mapping is okay, i.e. dof number 0 corresponds to block number 0 dof number 1 corresponds to block number 1 dof number 2 corresponds to block number 2 etc... More...

void	block_setup (const Vector< unsigned > &dof_to_block_map)
	Determine the size of the matrix blocks and setup the lookup schemes relating the global degrees of freedom with their "blocks" and their indices (row/column numbers) in those blocks. The distributions of the preconditioner and the blocks are automatically specified (and assumed to be uniform) at this stage. This method should be used if anything other than the identity dof-to-block mapping is required. The argument vector dof_to_block_map should be of length ndof. The indices represents the dof types whilst the value represents the block types. In general we want: More...

void	get_block (const unsigned &i, const unsigned &j, CRDoubleMatrix &output_matrix, const bool &ignore_replacement_block=false) const
	Put block (i,j) into output_matrix. This block accounts for any coarsening of dof types and any replaced dof-level blocks above this preconditioner. More...

CRDoubleMatrix	get_block (const unsigned &i, const unsigned &j, const bool &ignore_replacement_block=false) const
	Return block (i,j). If the optional argument ignore_replacement_block is true, then any blocks in Replacement_dof_block_pt will be ignored throughout the preconditioning hierarchy. More...

void	set_master_matrix_pt (CRDoubleMatrix *in_matrix_pt)
	Set the matrix_pt in the upper-most master preconditioner. More...

void	get_block_other_matrix (const unsigned &i, const unsigned &j, CRDoubleMatrix *in_matrix_pt, CRDoubleMatrix &output_matrix)
	Get a block from a different matrix using the blocking scheme that has already been set up. More...

void	get_blocks (DenseMatrix< bool > &required_blocks, DenseMatrix< CRDoubleMatrix * > &block_matrix_pt) const
	Get all the block matrices required by the block preconditioner. Takes a pointer to a matrix of bools that indicate if a specified sub-block is required for the preconditioning operation. Computes the required block matrices, and stores pointers to them in the matrix block_matrix_pt. If an entry in block_matrix_pt is equal to NULL on return, that sub-block has not been requested and is therefore not available. More...

void	get_dof_level_block (const unsigned &i, const unsigned &j, CRDoubleMatrix &output_block, const bool &ignore_replacement_block=false) const
	Gets dof-level block (i,j). If Replacement_dof_block_pt(i,j) is not null, then the replacement block is returned via a deep copy. More...

void	get_dof_level_block (const unsigned &block_i, const unsigned &block_j, CRDoubleMatrix &output_block, const bool &ignore_replacement_block) const
	Gets dof-level block (i,j). If Replacement_dof_block_pt(i,j) is not null, then the replacement block is returned via a deep copy. More...

CRDoubleMatrix	get_concatenated_block (const VectorMatrix< BlockSelector > &selected_block)
	Returns a concatenation of the block matrices specified by the argument selected_block. The VectorMatrix selected_block must be correctly sized as it is used to determine the number of sub block matrices to concatenate. More...

void	get_concatenated_block_vector (const Vector< unsigned > &block_vec_number, const DoubleVector &v, DoubleVector &b)
	Takes the naturally ordered vector and extracts the blocks indicated by the block number (the values) in the Vector block_vec_number all at once, then concatenates them without communication. Here, the values in block_vec_number is the block number in the current preconditioner. This is a non-const function because distributions may be created and stored in Auxiliary_block_distribution_pt for future use. More...

void	return_concatenated_block_vector (const Vector< unsigned > &block_vec_number, const DoubleVector &b, DoubleVector &v) const
	Takes concatenated block ordered vector, b, and copies its entries to the appropriate entries in the naturally ordered vector, v. Here the values in block_vec_number indicates which blocks the vector b is a concatenation of. The block number are those in the current preconditioner. If the preconditioner is a subsidiary block preconditioner the other entries in v that are not associated with it are left alone. More...

void	get_block_vectors (const Vector< unsigned > &block_vec_number, const DoubleVector &v, Vector< DoubleVector > &s) const
	Takes the naturally ordered vector and rearranges it into a vector of sub vectors corresponding to the blocks, so s[b][i] contains the i-th entry in the vector associated with block b. Note: If the preconditioner is a subsidiary preconditioner then only the sub-vectors associated with the blocks of the subsidiary preconditioner will be included. Hence the length of v is master_nrow() whereas the total length of the s vectors is the sum of the lengths of the individual block vectors defined in block_vec_number. More...

void	get_block_vectors (const DoubleVector &v, Vector< DoubleVector > &s) const
	Takes the naturally ordered vector and rearranges it into a vector of sub vectors corresponding to the blocks, so s[b][i] contains the i-th entry in the vector associated with block b. Note: If the preconditioner is a subsidiary preconditioner then only the sub-vectors associated with the blocks of the subsidiary preconditioner will be included. Hence the length of v is master_nrow() whereas the total length of the s vectors is Nrow. This is simply a wrapper around the other get_block_vectors(...) function where the block_vec_number Vector is the identity, i.e. block_vec_number is [0, 1, ..., nblock_types - 1]. More...

void	return_block_vectors (const Vector< unsigned > &block_vec_number, const Vector< DoubleVector > &s, DoubleVector &v) const
	Takes the vector of block vectors, s, and copies its entries into the naturally ordered vector, v. If this is a subsidiary block preconditioner only those entries in v that are associated with its blocks are affected. The block_vec_number indicates which block the vectors in s came from. The block number corresponds to the block numbers in this preconditioner. More...

void	return_block_vectors (const Vector< DoubleVector > &s, DoubleVector &v) const
	Takes the vector of block vectors, s, and copies its entries into the naturally ordered vector, v. If this is a subsidiary block preconditioner only those entries in v that are associated with its blocks are affected. The block_vec_number indicates which block the vectors in s came from. The block number corresponds to the block numbers in this preconditioner. This is simply a wrapper around the other return_block_vectors(...) function where the block_vec_number Vector is the identity, i.e. block_vec_number is [0, 1, ..., nblock_types - 1]. More...

void	get_block_vector (const unsigned &n, const DoubleVector &v, DoubleVector &b) const
	Takes the naturally ordered vector, v and returns the n-th block vector, b. Here n is the block number in the current preconditioner. More...

void	return_block_vector (const unsigned &n, const DoubleVector &b, DoubleVector &v) const
	Takes the n-th block ordered vector, b, and copies its entries to the appropriate entries in the naturally ordered vector, v. Here n is the block number in the current block preconditioner. If the preconditioner is a subsidiary block preconditioner the other entries in v that are not associated with it are left alone. More...

void	get_block_ordered_preconditioner_vector (const DoubleVector &v, DoubleVector &w)
	Given the naturally ordered vector, v, return the vector rearranged in block order in w. This function calls get_concatenated_block_vector(...) with the identity block mapping. More...

void	return_block_ordered_preconditioner_vector (const DoubleVector &w, DoubleVector &v) const
	Takes the block ordered vector, w, and reorders it in natural order. Reordered vector is returned in v. Note: If the preconditioner is a subsidiary preconditioner then only the components of the vector associated with the blocks of the subsidiary preconditioner will be included. Hence the length of v is master_nrow() whereas that of the vector w is of length this->nrow(). More...

unsigned	nblock_types () const
	Return the number of block types. More...

unsigned	ndof_types () const
	Return the total number of DOF types. More...

const Mesh *	mesh_pt (const unsigned &i) const
	Access to i-th mesh (of the various meshes that contain block preconditionable elements of the same number of dof type). More...

unsigned	nmesh () const
	Return the number of meshes in Mesh_pt. More...

int	block_number (const unsigned &i_dof) const
	Return the block number corresponding to a global index i_dof. More...

int	index_in_block (const unsigned &i_dof) const
	Given a global dof number, returns the index in the block it belongs to. This is the overall index, not local block (in parallel). More...

const LinearAlgebraDistribution *	block_distribution_pt (const unsigned &b) const
	Access function to the block distributions (const version). More...

LinearAlgebraDistribution *	block_distribution_pt (const unsigned b)
	Access function to the block distributions (non-const version). More...

LinearAlgebraDistribution *	dof_block_distribution_pt (const unsigned &b)
	Access function to the dof-level block distributions. More...

const LinearAlgebraDistribution *	master_distribution_pt () const
	Access function to the distribution of the master preconditioner. If this preconditioner does not have a master preconditioner then the distribution of this preconditioner is returned. More...

unsigned	ndof_types_in_mesh (const unsigned &i) const
	Return the number of DOF types in mesh i. WARNING: This should only be used by the upper-most master block preconditioner. An error is thrown is this function is called from a subsidiary preconditioner. They (and since every block preconditioner can in principle be used as s subsidiary preconditioner: all block preconditioners) should store local copies of "their meshes" (if they're needed for anything) More...

bool	is_subsidiary_block_preconditioner () const
	Return true if this preconditioner is a subsidiary preconditioner. More...

bool	is_master_block_preconditioner () const
	Return true if this preconditioner is the master block preconditioner. More...

void	set_block_output_to_files (const std::string &basefilename)
	Set the base part of the filename to output blocks to. If it is set then all blocks will be output at the end of block_setup. If it is left empty nothing will be output. More...

void	disable_block_output_to_files ()
	Turn off output of blocks (by clearing the basefilename string). More...

bool	block_output_on () const
	Test if output of blocks is on or not. More...

void	output_blocks_to_files (const std::string &basefilename, const unsigned &precision=8) const
	Output all blocks to numbered files. Called at the end of get blocks if an output filename has been set. More...

void	post_block_matrix_assembly_partial_clear ()
	A helper method to reduce the memory requirements of block preconditioners. Once the methods get_block(...), get_blocks(...) and build_preconditioner_matrix(...) have been called in this and all subsidiary block preconditioners this method can be called to clean up. More...

BlockPreconditioner< CRDoubleMatrix > *	master_block_preconditioner_pt () const
	Access function to the master block preconditioner pt. More...

void	clear_block_preconditioner_base ()
	Clears all BlockPreconditioner data. Called by the destructor and the block_setup(...) methods. More...

void	document ()
	debugging method to document the setup. Should only be called after block_setup(...). More...

Vector< Vector< unsigned > >	doftype_coarsen_map_fine () const
	Access function for the Doftype_coarsen_map_fine variable. More...

Vector< unsigned >	get_fine_grain_dof_types_in (const unsigned &i) const
	Returns the most fine grain dof types in a (possibly coarsened) dof type. More...

unsigned	nfine_grain_dof_types_in (const unsigned &i) const
	Access function for the number of most fine grain dof types in a (possibly coarsened) dof type. More...

MapMatrix< unsigned, CRDoubleMatrix * >	replacement_dof_block_pt () const
	Access function to the replaced dof-level blocks. More...

void	setup_matrix_vector_product (MatrixVectorProduct matvec_prod_pt, CRDoubleMatrix block_pt, const Vector< unsigned > &block_col_indices)
	Setup a matrix vector product. matvec_prod_pt is a pointer to the MatrixVectorProduct, block_pt is a pointer to the block matrix, block_col_indices is a vector indicating which block indices does the RHS vector we want to multiply the matrix by. More...

void	setup_matrix_vector_product (MatrixVectorProduct matvec_prod_pt, CRDoubleMatrix block_pt, const unsigned &block_col_index)
	Setup matrix vector product. This is simply a wrapper around the other setup_matrix_vector_product function. More...

void	internal_get_block_ordered_preconditioner_vector (const DoubleVector &v, DoubleVector &w) const
	Given the naturally ordered vector, v, return the vector rearranged in block order in w. This is a legacy function from the old block preconditioning framework. Kept alive in case it may be needed again. More...

void	internal_return_block_ordered_preconditioner_vector (const DoubleVector &w, DoubleVector &v) const
	Takes the block ordered vector, w, and reorders it in the natural order. Reordered vector is returned in v. Note: If the preconditioner is a subsidiary preconditioner then only the components of the vector associated with the blocks of the subsidiary preconditioner will be included. Hence the length of v is master_nrow() whereas that of the vector w is of length this->nrow(). More...

unsigned	internal_nblock_types () const
	Return the number internal blocks. This should be the same as the number of internal dof types. Internally, the block preconditioning framework always work with the most fine grain blocks. I.e. it always deal with the most fine grain dof-level blocks. This allows for coarsening of dof types. When we extract a block, we look at the Block_to_dof_map_fine vector to find out which most fine grain dof types belongs to this block. More...

unsigned	internal_ndof_types () const
	Return the number of internal dof types. This is the number of most fine grain dof types. The preconditioner writer should not have to concern him/her-self with the internal dof/block types. Thus this fuction is moved to private. We have kept this function alive since it it still used deep within the inner workings of the block preconditioning framework. More...

void	internal_return_block_vector (const unsigned &n, const DoubleVector &b, DoubleVector &v) const
	Takes the n-th block ordered vector, b, and copies its entries to the appropriate entries in the naturally ordered vector, v. Here n is the block number in the current block preconditioner. If the preconditioner is a subsidiary block preconditioner the other entries in v that are not associated with it are left alone. More...

void	internal_get_block_vector (const unsigned &n, const DoubleVector &v, DoubleVector &b) const
	A helper function, takes the naturally ordered vector, v, and extracts the n-th block vector, b. Here n is the block number in the current preconditioner. NOTE: The ordering of the vector b is the same as the ordering of the block matrix from internal_get_block(...). More...

void	internal_get_block_vectors (const Vector< unsigned > &block_vec_number, const DoubleVector &v, Vector< DoubleVector > &s) const
	Takes the naturally ordered vector and rearranges it into a vector of sub vectors corresponding to the blocks, so s[b][i] contains the i-th entry in the vector associated with block b. The block_vec_number indicates which blocks we want. These blocks and vectors are those corresponding to the internal blocks. Note: If the preconditioner is a subsidiary preconditioner then only the sub-vectors associated with the blocks of the subsidiary preconditioner will be included. Hence the length of v is master_nrow() whereas the total length of the s vectors is the sum of the Nrow of the sub vectors. More...

void	internal_get_block_vectors (const DoubleVector &v, Vector< DoubleVector > &s) const
	A helper function, takes the naturally ordered vector and rearranges it into a vector of sub vectors corresponding to the blocks, so s[b][i] contains the i-th entry in the vector associated with block b. The block_vec_number indicates which blocks we want. These blocks and vectors are those corresponding to the internal blocks. Note: If the preconditioner is a subsidiary preconditioner then only the sub-vectors associated with the blocks of the subsidiary preconditioner will be included. Hence the length of v is master_nrow() whereas the total length of the s vectors is the sum of the Nrow of the sub vectors. This is simply a wrapper around the other internal_get_block_vectors(...) function with the identity block_vec_number vector. More...

void	internal_return_block_vectors (const Vector< unsigned > &block_vec_number, const Vector< DoubleVector > &s, DoubleVector &v) const
	A helper function, takes the vector of block vectors, s, and copies its entries into the naturally ordered vector, v. If this is a subsidiary block preconditioner only those entries in v that are associated with its blocks are affected. More...

void	internal_return_block_vectors (const Vector< DoubleVector > &s, DoubleVector &v) const
	A helper function, takes the vector of block vectors, s, and copies its entries into the naturally ordered vector, v. If this is a subsidiary block preconditioner only those entries in v that are associated with its blocks are affected. This is simple a wrapper around the other internal_return_block_vectors(...) function with the identity block_vec_number vector. More...

void	internal_get_block (const unsigned &i, const unsigned &j, CRDoubleMatrix &output_block) const
	Gets block (i,j) from the matrix pointed to by Matrix_pt and returns it in output_block. This is associated with the internal blocks. Please use the other get_block(...) function. More...

void	internal_get_block (const unsigned &block_i, const unsigned &block_j, CRDoubleMatrix &output_block) const
	Gets block (i,j) from the matrix pointed to by Matrix_pt and returns it in output_block. This is associated with the internal blocks. Please use the other get_block(...) function. More...

int	internal_block_number (const unsigned &i_dof) const
	Return the block number corresponding to a global index i_dof. This returns the block number corresponding to the internal blocks. What this means is that this returns the most fine grain dof-block number which this global index i_dof corresponds to. Since the writer of the preconditioner does not need to care about the internal block types, this function should not be used and thus moved to private. This function should not be removed since it is still used deep within the inner workings of the block preconditioning framework. More...

int	internal_index_in_block (const unsigned &i_dof) const
	Return the index in the block corresponding to a global block number i_dof. The index returned corresponds to the internal blocks, which is the most fine grain dof blocks. More...

const LinearAlgebraDistribution *	internal_block_distribution_pt (const unsigned &b) const
	Access function to the internal block distributions. More...

void	insert_auxiliary_block_distribution (const Vector< unsigned > &block_vec_number, LinearAlgebraDistribution *dist_pt)
	insert a Vector<unsigned> and LinearAlgebraDistribution* pair into Auxiliary_block_distribution_pt. The Auxiliary_block_distribution_pt should only contain pointers to distributions concatenated at this block level. We try to ensure this by checking if the block_vec_number vector is within the range nblock_types(). Of course, this does not guarantee correctness, but this is the least we can do. More...

void	block_matrix_test (const unsigned &i, const unsigned &j, const CRDoubleMatrix *block_matrix_pt) const
	Private helper function to check that every element in the block matrix (i,j) matches the corresponding element in the original matrix. More...

int	get_index_of_value (const Vector< myType > &vec, const myType val, const bool sorted=false) const
	Get the index of first occurrence of value in a vector. If the element does not exist, -1 is returned. The optional parameter indicates of the Vector is sorted or not. Complexity: if the Vector is sorted, then on average, logarithmic in the distance between first and last: Performs approximately log2(N)+2 element comparisons. Otherwise, up to linear in the distance between first and last: Compares elements until a match is found. More...

Public Member Functions inherited from oomph::Preconditioner
	Preconditioner ()
	Constructor. More...

	Preconditioner (const Preconditioner &)=delete
	Broken copy constructor. More...

void	operator= (const Preconditioner &)=delete
	Broken assignment operator. More...

virtual	~Preconditioner ()
	Destructor (empty) More...

virtual void	preconditioner_solve_transpose (const DoubleVector &r, DoubleVector &z)
	Apply the preconditioner. Pure virtual generic interface function. This method should apply the preconditioner operator to the vector r and return the vector z. (broken virtual) More...

void	setup (DoubleMatrixBase *matrix_pt)
	Setup the preconditioner: store the matrix pointer and the communicator pointer then call preconditioner specific setup() function. More...

void	setup (const Problem problem_pt, DoubleMatrixBase matrix_pt)
	Compatability layer for old preconditioners where problem pointers were needed. The problem pointer is only used to get a communicator pointer. More...

void	enable_silent_preconditioner_setup ()
	Set up the block preconditioner quietly! More...

void	disable_silent_preconditioner_setup ()
	Be verbose in the block preconditioner setup. More...

virtual void	set_matrix_pt (DoubleMatrixBase *matrix_pt)
	Set the matrix pointer. More...

virtual const OomphCommunicator *	comm_pt () const
	Get function for comm pointer. More...

virtual void	set_comm_pt (const OomphCommunicator *const comm_pt)
	Set the communicator pointer. More...

double	setup_time () const
	Returns the time to setup the preconditioner. More...

virtual void	turn_into_subsidiary_block_preconditioner (BlockPreconditioner< CRDoubleMatrix > *master_block_prec_pt, const Vector< unsigned > &doftype_in_master_preconditioner_coarse)
	Virtual interface function for making a preconditioner a subsidiary of a block preconditioner. By default nothing is needed, but if this preconditioner is also a block preconditioner then things need to happen. There's an assumption here that the block preconditioner will be in CR form but since that assumption is hard coded all over BlockPreconditioner we're safe. More...

virtual void	turn_into_subsidiary_block_preconditioner (BlockPreconditioner< CRDoubleMatrix > *master_block_prec_pt, const Vector< unsigned > &doftype_in_master_preconditioner_coarse, const Vector< Vector< unsigned >> &doftype_coarsen_map_coarse)
	Virtual interface function for making a preconditioner a subsidiary of a block preconditioner. By default nothing is needed, but if this preconditioner is also a block preconditioner then things need to happen. Version for coarsening dof-types. More...

Public Member Functions inherited from oomph::DistributableLinearAlgebraObject
	DistributableLinearAlgebraObject ()
	Default constructor - create a distribution. More...

	DistributableLinearAlgebraObject (const DistributableLinearAlgebraObject &matrix)=delete
	Broken copy constructor. More...

void	operator= (const DistributableLinearAlgebraObject &)=delete
	Broken assignment operator. More...

virtual	~DistributableLinearAlgebraObject ()
	Destructor. More...

LinearAlgebraDistribution *	distribution_pt () const
	access to the LinearAlgebraDistribution More...

unsigned	nrow () const
	access function to the number of global rows. More...

unsigned	nrow_local () const
	access function for the num of local rows on this processor. More...

unsigned	nrow_local (const unsigned &p) const
	access function for the num of local rows on this processor. More...

unsigned	first_row () const
	access function for the first row on this processor More...

unsigned	first_row (const unsigned &p) const
	access function for the first row on this processor More...

bool	distributed () const
	distribution is serial or distributed More...

bool	distribution_built () const
	if the communicator_pt is null then the distribution is not setup then false is returned, otherwise return true More...

void	build_distribution (const LinearAlgebraDistribution *const dist_pt)
	setup the distribution of this distributable linear algebra object More...

void	build_distribution (const LinearAlgebraDistribution &dist)
	setup the distribution of this distributable linear algebra object More...

Private Member Functions
void	elastic_preconditioner_solve (const DoubleVector &r, DoubleVector &z)
	Apply the elastic subsidiary preconditioner. More...

void	lagrange_multiplier_preconditioner_solve (const DoubleVector &r, DoubleVector &z)
	Apply the lagrange multiplier subsidiary preconditioner. More...

Private Attributes
double	Scaling
	The scaling. Defaults to infinity norm of S. More...

bool	Use_inf_norm_of_s_scaling
	boolean indicating whether the inf-norm of S should be used as scaling. Default = true; More...

Elastic_preconditioner_type	E_preconditioner_type
	An unsigned indicating which method should be used for preconditioning the solid component. More...

unsigned	Dim
	the dimension of the problem More...

Preconditioner *	Elastic_preconditioner_pt
	storage for the preconditioner for the solid system More...

Vector< Preconditioner * >	Lagrange_multiplier_preconditioner_pt
	lagrange multiplier preconditioner pt More...

SubsidiaryPreconditionerFctPt	Lagrange_multiplier_subsidiary_preconditioner_function_pt
	The Lagrange multiplier subsidiary preconditioner function pointer. More...

SubsidiaryPreconditionerFctPt	Elastic_subsidiary_preconditioner_function_pt
	The solid subsidiary preconditioner function pointer. More...

Mesh *	Elastic_mesh_pt
	Pointer to the mesh containing the solid elements. More...

Mesh *	Lagrange_multiplier_mesh_pt
	Pointer to the mesh containing the Lagrange multiplier elements. More...

Friends
class	PseudoElasticFSIPreconditioner
	PseudoElasticFSIPreconditioner is a friend to access the private *_preconditioner_solve(...) method. More...

Additional Inherited Members
Protected Member Functions inherited from oomph::BlockPreconditioner< CRDoubleMatrix >
void	set_nmesh (const unsigned &n)
	Specify the number of meshes required by this block preconditioner. Note: elements in different meshes correspond to different types of DOF. More...

void	set_mesh (const unsigned &i, const Mesh *const mesh_pt, const bool &allow_multiple_element_type_in_mesh=false)
	Set the i-th mesh for this block preconditioner. Note: The method set_nmesh(...) must be called before this method to specify the number of meshes. By default, it is assumed that each mesh only contains elements of the same type. This condition may be relaxed by setting the boolean allow_multiple_element_type_in_mesh to true, however, each mesh must only contain elements with the same number of dof types. More...

void	set_replacement_dof_block (const unsigned &block_i, const unsigned &block_j, CRDoubleMatrix *replacement_dof_block_pt)
	Set replacement dof-level blocks. Only dof-level blocks can be set. This is important due to how the dof type coarsening feature operates. More...

bool	any_mesh_distributed () const
	Check if any of the meshes are distributed. This is equivalent to problem.distributed() and is used as a replacement. More...

int	internal_dof_number (const unsigned &i_dof) const
	Return the number of the block associated with global unknown i_dof. If this preconditioner is a subsidiary block preconditioner then the block number in the subsidiary block preconditioner is returned. If a particular global DOF is not associated with this preconditioner then -1 is returned. More...

unsigned	internal_index_in_dof (const unsigned &i_dof) const
	Return the row/column number of global unknown i_dof within it's block. More...

unsigned	internal_block_dimension (const unsigned &b) const
	Return the number of degrees of freedom in block b. Note that if this preconditioner acts as a subsidiary preconditioner then b refers to the block number in the subsidiary preconditioner not the master block preconditioner. More...

unsigned	internal_dof_block_dimension (const unsigned &i) const
	Return the size of the dof "block" i, i.e. how many degrees of freedom are associated with it. Note that if this preconditioner acts as a subsidiary preconditioner, then i refers to the block number in the subsidiary preconditioner not the master block preconditioner. More...

unsigned	master_nrow () const
	Return the number of dofs (number of rows or columns) in the overall problem. The prefix "master_" is sort of redundant when used as a stand-alone block preconditioner but is required to avoid ambiguities. The latter is stored (and maintained) separately for each specific block preconditioner regardless of its role. More...

unsigned	internal_master_dof_number (const unsigned &b) const
	Takes the block number within this preconditioner and returns the corresponding block number in the master preconditioner. If this preconditioner does not have a master block preconditioner then the block number passed is returned. More...

const LinearAlgebraDistribution *	internal_preconditioner_matrix_distribution_pt () const
	access function to the internal preconditioner matrix distribution pt. preconditioner_matrix_distribution_pt always returns the concatenation of the internal block distributions. Since the writer of the preconditioner does not need to concern themselves with the internal dof/block, please use preconditioner_matrix_distribution_pt(). More...

const LinearAlgebraDistribution *	preconditioner_matrix_distribution_pt () const
	Access function to the preconditioner matrix distribution pointer. This is the concatenation of the block distributions with the identity ordering. I.e. if this preconditioner has three block types, with the three associated block distributions dist_b0, dist_b1 and dist_b2, then this distribution is: LinearAlgebraDistributionHelpers::concatenate(dist_b0, dist_b1, dist_b2). More...

Protected Member Functions inherited from oomph::DistributableLinearAlgebraObject
void	clear_distribution ()
	clear the distribution of this distributable linear algebra object More...

Protected Attributes inherited from oomph::BlockPreconditioner< CRDoubleMatrix >
MapMatrix< unsigned, CRDoubleMatrix * >	Replacement_dof_block_pt
	The replacement dof-level blocks. More...

Vector< LinearAlgebraDistribution * >	Block_distribution_pt
	The distribution for the blocks. More...

Vector< Vector< unsigned > >	Block_to_dof_map_coarse
	Mapping for block types to dof types. These are the dof types the writer of the preconditioner expects. For the upper-most master block preconditioner, this would be the sum of the dof types in the meshes. For subsidiary block preconditioners, this is determined by the parent preconditioner when passing in the doftype_coarsen_map_coarse vector in turn_into_subsidiary_block_preconditioner(...). More...

Vector< Vector< unsigned > >	Block_to_dof_map_fine
	Mapping for the block types to the most fine grain dof types. More...

Vector< Vector< unsigned > >	Doftype_coarsen_map_coarse
	Mapping for dof types within THIS precondition. This is usually passed down from the parent preconditioner. This list is used to tell which does types should be considered as a single dof type within this preconditioner. I.e. we "coarsen" the dof types. The values are local to this preconditioner, for example, even if the Doftype_in_master_preconditioner_coarse = [2,3,4], the vector Doftype_coarsen_map_coarse = [[0],[1,2]], saying your local dof types 0 should be considered as dof type 0 and dof types 1 and 2 are considered as dof type 1. More...

Vector< Vector< unsigned > >	Doftype_coarsen_map_fine
	Mapping the dof types within this preconditioner. The values in here refers to the most grain dof types. This list is automatically generated either in block_setup(...) (for the top-most preconditioner) or the turn_into_subsidiary_block_preconditioner(...) function. Please refer to the comment above Doftype_coarsen_map_coarse for more details. More...

Vector< LinearAlgebraDistribution * >	Internal_block_distribution_pt
	Storage for the default distribution for each internal block. More...

Vector< LinearAlgebraDistribution * >	Dof_block_distribution_pt
	Storage for the default distribution for each dof block at this level. More...

Vector< unsigned >	Allow_multiple_element_type_in_mesh
	Vector of unsigned to indicate which meshes contain multiple element types. More...

Vector< const Mesh * >	Mesh_pt
	Vector of pointers to the meshes containing the elements used in the block preconditioner. Const pointers to prevent modification of the mesh by the preconditioner (this could be relaxed if needed). If this is a subsidiary preconditioner, then the information is looked up in the master preconditioner. More...

Vector< unsigned >	Ndof_types_in_mesh
	Storage for number of types of degree of freedom of the elements in each mesh. More...

unsigned	Internal_nblock_types
	Number of different block types in this preconditioner. Note that this information is maintained if used as a subsidiary or stand-alone block preconditioner, in the latter case it stores the number of blocks within the subsidiary preconditioner. More...

unsigned	Internal_ndof_types
	Number of different DOF types in this preconditioner. Note that this information is maintained if used as a subsidiary or stand-alone block preconditioner, in the latter case it stores the number of dofs within the subsidiary preconditioner. More...

Protected Attributes inherited from oomph::Preconditioner
bool	Silent_preconditioner_setup
	Boolean to indicate whether or not the build should be done silently. More...

std::ostream *	Stream_pt
	Pointer to the output stream – defaults to std::cout. More...

Detailed Description

//////////////////////////////////////////////////////////////////////////// ////////////////////////////////////////////////////////////////////////////

A subsidiary preconditioner for the pseudo-elastic FSI preconditioner. Also a stand-alone preconditioner for the problem of non-linear elasticity subject to prescribed displacement by Lagrange multiplier. Enumeration of Elastic DOF types in the Pseudo-Elastic Elements The method get_dof_types_for_unknowns() must be implemented such that DOFs subject be Lagrange multiplier and DOFs NOT subject to Lagrange multiplier have different labels. For example in a 3D problem there are 6 DOF types and the following labelling must be implemented: 0 - x displacement (without lagr mult traction) 1 - y displacement (without lagr mult traction) 2 - z displacement (without lagr mult traction) 4 - x displacement (with lagr mult traction) 5 - y displacement (with lagr mult traction) 6 - z displacement (with lagr mult traction)

Definition at line 99 of file pseudo_elastic_preconditioner.h.

Member Typedef Documentation

◆ SubsidiaryPreconditionerFctPt

typedef Preconditioner*(* oomph::PseudoElasticPreconditioner::SubsidiaryPreconditionerFctPt) ()

This preconditioner includes the option to use subsidiary operators other than SuperLUPreconditioner for this problem. This is the typedef of a function that should return an instance of a subsidiary preconditioning operator. This preconditioner is responsible for the destruction of the subsidiary preconditioners.

Definition at line 111 of file pseudo_elastic_preconditioner.h.

Member Enumeration Documentation

◆ Elastic_preconditioner_type

enum oomph::PseudoElasticPreconditioner::Elastic_preconditioner_type

The augmented elasticity system can be preconditioned in one of four ways. 0 - Exact preconditioner 1 - Block diagonal preconditioning 2 - Block upper triangular preconditioner 3 - Block lower triangular preconditioner We group together the different components of the displacement vector field for the block decomposition.

Enumerator
Exact_block_preconditioner
Block_diagonal_preconditioner
Block_lower_triangular_preconditioner
Block_upper_triangular_preconditioner

Definition at line 121 of file pseudo_elastic_preconditioner.h.

Constructor & Destructor Documentation

◆ PseudoElasticPreconditioner() [1/2]

oomph::PseudoElasticPreconditioner::PseudoElasticPreconditioner ( )

inline

Default (and only) constructor.

Definition at line 130 of file pseudo_elastic_preconditioner.h.

References E_preconditioner_type, Elastic_mesh_pt, Elastic_preconditioner_pt, Elastic_subsidiary_preconditioner_function_pt, Exact_block_preconditioner, Lagrange_multiplier_mesh_pt, Lagrange_multiplier_subsidiary_preconditioner_function_pt, and Use_inf_norm_of_s_scaling.

◆ ~PseudoElasticPreconditioner()

virtual oomph::PseudoElasticPreconditioner::~PseudoElasticPreconditioner ( )

inlinevirtual

destructor

Definition at line 147 of file pseudo_elastic_preconditioner.h.

References clean_up_memory().

◆ PseudoElasticPreconditioner() [2/2]

oomph::PseudoElasticPreconditioner::PseudoElasticPreconditioner ( const PseudoElasticPreconditioner & )

delete

Broken copy constructor.

Member Function Documentation

◆ clean_up_memory()

void oomph::PseudoElasticPreconditioner::clean_up_memory ( )

virtual

Clears the memory.

Reimplemented from oomph::Preconditioner.

Definition at line 527 of file pseudo_elastic_preconditioner.cc.

References oomph::BlockPreconditioner< CRDoubleMatrix >::clear_block_preconditioner_base(), Elastic_preconditioner_pt, i, and Lagrange_multiplier_preconditioner_pt.

Referenced by oomph::PseudoElasticFSIPreconditioner::clean_up_memory(), setup(), and ~PseudoElasticPreconditioner().

◆ disable_inf_norm_of_s_scaling()

void oomph::PseudoElasticPreconditioner::disable_inf_norm_of_s_scaling ( )

inline

Call to use no scaling.

Definition at line 197 of file pseudo_elastic_preconditioner.h.

References Use_inf_norm_of_s_scaling.

◆ elastic_preconditioner_solve()

void oomph::PseudoElasticPreconditioner::elastic_preconditioner_solve	(	const DoubleVector &	r,
		DoubleVector &	z
	)

private

Apply the elastic subsidiary preconditioner.

Definition at line 493 of file pseudo_elastic_preconditioner.cc.

References Elastic_preconditioner_pt, and oomph::Preconditioner::preconditioner_solve().

Referenced by oomph::PseudoElasticFSIPreconditioner::preconditioner_solve(), and preconditioner_solve().

◆ elastic_preconditioner_type()

Elastic_preconditioner_type& oomph::PseudoElasticPreconditioner::elastic_preconditioner_type ( )

inline

Set the type of preconditioner applied to the elastic: 0 - Exact preconditioner 1 - Block diagonal preconditioning 2 - Block upper triangular preconditioner 3 - Block lower triangular preconditioner We group together the different components of the displacement vector field for the block decomposition.

Definition at line 229 of file pseudo_elastic_preconditioner.h.

References E_preconditioner_type.

◆ enable_inf_norm_of_s_scaling()

void oomph::PseudoElasticPreconditioner::enable_inf_norm_of_s_scaling ( )

inline

Call to use the inf norm of S as scaling.

Definition at line 191 of file pseudo_elastic_preconditioner.h.

References Use_inf_norm_of_s_scaling.

◆ lagrange_multiplier_preconditioner_solve()

void oomph::PseudoElasticPreconditioner::lagrange_multiplier_preconditioner_solve	(	const DoubleVector &	r,
		DoubleVector &	z
	)

private

Apply the lagrange multiplier subsidiary preconditioner.

Definition at line 503 of file pseudo_elastic_preconditioner.cc.

References Dim, oomph::BlockPreconditioner< CRDoubleMatrix >::get_block_vector(), i, Lagrange_multiplier_preconditioner_pt, oomph::DistributableLinearAlgebraObject::nrow_local(), oomph::BlockPreconditioner< CRDoubleMatrix >::return_block_vector(), Scaling, and oomph::DoubleVector::values_pt().

Referenced by oomph::PseudoElasticFSIPreconditioner::preconditioner_solve(), and preconditioner_solve().

◆ preconditioner_solve()

void oomph::PseudoElasticPreconditioner::preconditioner_solve	(	const DoubleVector &	r,
		DoubleVector &	z
	)

inlinevirtual

Apply the preconditioner. Method implemented in two other methods (elastic and lagrange multiplier subsidiary preocnditioner) for the PseudoElasticFSIPreconditioner.

Implements oomph::Preconditioner.

Definition at line 170 of file pseudo_elastic_preconditioner.h.

References elastic_preconditioner_solve(), and lagrange_multiplier_preconditioner_solve().

◆ set_elastic_mesh()

void oomph::PseudoElasticPreconditioner::set_elastic_mesh ( Mesh * mesh_pt )

inline

Access function to mesh containing the block-preconditionable elastic elements.

Definition at line 178 of file pseudo_elastic_preconditioner.h.

References Elastic_mesh_pt, and oomph::BlockPreconditioner< CRDoubleMatrix >::mesh_pt().

Referenced by oomph::PseudoElasticFSIPreconditioner::setup().

◆ set_elastic_subsidiary_preconditioner()

void oomph::PseudoElasticPreconditioner::set_elastic_subsidiary_preconditioner ( SubsidiaryPreconditionerFctPt prec_fn )

inline

By default the elastic subsidiary systems are preconditioner with SuperLUPreconditioner. For a different preconditioner, pass a function to this method returning a different subsidiary operator.

Definition at line 216 of file pseudo_elastic_preconditioner.h.

References Elastic_subsidiary_preconditioner_function_pt.

◆ set_lagrange_multiplier_mesh()

void oomph::PseudoElasticPreconditioner::set_lagrange_multiplier_mesh ( Mesh * mesh_pt )

inline

Access function to mesh containing the block-preconditionable lagrange multiplier elements.

Definition at line 185 of file pseudo_elastic_preconditioner.h.

References Lagrange_multiplier_mesh_pt, and oomph::BlockPreconditioner< CRDoubleMatrix >::mesh_pt().

Referenced by oomph::PseudoElasticFSIPreconditioner::setup().

◆ set_lagrange_multiplier_subsidiary_preconditioner()

void oomph::PseudoElasticPreconditioner::set_lagrange_multiplier_subsidiary_preconditioner ( SubsidiaryPreconditionerFctPt prec_fn )

inline

By default the Lagrange multiplier subsidiary systems are preconditioner with SuperLUPreconditioner. For a different preconditioner, pass a function to this method returning a different subsidiary operator.

Definition at line 206 of file pseudo_elastic_preconditioner.h.

References Lagrange_multiplier_subsidiary_preconditioner_function_pt.

◆ setup()

void oomph::PseudoElasticPreconditioner::setup ( )

virtual

Broken assignment operator.

//////////////////////////////////////////////////////////////////////////// ////////////////////////////////////////////////////////////////////////////

Setup method for the PseudoElasticPreconditioner.

Implements oomph::Preconditioner.

Definition at line 114 of file pseudo_elastic_preconditioner.cc.