DisplacedSystem Class Reference

#include <DisplacedSystem.h>

Inheritance diagram for DisplacedSystem:

Public Member Functions
	DisplacedSystem (DisplacedProblem &problem, SystemBase &undisplaced_system, const std::string &name, Moose::VarKindType var_kind)
virtual	~DisplacedSystem ()
virtual void	init () override
	Initialize the system. More...
virtual NumericVector< Number > &	getVector (TagID tag_id) override
	Get a raw NumericVector. More...
virtual TagID	timeVectorTag () override
	Ideally, we should not need this API. More...
virtual TagID	nonTimeVectorTag () override
virtual void	associateVectorToTag (NumericVector< Number > &vec, TagID tag) override
	Associate a vector for a given tag. More...
virtual void	disassociateVectorFromTag (NumericVector< Number > &vec, TagID tag) override
	Associate a vector for a given tag. More...
virtual void	disassociateAllTaggedVectors () override
	Disassociate all vectors, and then hasVector() will return false. More...
virtual void	associateMatrixToTag (SparseMatrix< Number > &matrix, TagID tag) override
	associate a matirx to a tag More...
virtual void	disassociateMatrixFromTag (SparseMatrix< Number > &matrix, TagID tag) override
	disassociate a matirx from a tag More...
virtual void	disassociateAllTaggedMatrices () override
	Clear all tagged matrices. More...
virtual NumericVector< Number > &	getVector (const std::string &name) override
	Get a raw NumericVector. More...
virtual NumericVector< Number > &	serializedSolution () override
	Returns a reference to a serialized version of the solution vector for this subproblem. More...
virtual const NumericVector< Number > *&	currentSolution () override
	The solution vector that is currently being operated on. More...
virtual NumericVector< Number > &	solution () override
virtual NumericVector< Number > *	solutionUDot () override
virtual NumericVector< Number > *	solutionUDotDot () override
virtual Number &	duDotDu () override
virtual Number &	duDotDotDu () override
virtual NumericVector< Number > &	residualCopy () override
	Return the residual copy from the NonlinearSystem. More...
virtual NumericVector< Number > &	residualGhosted () override
virtual void	augmentSendList (std::vector< dof_id_type > &send_list) override
	Will modify the send_list to add all of the extra ghosted dofs for this system. More...
virtual void	augmentSparsity (SparsityPattern::Graph &, std::vector< dof_id_type > &, std::vector< dof_id_type > &) override
	This is an empty function since the displaced system doesn't have a matrix! All sparsity pattern modification will be taken care of by the undisplaced system directly. More...
virtual void	addVariableToZeroOnResidual (std::string var_name) override
	Adds this variable to the list of variables to be zeroed during each residual evaluation. More...
virtual void	addVariableToZeroOnJacobian (std::string var_name) override
	Adds this variable to the list of variables to be zeroed during each jacobian evaluation. More...
virtual void	zeroVariables (std::vector< std::string > &vars_to_be_zeroed) override
	Zero out the solution for the list of variables passed in. More...
virtual bool	hasVector (TagID tag_id) override
	Check if the tagged vector exists in the system. More...
virtual bool	hasMatrix (TagID tag_id) override
	Check if the tagged matrix exists in the system. More...
virtual SparseMatrix< Number > &	getMatrix (TagID tag) override
	Get a raw SparseMatrix. More...
virtual NumericVector< Number > &	solutionOld () override
virtual NumericVector< Number > &	solutionOlder () override
virtual NumericVector< Number > *	solutionUDotOld () override
virtual NumericVector< Number > *	solutionUDotDotOld () override
virtual NumericVector< Number > *	solutionPreviousNewton () override
virtual TransientExplicitSystem &	sys ()
virtual System &	system () override
	Get the reference to the libMesh system. More...
virtual const System &	system () const override
void	addTimeIntegrator (std::shared_ptr< TimeIntegrator > ti) override
virtual void	addTimeIntegrator (const std::string &, const std::string &, InputParameters)
virtual void	addTimeIntegrator (std::shared_ptr< TimeIntegrator >)
virtual unsigned int	number () const
	Gets the number of this system. More...
virtual MooseMesh &	mesh ()
virtual SubProblem &	subproblem ()
virtual DofMap &	dofMap ()
	Gets the dof map. More...
virtual void	initializeObjects ()
	Called only once, just before the solve begins so objects can do some precalculations. More...
virtual void	addExtraVectors ()
	Method called during initialSetup to add extra system vector if they are required by the simulation. More...
virtual void	update ()
	Update the system (doing libMesh magic) More...
virtual void	solve ()
	Solve the system (using libMesh magic) More...
virtual void	copyOldSolutions ()
	Shifts the solutions backwards in time. More...
virtual void	restoreSolutions ()
	Restore current solutions (call after your solve failed) More...
virtual void	saveOldSolutions ()
	Save the old and older solutions. More...
virtual void	restoreOldSolutions ()
	Restore the old and older solutions when the saved solutions present. More...
bool	hasVector (const std::string &tag_name) const
	Check if the named vector exists in the system. More...
virtual TagID	timeMatrixTag ()
	Return the Matrix Tag ID for Time. More...
virtual TagID	systemMatrixTag ()
	Return the Matrix Tag ID for System. More...
virtual TagID	residualVectorTag ()
virtual void	activeAllMatrixTags ()
	Make all exsiting matrices ative. More...
virtual void	activeMatrixTag (TagID tag)
	Active a matrix for tag. More...
virtual bool	matrixTagActive (TagID tag)
	If or not a matrix tag is active. More...
virtual void	deactiveMatrixTag (TagID tag)
	deactive a matrix for tag More...
virtual void	deactiveAllMatrixTags ()
	Make matrices inactive. More...
void	closeTaggedMatrices (const std::set< TagID > &tags)
	Close all matrices associated the tags. More...
virtual void	addVariable (const std::string &var_name, const FEType &type, Real scale_factor, const std::set< SubdomainID > *const active_subdomains=NULL)
	Adds a variable to the system. More...
virtual bool	isScalarVariable (unsigned int var_name) const
MooseVariableFEBase &	getVariable (THREAD_ID tid, const std::string &var_name)
	Gets a reference to a variable of with specified name. More...
MooseVariableFEBase &	getVariable (THREAD_ID tid, unsigned int var_number)
	Gets a reference to a variable with specified number. More...
template<typename T >
MooseVariableFE< T > &	getFieldVariable (THREAD_ID tid, const std::string &var_name)
	Gets a reference to a variable of with specified name. More...
template<typename T >
MooseVariableFE< T > &	getFieldVariable (THREAD_ID tid, unsigned int var_number)
	Gets a reference to a variable with specified number. More...
virtual MooseVariableScalar &	getScalarVariable (THREAD_ID tid, const std::string &var_name)
	Gets a reference to a scalar variable with specified number. More...
virtual MooseVariableScalar &	getScalarVariable (THREAD_ID tid, unsigned int var_number)
	Gets a reference to a variable with specified number. More...
virtual const std::set< SubdomainID > *	getVariableBlocks (unsigned int var_number)
	Get the block where a variable of this system is defined. More...
virtual unsigned int	nVariables () const
	Get the number of variables in this system. More...
size_t	getMaxVarNDofsPerElem ()
	Gets the maximum number of dofs used by any one variable on any one element. More...
size_t	getMaxVarNDofsPerNode ()
	Gets the maximum number of dofs used by any one variable on any one node. More...
void	assignMaxVarNDofsPerElem (const size_t &max_dofs)
	assign the maximum element dofs More...
void	assignMaxVarNDofsPerNode (const size_t &max_dofs)
	assign the maximum node dofs More...
virtual void	zeroVariablesForResidual ()
	Zero out the solution for the variables that were registered as needing to have their solutions zeroed on out on residual evaluation by a call to addVariableToZeroOnResidual() More...
virtual void	zeroVariablesForJacobian ()
	Zero out the solution for the variables that were registered as needing to have their solutions zeroed on out on Jacobian evaluation by a call to addVariableToZeroOnResidual() More...
virtual Order	getMinQuadratureOrder ()
	Get minimal quadrature order needed for integrating variables in this system. More...
virtual void	prepare (THREAD_ID tid)
	Prepare the system for use. More...
virtual void	prepareFace (THREAD_ID tid, bool resize_data)
	Prepare the system for use on sides. More...
virtual void	prepareNeighbor (THREAD_ID tid)
	Prepare the system for use. More...
virtual void	reinitElem (const Elem *elem, THREAD_ID tid)
	Reinit an element assembly info. More...
virtual void	reinitElemFace (const Elem *elem, unsigned int side, BoundaryID bnd_id, THREAD_ID tid)
	Reinit assembly info for a side of an element. More...
virtual void	reinitNeighborFace (const Elem *elem, unsigned int side, BoundaryID bnd_id, THREAD_ID tid)
	Compute the values of the variables at all the current points. More...
virtual void	reinitNeighbor (const Elem *elem, THREAD_ID tid)
	Compute the values of the variables at all the current points. More...
virtual void	reinitNode (const Node *node, THREAD_ID tid)
	Reinit nodal assembly info. More...
virtual void	reinitNodeFace (const Node *node, BoundaryID bnd_id, THREAD_ID tid)
	Reinit nodal assembly info on a face. More...
virtual void	reinitNodes (const std::vector< dof_id_type > &nodes, THREAD_ID tid)
	Reinit variables at a set of nodes. More...
virtual void	reinitNodesNeighbor (const std::vector< dof_id_type > &nodes, THREAD_ID tid)
	Reinit variables at a set of neighbor nodes. More...
virtual void	reinitScalars (THREAD_ID tid)
	Reinit scalar varaibles. More...
virtual void	addVariableToCopy (const std::string &dest_name, const std::string &source_name, const std::string &timestep)
	Add info about variable that will be copied. More...
const std::vector< MooseVariableFEBase * > &	getVariables (THREAD_ID tid)
const std::vector< MooseVariableScalar * > &	getScalarVariables (THREAD_ID tid)
const std::set< SubdomainID > &	getSubdomainsForVar (unsigned int var_number) const
virtual void	removeVector (const std::string &name)
	Remove a vector from the system with the given name. More...
virtual void	removeVector (TagID tag_id)
	Remove a solution length vector from the system with the specified TagID. More...
virtual NumericVector< Number > &	addVector (const std::string &vector_name, const bool project, const ParallelType type)
	Adds a solution length vector to the system. More...
NumericVector< Number > &	addVector (TagID tag, const bool project, const ParallelType type)
	Adds a solution length vector to the system with the specified TagID. More...
virtual void	closeTaggedVectors (const std::set< TagID > &tags)
	Close all vectors for given tags. More...
virtual void	zeroTaggedVectors (const std::set< TagID > &tags)
	Zero all vectors for given tags. More...
virtual SparseMatrix< Number > &	addMatrix (TagID)
	Adds a jacobian sized vector. More...
virtual void	removeMatrix (TagID)
	Removes a jacobian sized vector. More...
virtual const std::string &	name () const
virtual void	addScalarVariable (const std::string &var_name, Order order, Real scale_factor, const std::set< SubdomainID > *const active_subdomains=NULL)
	Adds a scalar variable. More...
const std::vector< VariableName > &	getVariableNames () const
virtual void	computeVariables (const NumericVector< Number > &)
void	copyVars (ExodusII_IO &io)
virtual void	copySolutionsBackwards ()
	Copy current solution into old and older. More...
virtual void	addTimeIntegrator (const std::string &, const std::string &, InputParameters)
TimeIntegrator *	getTimeIntegrator ()
std::shared_ptr< TimeIntegrator >	getSharedTimeIntegrator ()
virtual bool	hasVariable (const std::string &var_name) const
	Query a system for a variable. More...
virtual bool	hasScalarVariable (const std::string &var_name) const

Protected Attributes
SystemBase &	_undisplaced_system
TransientExplicitSystem &	_sys
SubProblem &	_subproblem
MooseApp &	_app
Factory &	_factory
MooseMesh &	_mesh
std::string	_name
	The name of this system. More...
std::vector< VariableWarehouse >	_vars
	Variable warehouses (one for each thread) More...
std::map< unsigned int, std::set< SubdomainID > >	_var_map
	Map of variables (variable id -> array of subdomains where it lives) More...
std::vector< std::string >	_vars_to_be_zeroed_on_residual
std::vector< std::string >	_vars_to_be_zeroed_on_jacobian
Real	_du_dot_du
Real	_du_dotdot_du
std::vector< NumericVector< Number > * >	_tagged_vectors
	Tagged vectors (pointer) More...
std::vector< SparseMatrix< Number > * >	_tagged_matrices
	Tagged matrices (pointer) More...
std::vector< bool >	_matrix_tag_active_flags
	Active flags for tagged matrices. More...
NumericVector< Real > *	_saved_old
NumericVector< Real > *	_saved_older
NumericVector< Real > *	_saved_dot_old
NumericVector< Real > *	_saved_dotdot_old
Moose::VarKindType	_var_kind
	default kind of variables in this system More...
std::vector< VarCopyInfo >	_var_to_copy
size_t	_max_var_n_dofs_per_elem
	Maximum number of dofs for any one variable on any one element. More...
size_t	_max_var_n_dofs_per_node
	Maximum number of dofs for any one variable on any one node. More...
std::shared_ptr< TimeIntegrator >	_time_integrator
	Time integrator. More...

Detailed Description

Definition at line 25 of file DisplacedSystem.h.

Constructor & Destructor Documentation

DisplacedSystem()

DisplacedSystem::DisplacedSystem	(	DisplacedProblem &	problem,
		SystemBase &	undisplaced_system,
		const std::string &	name,
		Moose::VarKindType	var_kind
	)

Definition at line 16 of file DisplacedSystem.C.

  : SystemBase(problem, name, var_kind),
    _undisplaced_system(undisplaced_system),
    _sys(problem.es().add_system<TransientExplicitSystem>(name))
{
}

~DisplacedSystem()

DisplacedSystem::~DisplacedSystem ( )

virtual

Definition at line 26 of file DisplacedSystem.C.

{}

Member Function Documentation

activeAllMatrixTags()

void SystemBase::activeAllMatrixTags ( )

virtualinherited

Make all exsiting matrices ative.

Definition at line 865 of file SystemBase.C.

Referenced by NonlinearSystemBase::computeJacobianInternal(), and NonlinearSystemBase::computeResidualTags().

{
  auto num_matrix_tags = _subproblem.numMatrixTags();

  _matrix_tag_active_flags.resize(num_matrix_tags);

  for (decltype(num_matrix_tags) tag = 0; tag < num_matrix_tags; tag++)
    if (hasMatrix(tag))
      _matrix_tag_active_flags[tag] = true;
    else
      _matrix_tag_active_flags[tag] = false;
}

activeMatrixTag()

void SystemBase::activeMatrixTag ( TagID  tag )

virtualinherited

Active a matrix for tag.

Definition at line 830 of file SystemBase.C.

{
  mooseAssert(_subproblem.matrixTagExists(tag),
              "Cannot active Matrix with matrix_tag : " << tag << "that does not exist");

  if (_matrix_tag_active_flags.size() < tag + 1)
    _matrix_tag_active_flags.resize(tag + 1);

  _matrix_tag_active_flags[tag] = true;
}

addExtraVectors()

void SystemBase::addExtraVectors ( )

virtualinherited

Method called during initialSetup to add extra system vector if they are required by the simulation.

Reimplemented in NonlinearSystemBase, and AuxiliarySystem.

Definition at line 976 of file SystemBase.C.

{
}

addMatrix()

virtual SparseMatrix<Number>& SystemBase::addMatrix ( TagID  )

inlinevirtualinherited

Adds a jacobian sized vector.

Parameters

tag_name

The name of the tag

Reimplemented in NonlinearSystem.

Definition at line 642 of file SystemBase.h.

  {
    mooseError("Adding a matrix is not supported for this type of system!");
  }

addScalarVariable()

void SystemBase::addScalarVariable ( const std::string &  var_name, Order  order, Real  scale_factor, const std::set< SubdomainID > *const  active_subdomains = NULL  )

virtualinherited

Adds a scalar variable.

Parameters

var_name	The name of the variable
order	The order of the variable
scale_factor	The scaling factor to be used with this scalar variable

Definition at line 628 of file SystemBase.C.

Referenced by DisplacedProblem::addAuxScalarVariable(), and DisplacedProblem::addScalarVariable().

{
  FEType type(order, SCALAR);
  unsigned int var_num = system().add_variable(var_name, type, active_subdomains);
  for (THREAD_ID tid = 0; tid < libMesh::n_threads(); tid++)
  {
    // FIXME: we cannot refer fetype in libMesh at this point, so we will just make a copy in
    // MooseVariableBase.
    MooseVariableScalar * var =
        new MooseVariableScalar(var_num, type, *this, _subproblem.assembly(tid), _var_kind, tid);
    var->scalingFactor(scale_factor);
    _vars[tid].add(var_name, var);
  }
  if (active_subdomains == nullptr)
    _var_map[var_num] = std::set<SubdomainID>();
  else
    for (const auto subdomain_id : *active_subdomains)
      _var_map[var_num].insert(subdomain_id);
}

addTimeIntegrator() [1/4]

virtual void SystemBase::addTimeIntegrator

inline

Definition at line 681 of file SystemBase.h.

  {
  }

addTimeIntegrator() [2/4]

virtual void SystemBase::addTimeIntegrator

inline

Definition at line 687 of file SystemBase.h.

{}

addTimeIntegrator() [3/4]

void DisplacedSystem::addTimeIntegrator ( std::shared_ptr< TimeIntegrator >  ti )

overridevirtual

Reimplemented from SystemBase.

Definition at line 43 of file DisplacedSystem.C.

Referenced by DisplacedProblem::DisplacedProblem().

{
  _time_integrator = ti;
}

addTimeIntegrator() [4/4]

virtual void SystemBase::addTimeIntegrator ( const std::string &  , const std::string &  , InputParameters    )

inlinevirtualinherited

Reimplemented in NonlinearSystemBase, and AuxiliarySystem.

Definition at line 681 of file SystemBase.h.

  {
  }

addVariable()

void SystemBase::addVariable ( const std::string &  var_name, const FEType &  type, Real  scale_factor, const std::set< SubdomainID > *const  active_subdomains = NULL  )

virtualinherited

Adds a variable to the system.

Parameters

var_name	name of the variable
type	FE type of the variable
scale_factor	the scaling factor for the variable
active_subdomains	a list of subdomain ids this variable is active on

Reimplemented in AuxiliarySystem.

Definition at line 597 of file SystemBase.C.

Referenced by DisplacedProblem::addAuxVariable(), AuxiliarySystem::addVariable(), and DisplacedProblem::addVariable().

{
  unsigned int var_num = system().add_variable(var_name, type, active_subdomains);
  for (THREAD_ID tid = 0; tid < libMesh::n_threads(); tid++)
  {
    // FIXME: we cannot refer fetype in libMesh at this point, so we will just make a copy in
    // MooseVariableBase.
    MooseVariableBase * var;
    if (type == FEType(0, MONOMIAL))
      var = new MooseVariableConstMonomial(
          var_num, type, *this, _subproblem.assembly(tid), _var_kind, tid);
    else if (type == FEType(FIRST, NEDELEC_ONE) || type.family == LAGRANGE_VEC)
      var =
          new VectorMooseVariable(var_num, type, *this, _subproblem.assembly(tid), _var_kind, tid);
    else
      var = new MooseVariable(var_num, type, *this, _subproblem.assembly(tid), _var_kind, tid);

    var->scalingFactor(scale_factor);
    _vars[tid].add(var_name, var);
  }
  if (active_subdomains == nullptr)
    _var_map[var_num] = std::set<SubdomainID>();
  else
    for (const auto subdomain_id : *active_subdomains)
      _var_map[var_num].insert(subdomain_id);
}

addVariableToCopy()

void SystemBase::addVariableToCopy ( const std::string &  dest_name, const std::string &  source_name, const std::string &  timestep  )

virtualinherited

Add info about variable that will be copied.

Parameters

dest_name	Name of the nodal variable being used for copying into (name is from the exodusII file)
source_name	Name of the nodal variable being used for copying from (name is from the exodusII file)
timestep	Timestep in the file being used

Definition at line 906 of file SystemBase.C.

{
  _var_to_copy.push_back(VarCopyInfo(dest_name, source_name, timestep));
}

addVariableToZeroOnJacobian()

virtual void DisplacedSystem::addVariableToZeroOnJacobian ( std::string  var_name )

inlineoverridevirtual

Adds this variable to the list of variables to be zeroed during each jacobian evaluation.

Parameters

var_name

The name of the variable to be zeroed.

Reimplemented from SystemBase.

Definition at line 143 of file DisplacedSystem.h.

  {
    _undisplaced_system.addVariableToZeroOnJacobian(var_name);
  }

addVariableToZeroOnResidual()

virtual void DisplacedSystem::addVariableToZeroOnResidual ( std::string  var_name )

inlineoverridevirtual

Adds this variable to the list of variables to be zeroed during each residual evaluation.

Parameters

var_name

The name of the variable to be zeroed.

Reimplemented from SystemBase.

Definition at line 134 of file DisplacedSystem.h.

  {
    _undisplaced_system.addVariableToZeroOnResidual(var_name);
  }

addVector() [1/2]

NumericVector< Number > & SystemBase::addVector ( const std::string &  vector_name, const bool  project, const ParallelType  type  )

virtualinherited

Adds a solution length vector to the system.

Parameters

vector_name	The name of the vector.
project	Whether or not to project this vector when doing mesh refinement. If the vector is just going to be recomputed then there is no need to project it.
type	What type of parallel vector. This is usually either PARALLEL or GHOSTED. GHOSTED is needed if you are going to be accessing off-processor entries. The ghosting pattern is the same as the solution vector.

Reimplemented in AuxiliarySystem.

Definition at line 526 of file SystemBase.C.

Referenced by ActuallyExplicitEuler::ActuallyExplicitEuler(), NonlinearSystemBase::addDotVectors(), NonlinearSystemBase::addExtraVectors(), AStableDirk4::AStableDirk4(), MultiApp::createApp(), NonlinearSystemBase::getResidualNonTimeVector(), NonlinearSystemBase::getResidualTimeVector(), FEProblemBase::initNullSpaceVectors(), LStableDirk3::LStableDirk3(), LStableDirk4::LStableDirk4(), PicardSolve::PicardSolve(), NonlinearSystemBase::residualGhosted(), and SystemBase::saveOldSolutions().

{
  if (hasVector(vector_name))
    return getVector(vector_name);

  NumericVector<Number> & vec = system().add_vector(vector_name, project, type);
  return vec;
}

addVector() [2/2]

NumericVector< Number > & SystemBase::addVector ( TagID  tag, const bool  project, const ParallelType  type  )

inherited

Adds a solution length vector to the system with the specified TagID.

Parameters

tag_name	The name of the tag
project	Whether or not to project this vector when doing mesh refinement. If the vector is just going to be recomputed then there is no need to project it.
type	What type of parallel vector. This is usually either PARALLEL or GHOSTED. GHOSTED is needed if you are going to be accessing off-processor entries. The ghosting pattern is the same as the solution vector.

Definition at line 536 of file SystemBase.C.

{
  if (!_subproblem.vectorTagExists(tag))
    mooseError("Cannot add a tagged vector with vector_tag, ",
               tag,
               ", that tag does not exist in System ",
               name());

  if (hasVector(tag))
    return getVector(tag);

  auto vector_name = _subproblem.vectorTagName(tag);

  NumericVector<Number> & vec = system().add_vector(vector_name, project, type);

  if (_tagged_vectors.size() < tag + 1)
    _tagged_vectors.resize(tag + 1);

  _tagged_vectors[tag] = &vec;

  return vec;
}

assignMaxVarNDofsPerElem()

void SystemBase::assignMaxVarNDofsPerElem ( const size_t &  max_dofs )

inlineinherited

assign the maximum element dofs

Definition at line 425 of file SystemBase.h.

{ _max_var_n_dofs_per_elem = max_dofs; }

assignMaxVarNDofsPerNode()

void SystemBase::assignMaxVarNDofsPerNode ( const size_t &  max_dofs )

inlineinherited

assign the maximum node dofs

Definition at line 430 of file SystemBase.h.

{ _max_var_n_dofs_per_node = max_dofs; }

associateMatrixToTag()

virtual void DisplacedSystem::associateMatrixToTag ( SparseMatrix< Number > &  matrix, TagID  tag  )

inlineoverridevirtual

associate a matirx to a tag

Reimplemented from SystemBase.

Definition at line 60 of file DisplacedSystem.h.

  {
    _undisplaced_system.associateMatrixToTag(matrix, tag);
  }

associateVectorToTag()

virtual void DisplacedSystem::associateVectorToTag ( NumericVector< Number > &  vec, TagID  tag  )

inlineoverridevirtual

Associate a vector for a given tag.

Reimplemented from SystemBase.

Definition at line 45 of file DisplacedSystem.h.

  {
    _undisplaced_system.associateVectorToTag(vec, tag);
  }

augmentSendList()

virtual void DisplacedSystem::augmentSendList ( std::vector< dof_id_type > &  send_list )

inlineoverridevirtual

Will modify the send_list to add all of the extra ghosted dofs for this system.

Reimplemented from SystemBase.

Definition at line 115 of file DisplacedSystem.h.

  {
    _undisplaced_system.augmentSendList(send_list);
  }

augmentSparsity()

virtual void DisplacedSystem::augmentSparsity ( SparsityPattern::Graph &  , std::vector< dof_id_type > &  , std::vector< dof_id_type > &    )

inlineoverridevirtual

This is an empty function since the displaced system doesn't have a matrix! All sparsity pattern modification will be taken care of by the undisplaced system directly.

Implements SystemBase.

Definition at line 124 of file DisplacedSystem.h.

  {
  }

closeTaggedMatrices()

void SystemBase::closeTaggedMatrices ( const std::set< TagID > &  tags )

inherited

Close all matrices associated the tags.

Definition at line 795 of file SystemBase.C.

Referenced by NonlinearSystemBase::computeJacobianInternal().

{
  for (auto tag : tags)
    if (hasMatrix(tag))
      getMatrix(tag).close();
}

closeTaggedVectors()

void SystemBase::closeTaggedVectors ( const std::set< TagID > &  tags )

virtualinherited

Close all vectors for given tags.

Definition at line 560 of file SystemBase.C.

Referenced by NonlinearSystemBase::computeResidualTags().

{
  for (auto & tag : tags)
  {
    mooseAssert(_subproblem.vectorTagExists(tag), "Tag: " << tag << " does not exsit");
    getVector(tag).close();
  }
}

computeVariables()

virtual void SystemBase::computeVariables ( const NumericVector< Number > &  )

inlinevirtualinherited

Definition at line 672 of file SystemBase.h.

{}

copyOldSolutions()

void SystemBase::copyOldSolutions ( )

virtualinherited

Shifts the solutions backwards in time.

Definition at line 1013 of file SystemBase.C.

Referenced by EigenExecutionerBase::inversePowerIteration().

{
  solutionOlder() = solutionOld();
  solutionOld() = *currentSolution();
  if (solutionUDotOld())
    *solutionUDotOld() = *solutionUDot();
  if (solutionUDotDotOld())
    *solutionUDotDotOld() = *solutionUDotDot();
  if (solutionPreviousNewton())
    *solutionPreviousNewton() = *currentSolution();
}

copySolutionsBackwards()

void SystemBase::copySolutionsBackwards ( )

virtualinherited

Copy current solution into old and older.

Definition at line 996 of file SystemBase.C.

{
  system().update();
  solutionOlder() = *currentSolution();
  solutionOld() = *currentSolution();
  if (solutionUDotOld())
    *solutionUDotOld() = *solutionUDot();
  if (solutionUDotDotOld())
    *solutionUDotDotOld() = *solutionUDotDot();
  if (solutionPreviousNewton())
    *solutionPreviousNewton() = *currentSolution();
}

copyVars()

void SystemBase::copyVars ( ExodusII_IO &  io )

inherited

Definition at line 914 of file SystemBase.C.

{
  int n_steps = io.get_num_time_steps();

  bool did_copy = false;
  for (const auto & vci : _var_to_copy)
  {
    int timestep = -1;

    if (vci._timestep == "LATEST")
      // Use the last time step in the file from which to retrieve the solution
      timestep = n_steps;
    else
    {
      timestep = MooseUtils::convert<int>(vci._timestep);
      if (timestep > n_steps)
        mooseError("Invalid value passed as \"initial_from_file_timestep\". Expected \"LATEST\" or "
                   "a valid integer between 1 and ",
                   n_steps,
                   " inclusive, received ",
                   vci._timestep);
    }

    did_copy = true;

    if (hasVariable(vci._dest_name))
    {
      if (getVariable(0, vci._dest_name).isNodal())
        io.copy_nodal_solution(system(), vci._dest_name, vci._source_name, timestep);

      else
        io.copy_elemental_solution(system(), vci._dest_name, vci._source_name, timestep);
    }
    else if (hasScalarVariable(vci._dest_name))
    {
      auto rank = comm().rank();
      auto size = comm().size();

      // Read solution on rank 0 only and send data to rank "size - 1" where scalar DOFs are stored
      std::vector<Real> global_values;
      if (rank == 0)
      {
        // Read the scalar value then set that value in the current solution
        io.read_global_variable({vci._source_name}, timestep, global_values);
        if (size > 1)
          comm().send(size - 1, global_values);
      }
      if (rank == size - 1)
      {
        if (size > 1)
          comm().receive(0, global_values);
        const unsigned int var_num = system().variable_number(vci._dest_name);
        system().solution->set(var_num, global_values[0]);
      }
    }
  }

  if (did_copy)
    solution().close();
}

currentSolution()

virtual const NumericVector<Number>*& DisplacedSystem::currentSolution ( )

inlineoverridevirtual

The solution vector that is currently being operated on.

This is typically a ghosted vector that comes in from the Nonlinear solver.

Implements SystemBase.

Definition at line 82 of file DisplacedSystem.h.

  {
    return _undisplaced_system.currentSolution();
  }

deactiveAllMatrixTags()

void SystemBase::deactiveAllMatrixTags ( )

virtualinherited

Make matrices inactive.

Definition at line 854 of file SystemBase.C.

Referenced by NonlinearSystemBase::computeResidualTags(), and NonlinearSystemBase::setInitialSolution().

{
  auto num_matrix_tags = _subproblem.numMatrixTags();

  _matrix_tag_active_flags.resize(num_matrix_tags);

  for (decltype(num_matrix_tags) tag = 0; tag < num_matrix_tags; tag++)
    _matrix_tag_active_flags[tag] = false;
}

deactiveMatrixTag()

void SystemBase::deactiveMatrixTag ( TagID  tag )

virtualinherited

deactive a matrix for tag

Definition at line 842 of file SystemBase.C.

{
  mooseAssert(_subproblem.matrixTagExists(tag),
              "Cannot deactivate Matrix with matrix_tag : " << tag << "that does not exist");

  if (_matrix_tag_active_flags.size() < tag + 1)
    _matrix_tag_active_flags.resize(tag + 1);

  _matrix_tag_active_flags[tag] = false;
}

disassociateAllTaggedMatrices()

virtual void DisplacedSystem::disassociateAllTaggedMatrices ( )

inlineoverridevirtual

Clear all tagged matrices.

Reimplemented from SystemBase.

Definition at line 70 of file DisplacedSystem.h.

  {
    _undisplaced_system.disassociateAllTaggedMatrices();
  }

disassociateAllTaggedVectors()

virtual void DisplacedSystem::disassociateAllTaggedVectors ( )

inlineoverridevirtual

Disassociate all vectors, and then hasVector() will return false.

Reimplemented from SystemBase.

Definition at line 55 of file DisplacedSystem.h.

  {
    _undisplaced_system.disassociateAllTaggedVectors();
  }

disassociateMatrixFromTag()

virtual void DisplacedSystem::disassociateMatrixFromTag ( SparseMatrix< Number > &  matrix, TagID  tag  )

inlineoverridevirtual

disassociate a matirx from a tag

Reimplemented from SystemBase.

Definition at line 65 of file DisplacedSystem.h.

  {
    _undisplaced_system.disassociateMatrixFromTag(matrix, tag);
  }

disassociateVectorFromTag()

virtual void DisplacedSystem::disassociateVectorFromTag ( NumericVector< Number > &  vec, TagID  tag  )

inlineoverridevirtual

Associate a vector for a given tag.

Reimplemented from SystemBase.

Definition at line 50 of file DisplacedSystem.h.

  {
    _undisplaced_system.disassociateVectorFromTag(vec, tag);
  }

dofMap()

DofMap & SystemBase::dofMap ( )

virtualinherited

Gets the dof map.

Definition at line 900 of file SystemBase.C.

Referenced by AddPeriodicBCAction::act(), SystemBase::augmentSendList(), NonlinearSystemBase::augmentSparsity(), AddPeriodicBCAction::autoTranslationBoundaries(), NonlinearSystemBase::findImplicitGeometricCouplingEntries(), DisplacedProblem::init(), Adaptivity::init(), GhostingUserObject::meshChanged(), TableOutput::outputScalarVariables(), Nemesis::outputScalarVariables(), and Exodus::outputScalarVariables().

{
  return system().get_dof_map();
}

duDotDotDu()

virtual Number& DisplacedSystem::duDotDotDu ( )

inlineoverridevirtual

Reimplemented from SystemBase.

Definition at line 100 of file DisplacedSystem.h.

{ return _undisplaced_system.duDotDotDu(); }

duDotDu()

virtual Number& DisplacedSystem::duDotDu ( )

inlineoverridevirtual

Reimplemented from SystemBase.

Definition at line 99 of file DisplacedSystem.h.

{ return _undisplaced_system.duDotDu(); }

getFieldVariable() [1/2]

template<typename T >

MooseVariableFE< T > & SystemBase::getFieldVariable ( THREAD_ID  tid, const std::string &  var_name  )

inherited

Gets a reference to a variable of with specified name.

Parameters

tid	Thread id
var_name	variable name

Returns

reference the variable (class)

Definition at line 136 of file SystemBase.C.

Referenced by Assembly::copyFaceShapes(), Assembly::copyNeighborShapes(), Assembly::copyShapes(), DisplacedProblem::getStandardVariable(), and DisplacedProblem::getVectorVariable().

{
  return *_vars[tid].getFieldVariable<T>(var_name);
}

getFieldVariable() [2/2]

template<typename T >

MooseVariableFE< T > & SystemBase::getFieldVariable ( THREAD_ID  tid, unsigned int  var_number  )

inherited

Gets a reference to a variable with specified number.

Parameters

tid	Thread id
var_number	libMesh variable number

Returns

reference the variable (class)

Definition at line 143 of file SystemBase.C.

{
  return *_vars[tid].getFieldVariable<T>(var_number);
}

getMatrix()

virtual SparseMatrix<Number>& DisplacedSystem::getMatrix ( TagID  tag )

inlineoverridevirtual

Get a raw SparseMatrix.

Reimplemented from SystemBase.

Definition at line 160 of file DisplacedSystem.h.

  {
    return _undisplaced_system.getMatrix(tag);
  }

getMaxVarNDofsPerElem()

size_t SystemBase::getMaxVarNDofsPerElem ( )

inlineinherited

Gets the maximum number of dofs used by any one variable on any one element.

Returns

The max

Definition at line 413 of file SystemBase.h.

Referenced by Assembly::computeAffineMapAD(), Assembly::computeFaceMap(), and Assembly::computeSinglePointMapAD().

{ return _max_var_n_dofs_per_elem; }

getMaxVarNDofsPerNode()

size_t SystemBase::getMaxVarNDofsPerNode ( )

inlineinherited

Gets the maximum number of dofs used by any one variable on any one node.

Returns

The max

Definition at line 420 of file SystemBase.h.

{ return _max_var_n_dofs_per_node; }

getMinQuadratureOrder()

Order SystemBase::getMinQuadratureOrder ( )

virtualinherited

Get minimal quadrature order needed for integrating variables in this system.

Returns

The minimal order of quadrature

Reimplemented in AuxiliarySystem.

Definition at line 227 of file SystemBase.C.

{
  Order order = CONSTANT;
  const std::vector<MooseVariableFEBase *> & vars = _vars[0].fieldVariables();
  for (const auto & var : vars)
  {
    FEType fe_type = var->feType();
    if (fe_type.default_quadrature_order() > order)
      order = fe_type.default_quadrature_order();
  }

  return order;
}

getScalarVariable() [1/2]

MooseVariableScalar & SystemBase::getScalarVariable ( THREAD_ID  tid, const std::string &  var_name  )

virtualinherited

Gets a reference to a scalar variable with specified number.

Parameters

tid	Thread id
var_name	A string which is the name of the variable to get.

Returns

reference the variable (class)

Definition at line 149 of file SystemBase.C.

Referenced by Assembly::addJacobianOffDiagScalar(), IntegratedBC::computeJacobianBlockScalar(), VectorIntegratedBC::computeJacobianBlockScalar(), ODEKernel::computeOffDiagJacobian(), VectorKernel::computeOffDiagJacobianScalar(), Kernel::computeOffDiagJacobianScalar(), DisplacedProblem::getScalarVariable(), and Assembly::init().

{
  MooseVariableScalar * var = dynamic_cast<MooseVariableScalar *>(_vars[tid].getVariable(var_name));
  if (!var)
    mooseError("Scalar variable '" + var_name + "' does not exist in this system");
  return *var;
}

getScalarVariable() [2/2]

MooseVariableScalar & SystemBase::getScalarVariable ( THREAD_ID  tid, unsigned int  var_number  )

virtualinherited

Gets a reference to a variable with specified number.

Parameters

tid	Thread id
var_number	libMesh variable number

Returns

reference the variable (class)

Definition at line 158 of file SystemBase.C.

{
  MooseVariableScalar * var =
      dynamic_cast<MooseVariableScalar *>(_vars[tid].getVariable(var_number));
  if (!var)
    mooseError("variable #" + Moose::stringify(var_number) + " does not exist in this system");
  return *var;
}

getScalarVariables()

const std::vector<MooseVariableScalar *>& SystemBase::getScalarVariables ( THREAD_ID  tid )

inlineinherited

Definition at line 574 of file SystemBase.h.

Referenced by Assembly::addResidualScalar(), ComputeFullJacobianThread::computeFaceJacobian(), ODEKernel::computeJacobian(), ComputeFullJacobianThread::computeJacobian(), AuxiliarySystem::computeScalarVars(), Assembly::init(), ComputeJacobianThread::onElement(), Assembly::prepareOffDiagScalar(), and Assembly::prepareScalar().

  {
    return _vars[tid].scalars();
  }

getSharedTimeIntegrator()

std::shared_ptr<TimeIntegrator> SystemBase::getSharedTimeIntegrator ( )

inlineinherited

Definition at line 691 of file SystemBase.h.

Referenced by DisplacedProblem::DisplacedProblem().

{ return _time_integrator; }

getSubdomainsForVar()

const std::set<SubdomainID>& SystemBase::getSubdomainsForVar ( unsigned int  var_number ) const

inlineinherited

Definition at line 579 of file SystemBase.h.

  {
    return _var_map.at(var_number);
  }

getTimeIntegrator()

TimeIntegrator* SystemBase::getTimeIntegrator ( )

inlineinherited

Definition at line 689 of file SystemBase.h.

Referenced by DT2::computeDT(), Transient::endStep(), AB2PredictorCorrector::estimateTimeError(), MooseVariableFE< Real >::MooseVariableFE(), and Transient::preExecute().

{ return _time_integrator.get(); }

getVariable() [1/2]

MooseVariableFEBase & SystemBase::getVariable ( THREAD_ID  tid, const std::string &  var_name  )

inherited

Gets a reference to a variable of with specified name.

Parameters

tid	Thread id
var_name	variable name

Returns

reference the variable (class)

Definition at line 105 of file SystemBase.C.

Referenced by Assembly::addJacobianBlock(), Assembly::addJacobianBlockNonlocal(), Assembly::addJacobianNeighbor(), NonlocalIntegratedBC::computeJacobianBlock(), NonlocalIntegratedBC::computeNonlocalOffDiagJacobian(), NonlocalKernel::computeNonlocalOffDiagJacobian(), SystemBase::copyVars(), FieldSplitPreconditioner::FieldSplitPreconditioner(), FiniteDifferencePreconditioner::FiniteDifferencePreconditioner(), EqualValueEmbeddedConstraint::getConnectedDofIndices(), NodeElemConstraint::getConnectedDofIndices(), NodeFaceConstraint::getConnectedDofIndices(), Marker::getMarkerValue(), SubProblem::getVariableHelper(), Assembly::init(), NodalNormalsPreprocessor::initialize(), Assembly::initNonlocalCoupling(), PhysicsBasedPreconditioner::PhysicsBasedPreconditioner(), AddPeriodicBCAction::setPeriodicVars(), SingleMatrixPreconditioner::SingleMatrixPreconditioner(), and UpdateErrorVectorsThread::UpdateErrorVectorsThread().

{
  MooseVariableFEBase * var = dynamic_cast<MooseVariableFEBase *>(_vars[tid].getVariable(var_name));
  if (!var)
  {
    std::stringstream errMsg;
    errMsg << "Variable '" << var_name << "' does not exist in this system" << std::endl;
    throw std::runtime_error(errMsg.str().c_str());
    // mooseError("Variable '" + var_name + "' does not exist in this system");
  }
  return *var;
}

getVariable() [2/2]

MooseVariableFEBase & SystemBase::getVariable ( THREAD_ID  tid, unsigned int  var_number  )

inherited

Gets a reference to a variable with specified number.

Parameters

tid	Thread id
var_number	libMesh variable number

Returns

reference the variable (class)

Definition at line 119 of file SystemBase.C.

{
  MooseVariableFEBase * var =
      dynamic_cast<MooseVariableFEBase *>(_vars[tid].getVariable(var_number));
  if (!var)
  {
    std::stringstream errMsg;
    errMsg << "Variable '" << Moose::stringify(var_number) << "' does not exist in this system"
           << std::endl;
    throw std::runtime_error(errMsg.str().c_str());
    // mooseError("variable #" + Moose::stringify(var_number) + " does not exist in this system");
  }
  return *var;
}

getVariableBlocks()

const std::set< SubdomainID > * SystemBase::getVariableBlocks ( unsigned int  var_number )

virtualinherited

Get the block where a variable of this system is defined.

Parameters

var_number

The number of the variable

Returns

the set of subdomain ids where the variable is active (defined)

Definition at line 168 of file SystemBase.C.

Referenced by PhysicsBasedPreconditioner::addSystem().

{
  mooseAssert(_var_map.find(var_number) != _var_map.end(), "Variable does not exist.");
  if (_var_map[var_number].empty())
    return nullptr;
  else
    return &_var_map[var_number];
}

getVariableNames()

const std::vector<VariableName>& SystemBase::getVariableNames ( ) const

inlineinherited

Definition at line 670 of file SystemBase.h.

Referenced by MooseEigenSystem::buildSystemDoFIndices(), NonlinearSystemBase::checkKernelCoverage(), and AddPeriodicBCAction::setPeriodicVars().

{ return _vars[0].names(); }

getVariables()

const std::vector<MooseVariableFEBase *>& SystemBase::getVariables ( THREAD_ID  tid )

inlineinherited

Definition at line 569 of file SystemBase.h.

Referenced by Assembly::addJacobianOffDiagScalar(), Assembly::addResidual(), Assembly::addResidualNeighbor(), Assembly::cacheResidual(), Assembly::cacheResidualNeighbor(), ComputeFullJacobianThread::computeFaceJacobian(), ComputeFullJacobianThread::computeJacobian(), Assembly::init(), Assembly::initNonlocalCoupling(), Assembly::prepareNeighbor(), Assembly::prepareOffDiagScalar(), Assembly::prepareResidual(), Assembly::setResidual(), and Assembly::setResidualNeighbor().

  {
    return _vars[tid].fieldVariables();
  }

getVector() [1/2]

virtual NumericVector<Number>& DisplacedSystem::getVector ( TagID  tag )

inlineoverridevirtual

Get a raw NumericVector.

Reimplemented from SystemBase.

Definition at line 36 of file DisplacedSystem.h.

  {
    return _undisplaced_system.getVector(tag_id);
  }

getVector() [2/2]

NumericVector< Number > & DisplacedSystem::getVector ( const std::string &  name )

overridevirtual

Get a raw NumericVector.

Get a raw NumericVector with the given name.

Reimplemented from SystemBase.

Definition at line 34 of file DisplacedSystem.C.

{
  if (_sys.have_vector(name))
    return _sys.get_vector(name);
  else
    return _undisplaced_system.getVector(name);
}

hasMatrix()

virtual bool DisplacedSystem::hasMatrix ( TagID  tag )

inlineoverridevirtual

Check if the tagged matrix exists in the system.

Reimplemented from SystemBase.

Definition at line 158 of file DisplacedSystem.h.

{ return _undisplaced_system.hasMatrix(tag_id); }

hasScalarVariable()

bool SystemBase::hasScalarVariable ( const std::string &  var_name ) const

virtualinherited

Definition at line 661 of file SystemBase.C.

Referenced by ComputeFullJacobianThread::computeFaceJacobian(), ComputeFullJacobianThread::computeJacobian(), SystemBase::copyVars(), DisplacedProblem::getScalarVariable(), DisplacedProblem::hasScalarVariable(), and AddPeriodicBCAction::setPeriodicVars().

{
  if (system().has_variable(var_name))
    return system().variable_type(var_name).family == SCALAR;
  else
    return false;
}

hasVariable()

bool SystemBase::hasVariable ( const std::string &  var_name ) const

virtualinherited

Query a system for a variable.

Parameters

var_name

name of the variable

Returns

true if the variable exists

Definition at line 652 of file SystemBase.C.

Referenced by ADKernelTempl< T, compute_stage >::ADKernelTempl(), SystemBase::copyVars(), DGKernelBase::DGKernelBase(), FEProblemBase::duplicateVariableCheck(), DisplacedProblem::getStandardVariable(), DisplacedProblem::getSystem(), SubProblem::getVariableHelper(), DisplacedProblem::getVectorVariable(), DisplacedProblem::hasVariable(), InterfaceKernel::InterfaceKernel(), and Kernel::Kernel().

{
  if (system().has_variable(var_name))
    return system().variable_type(var_name).family != SCALAR;
  else
    return false;
}

hasVector() [1/2]

virtual bool DisplacedSystem::hasVector ( TagID  tag_id )

inlineoverridevirtual

Check if the tagged vector exists in the system.

Reimplemented from SystemBase.

Definition at line 156 of file DisplacedSystem.h.

{ return _undisplaced_system.hasVector(tag_id); }

hasVector() [2/2]

bool SystemBase::hasVector ( const std::string &  tag_name ) const

inherited

Check if the named vector exists in the system.

Definition at line 685 of file SystemBase.C.

Referenced by Assembly::addCachedResidual(), Assembly::addCachedResiduals(), Assembly::addResidual(), Assembly::addResidualNeighbor(), Assembly::addResidualScalar(), AuxiliarySystem::addVector(), SystemBase::addVector(), Assembly::cacheResidual(), Assembly::cacheResidualNeighbor(), VectorNodalBC::computeResidual(), NodalBC::computeResidual(), NonlinearSystemBase::computeResidualTags(), SystemBase::getVector(), hasVector(), MooseVariableScalar::reinit(), and SystemBase::removeVector().

{
  return system().have_vector(name);
}

init()

void DisplacedSystem::init ( )

overridevirtual

Initialize the system.

Reimplemented from SystemBase.

Definition at line 29 of file DisplacedSystem.C.

Referenced by DisplacedProblem::init().

{
}

initializeObjects()

virtual void SystemBase::initializeObjects ( )

inlinevirtualinherited

Called only once, just before the solve begins so objects can do some precalculations.

Definition at line 126 of file SystemBase.h.

{};

isScalarVariable()

bool SystemBase::isScalarVariable ( unsigned int  var_name ) const

virtualinherited

Definition at line 670 of file SystemBase.C.

Referenced by ODEKernel::computeOffDiagJacobian(), Assembly::init(), and Assembly::initNonlocalCoupling().

{
  return (system().variable(var_num).type().family == SCALAR);
}

matrixTagActive()

bool SystemBase::matrixTagActive ( TagID  tag )

virtualinherited

If or not a matrix tag is active.

Definition at line 879 of file SystemBase.C.

{
  mooseAssert(_subproblem.matrixTagExists(tag), "Matrix tag " << tag << " does not exist");

  return tag < _matrix_tag_active_flags.size() && _matrix_tag_active_flags[tag];
}

mesh()

virtual MooseMesh& SystemBase::mesh ( )

inlinevirtualinherited

Definition at line 104 of file SystemBase.h.

Referenced by CreateDisplacedProblemAction::addProxyAlgebraicRelationshipManagers(), CreateDisplacedProblemAction::addProxyGeometricRelationshipManagers(), DMMooseGetEmbedding_Private(), DMSetUp_Moose_Pre(), MooseVariableFE< Real >::MooseVariableFE(), ComputeNodalKernelsThread::onNode(), and ComputeNodalKernelJacobiansThread::onNode().

{ return _mesh; }

name()

const std::string & SystemBase::name ( ) const

virtualinherited

Definition at line 1049 of file SystemBase.C.

Referenced by NonlinearSystemBase::addBoundaryCondition(), NonlinearSystemBase::addConstraint(), NonlinearSystemBase::addDamper(), NonlinearSystemBase::addDGKernel(), NonlinearSystemBase::addDiracKernel(), NonlinearSystemBase::addInterfaceKernel(), MooseEigenSystem::addKernel(), AuxiliarySystem::addKernel(), NonlinearSystemBase::addKernel(), NonlinearSystem::addMatrix(), NonlinearSystemBase::addNodalKernel(), AuxiliarySystem::addScalarKernel(), NonlinearSystemBase::addScalarKernel(), NonlinearSystemBase::addSplit(), AuxiliarySystem::addTimeIntegrator(), NonlinearSystemBase::addTimeIntegrator(), SystemBase::addVector(), NonlinearSystemBase::getSplit(), getVector(), SystemBase::getVector(), SystemBase::hasVector(), and SystemBase::removeVector().

{
  return system().name();
}

nonTimeVectorTag()

virtual TagID DisplacedSystem::nonTimeVectorTag ( )

inlineoverridevirtual

Reimplemented from SystemBase.

Definition at line 43 of file DisplacedSystem.h.

Referenced by DisplacedProblem::addCachedResidualDirectly().

{ return _undisplaced_system.nonTimeVectorTag(); }

number()

unsigned int SystemBase::number ( ) const

virtualinherited

Gets the number of this system.

Returns

The number of this system

Definition at line 894 of file SystemBase.C.

Referenced by VectorNodalBC::computeOffDiagJacobian(), NodalBC::computeOffDiagJacobian(), NodalKernel::computeOffDiagJacobian(), EqualValueEmbeddedConstraint::computeQpJacobian(), EqualValueEmbeddedConstraint::computeQpOffDiagJacobian(), DebugResidualAux::computeValue(), NearestNodeValueAux::computeValue(), BoundsAux::computeValue(), NodalNormalsEvaluator::execute(), NodalNormalsCorner::execute(), NodalNormalsPreprocessor::execute(), NonlinearSystemBase::getNodeDofs(), EqualValueEmbeddedConstraint::reinitConstraint(), and MultiAppCopyTransfer::transferDofObject().

{
  return system().number();
}

nVariables()

unsigned int SystemBase::nVariables ( ) const

virtualinherited

Get the number of variables in this system.

Returns

the number of variables

Definition at line 676 of file SystemBase.C.

Referenced by FieldSplitPreconditioner::FieldSplitPreconditioner(), FiniteDifferencePreconditioner::FiniteDifferencePreconditioner(), NonlinearSystemBase::getNodeDofs(), Assembly::init(), MaxVarNDofsPerElem::onElement(), MaxVarNDofsPerNode::onNode(), PhysicsBasedPreconditioner::PhysicsBasedPreconditioner(), and SingleMatrixPreconditioner::SingleMatrixPreconditioner().

{
  return _vars[0].names().size();
}

prepare()

void SystemBase::prepare ( THREAD_ID  tid )

virtualinherited

Prepare the system for use.

Parameters

tid	ID of the thread

Definition at line 242 of file SystemBase.C.

Referenced by DisplacedProblem::prepare(), DisplacedProblem::reinitDirac(), and DisplacedProblem::reinitElemPhys().

{
  if (_subproblem.hasActiveElementalMooseVariables(tid))
  {
    const std::set<MooseVariableFEBase *> & active_elemental_moose_variables =
        _subproblem.getActiveElementalMooseVariables(tid);
    const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
    for (const auto & var : vars)
      var->clearDofIndices();

    for (const auto & var : active_elemental_moose_variables)
      if (&(var->sys()) == this)
        var->prepare();
  }
  else
  {
    const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
    for (const auto & var : vars)
      var->prepare();
  }
}

prepareFace()

void SystemBase::prepareFace ( THREAD_ID  tid, bool  resize_data  )

virtualinherited

Prepare the system for use on sides.

This will try to reuse the preparation done on the element.

Parameters

tid	ID of the thread
resize_data	Pass True if this system needs to resize residual and jacobian datastructures based on preparing this face

Definition at line 265 of file SystemBase.C.

Referenced by DisplacedProblem::prepareFace().

{
  // We only need to do something if the element prepare was restricted
  if (_subproblem.hasActiveElementalMooseVariables(tid))
  {
    const std::set<MooseVariableFEBase *> & active_elemental_moose_variables =
        _subproblem.getActiveElementalMooseVariables(tid);

    std::vector<MooseVariableFEBase *> newly_prepared_vars;

    const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
    for (const auto & var : vars)
    {
      // If it wasn't in the active list, we need to prepare it
      if (&(var->sys()) == this && !active_elemental_moose_variables.count(var))
      {
        var->prepare();
        newly_prepared_vars.push_back(var);
      }
    }

    // Make sure to resize the residual and jacobian datastructures for all the new variables
    if (resize_data)
      for (const auto var_ptr : newly_prepared_vars)
      {
        _subproblem.assembly(tid).prepareVariable(var_ptr);
        if (_subproblem.checkNonlocalCouplingRequirement())
          _subproblem.assembly(tid).prepareVariableNonlocal(var_ptr);
      }
  }
}

prepareNeighbor()

void SystemBase::prepareNeighbor ( THREAD_ID  tid )

virtualinherited

Prepare the system for use.

Parameters

tid	ID of the thread

Definition at line 298 of file SystemBase.C.

Referenced by DisplacedProblem::reinitNeighbor(), and DisplacedProblem::reinitNeighborPhys().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
    var->prepareNeighbor();
}

reinitElem()

void SystemBase::reinitElem ( const Elem *  elem, THREAD_ID  tid  )

virtualinherited

Reinit an element assembly info.

Parameters

elem	Which element we are reinitializing for
tid	ID of the thread

Reimplemented in AuxiliarySystem.

Definition at line 306 of file SystemBase.C.

Referenced by DisplacedProblem::reinitElem().

{

  if (_subproblem.hasActiveElementalMooseVariables(tid))
  {
    const std::set<MooseVariableFEBase *> & active_elemental_moose_variables =
        _subproblem.getActiveElementalMooseVariables(tid);
    for (const auto & var : active_elemental_moose_variables)
      if (&(var->sys()) == this)
        var->computeElemValues();
  }
  else
  {
    const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
    for (const auto & var : vars)
      var->computeElemValues();
  }
}

reinitElemFace()

void SystemBase::reinitElemFace ( const Elem *  elem, unsigned int  side, BoundaryID  bnd_id, THREAD_ID  tid  )

virtualinherited

Reinit assembly info for a side of an element.

Parameters

elem	The element
side	Side of of the element
bnd_id	Boundary id on that side
tid	Thread ID

Reimplemented in AuxiliarySystem.

Definition at line 326 of file SystemBase.C.

Referenced by DisplacedProblem::reinitElemFace(), and DisplacedProblem::reinitNeighbor().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
    var->computeElemValuesFace();
}

reinitNeighbor()

void SystemBase::reinitNeighbor ( const Elem *  elem, THREAD_ID  tid  )

virtualinherited

Compute the values of the variables at all the current points.

Definition at line 348 of file SystemBase.C.

Referenced by DisplacedProblem::reinitNeighborPhys().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
    var->computeNeighborValues();
}

reinitNeighborFace()

void SystemBase::reinitNeighborFace ( const Elem *  elem, unsigned int  side, BoundaryID  bnd_id, THREAD_ID  tid  )

virtualinherited

Compute the values of the variables at all the current points.

Definition at line 337 of file SystemBase.C.

Referenced by DisplacedProblem::reinitNeighbor(), and DisplacedProblem::reinitNeighborPhys().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
    var->computeNeighborValuesFace();
}

reinitNode()

void SystemBase::reinitNode ( const Node *  node, THREAD_ID  tid  )

virtualinherited

Reinit nodal assembly info.

Parameters

node	Node to reinit for
tid	Thread ID

Definition at line 356 of file SystemBase.C.

Referenced by DisplacedProblem::reinitNode().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
  {
    if (var->isNodal())
    {
      var->reinitNode();
      var->computeNodalValues();
    }
  }
}

reinitNodeFace()

void SystemBase::reinitNodeFace ( const Node *  node, BoundaryID  bnd_id, THREAD_ID  tid  )

virtualinherited

Reinit nodal assembly info on a face.

Parameters

node	Node to reinit
bnd_id	Boundary ID
tid	Thread ID

Definition at line 370 of file SystemBase.C.

Referenced by DisplacedProblem::reinitNodeFace().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
  {
    if (var->isNodal())
    {
      var->reinitNode();
      var->computeNodalValues();
    }
  }
}

reinitNodes()

void SystemBase::reinitNodes ( const std::vector< dof_id_type > &  nodes, THREAD_ID  tid  )

virtualinherited

Reinit variables at a set of nodes.

Parameters

nodes	List of node ids to reinit
tid	Thread ID

Definition at line 384 of file SystemBase.C.

Referenced by DisplacedProblem::reinitNodes().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
  {
    var->reinitNodes(nodes);
    var->computeNodalValues();
  }
}

reinitNodesNeighbor()

void SystemBase::reinitNodesNeighbor ( const std::vector< dof_id_type > &  nodes, THREAD_ID  tid  )

virtualinherited

Reinit variables at a set of neighbor nodes.

Parameters

nodes	List of node ids to reinit
tid	Thread ID

Definition at line 395 of file SystemBase.C.

Referenced by DisplacedProblem::reinitNodesNeighbor().

{
  const std::vector<MooseVariableFEBase *> & vars = _vars[tid].fieldVariables();
  for (const auto & var : vars)
  {
    var->reinitNodesNeighbor(nodes);
    var->computeNodalNeighborValues();
  }
}

reinitScalars()

void SystemBase::reinitScalars ( THREAD_ID  tid )

virtualinherited

Reinit scalar varaibles.

Parameters

tid

Thread ID

Definition at line 406 of file SystemBase.C.

Referenced by DisplacedProblem::reinitScalars().

{
  const std::vector<MooseVariableScalar *> & vars = _vars[tid].scalars();
  for (const auto & var : vars)
    var->reinit();
}

removeMatrix()

virtual void SystemBase::removeMatrix ( TagID  )

inlinevirtualinherited

Removes a jacobian sized vector.

Parameters

tag_name

The name of the tag

Definition at line 652 of file SystemBase.h.

  {
    mooseError("Removing a matrix is not supported for this type of system!");
  }

removeVector() [1/2]

void SystemBase::removeVector ( const std::string &  name )

virtualinherited

Remove a vector from the system with the given name.

Definition at line 1043 of file SystemBase.C.

Referenced by SystemBase::restoreOldSolutions().

{
  system().remove_vector(name);
}

removeVector() [2/2]

void SystemBase::removeVector ( TagID  tag_id )

virtualinherited

Remove a solution length vector from the system with the specified TagID.

Parameters

tag_id

Tag ID

Definition at line 580 of file SystemBase.C.

{
  if (!_subproblem.vectorTagExists(tag_id))
    mooseError("Cannot remove an unexisting tag or its associated vector, ",
               tag_id,
               ", that tag does not exist in System ",
               name());

  if (hasVector(tag_id))
  {
    auto vector_name = _subproblem.vectorTagName(tag_id);
    system().remove_vector(vector_name);
    _tagged_vectors[tag_id] = nullptr;
  }
}

residualCopy()

virtual NumericVector<Number>& DisplacedSystem::residualCopy ( )

inlineoverridevirtual

Return the residual copy from the NonlinearSystem.

Returns

Residual copy

Reimplemented from SystemBase.

Definition at line 106 of file DisplacedSystem.h.

  {
    return _undisplaced_system.residualCopy();
  }

residualGhosted()

virtual NumericVector<Number>& DisplacedSystem::residualGhosted ( )

inlineoverridevirtual

Reimplemented from SystemBase.

Definition at line 110 of file DisplacedSystem.h.

  {
    return _undisplaced_system.residualGhosted();
  }

residualVectorTag()

TagID SystemBase::residualVectorTag ( )

virtualinherited

Reimplemented in NonlinearSystemBase.

Definition at line 719 of file SystemBase.C.

{
  mooseError("Not implemented yet");
  return 0;
}

restoreOldSolutions()

void SystemBase::restoreOldSolutions ( )

virtualinherited

Restore the old and older solutions when the saved solutions present.

Definition at line 497 of file SystemBase.C.

Referenced by DisplacedProblem::restoreOldSolutions().

{
  if (_saved_old)
  {
    solutionOld() = *_saved_old;
    removeVector("save_solution_old");
    _saved_old = nullptr;
  }
  if (_saved_older)
  {
    solutionOlder() = *_saved_older;
    removeVector("save_solution_older");
    _saved_older = nullptr;
  }
  if (_saved_dot_old && solutionUDotOld())
  {
    *solutionUDotOld() = *_saved_dot_old;
    removeVector("save_solution_dot_old");
    _saved_dot_old = NULL;
  }
  if (_saved_dotdot_old && solutionUDotDotOld())
  {
    *solutionUDotDotOld() = *_saved_dotdot_old;
    removeVector("save_solution_dotdot_old");
    _saved_dotdot_old = NULL;
  }
}

restoreSolutions()

void SystemBase::restoreSolutions ( )

virtualinherited

Restore current solutions (call after your solve failed)

Reimplemented in NonlinearSystemBase.

Definition at line 1029 of file SystemBase.C.

Referenced by NonlinearSystemBase::restoreSolutions().

{
  *(const_cast<NumericVector<Number> *&>(currentSolution())) = solutionOld();
  solution() = solutionOld();
  if (solutionUDotOld())
    *solutionUDot() = *solutionUDotOld();
  if (solutionUDotDotOld())
    *solutionUDotDot() = *solutionUDotDotOld();
  if (solutionPreviousNewton())
    *solutionPreviousNewton() = solutionOld();
  system().update();
}

saveOldSolutions()

void SystemBase::saveOldSolutions ( )

virtualinherited

Save the old and older solutions.

Definition at line 472 of file SystemBase.C.

Referenced by DisplacedProblem::saveOldSolutions().

{
  if (!_saved_old)
    _saved_old = &addVector("save_solution_old", false, PARALLEL);
  if (!_saved_older)
    _saved_older = &addVector("save_solution_older", false, PARALLEL);
  if (!_saved_dot_old && solutionUDotOld())
    _saved_dot_old = &addVector("save_solution_dot_old", false, PARALLEL);
  if (!_saved_dotdot_old && solutionUDotDotOld())
    _saved_dotdot_old = &addVector("save_solution_dotdot_old", false, PARALLEL);

  *_saved_old = solutionOld();
  *_saved_older = solutionOlder();

  if (solutionUDotOld())
    *_saved_dot_old = *solutionUDotOld();

  if (solutionUDotDotOld())
    *_saved_dotdot_old = *solutionUDotDotOld();
}

serializedSolution()

virtual NumericVector<Number>& DisplacedSystem::serializedSolution ( )

inlineoverridevirtual

Returns a reference to a serialized version of the solution vector for this subproblem.

Implements SystemBase.

Definition at line 77 of file DisplacedSystem.h.

  {
    return _undisplaced_system.serializedSolution();
  }

solution()

virtual NumericVector<Number>& DisplacedSystem::solution ( )

inlineoverridevirtual

Implements SystemBase.

Definition at line 87 of file DisplacedSystem.h.

{ return _undisplaced_system.solution(); }

solutionOld()

NumericVector< Number > & DisplacedSystem::solutionOld ( )

overridevirtual

Implements SystemBase.

Definition at line 49 of file DisplacedSystem.C.

{
  return *_sys.old_local_solution;
}

solutionOlder()

NumericVector< Number > & DisplacedSystem::solutionOlder ( )

overridevirtual

Implements SystemBase.

Definition at line 55 of file DisplacedSystem.C.

{
  return *_sys.older_local_solution;
}

solutionPreviousNewton()

virtual NumericVector<Number>* DisplacedSystem::solutionPreviousNewton ( )

inlineoverridevirtual

Implements SystemBase.

Definition at line 179 of file DisplacedSystem.h.

{ return NULL; }

solutionUDot()

virtual NumericVector<Number>* DisplacedSystem::solutionUDot ( )

inlineoverridevirtual

Implements SystemBase.

Definition at line 89 of file DisplacedSystem.h.

  {
    return _undisplaced_system.solutionUDot();
  }

solutionUDotDot()

virtual NumericVector<Number>* DisplacedSystem::solutionUDotDot ( )

inlineoverridevirtual

Implements SystemBase.

Definition at line 94 of file DisplacedSystem.h.

  {
    return _undisplaced_system.solutionUDotDot();
  }

solutionUDotDotOld()

virtual NumericVector<Number>* DisplacedSystem::solutionUDotDotOld ( )

inlineoverridevirtual

Implements SystemBase.

Definition at line 174 of file DisplacedSystem.h.

  {
    return _undisplaced_system.solutionUDotDotOld();
  }

solutionUDotOld()

virtual NumericVector<Number>* DisplacedSystem::solutionUDotOld ( )

inlineoverridevirtual

Implements SystemBase.

Definition at line 169 of file DisplacedSystem.h.

  {
    return _undisplaced_system.solutionUDotOld();
  }

solve()

void SystemBase::solve ( )

virtualinherited

Solve the system (using libMesh magic)

Reimplemented in NonlinearSystemBase, NonlinearEigenSystem, DumpObjectsNonlinearSystem, and NonlinearSystem.

Definition at line 987 of file SystemBase.C.

{
  system().solve();
}

subproblem()

virtual SubProblem& SystemBase::subproblem ( )

inlinevirtualinherited

Definition at line 105 of file SystemBase.h.

Referenced by CreateDisplacedProblemAction::addProxyAlgebraicRelationshipManagers(), CreateDisplacedProblemAction::addProxyGeometricRelationshipManagers(), MooseVariableBase::allDofIndices(), MultiAppVariableValueSamplePostprocessorTransfer::execute(), MultiAppVariableValueSampleTransfer::execute(), MooseVariableFE< Real >::MooseVariableFE(), MooseVariableScalar::MooseVariableScalar(), and MooseVariableScalar::reinit().

{ return _subproblem; }

sys()

virtual TransientExplicitSystem& DisplacedSystem::sys ( )

inlinevirtual

Definition at line 181 of file DisplacedSystem.h.

Referenced by UpdateDisplacedMeshThread::init(), and DisplacedProblem::syncSolutions().

{ return _sys; }

system() [1/2]

System & DisplacedSystem::system ( )

overridevirtual

Get the reference to the libMesh system.

Implements SystemBase.

Definition at line 61 of file DisplacedSystem.C.

Referenced by DisplacedProblem::getSystem().

{
  return _sys;
}

system() [2/2]

const System & DisplacedSystem::system ( ) const

overridevirtual

Implements SystemBase.

Definition at line 67 of file DisplacedSystem.C.

{
  return _sys;
}

systemMatrixTag()

TagID SystemBase::systemMatrixTag ( )

virtualinherited

Return the Matrix Tag ID for System.

Reimplemented in NonlinearSystemBase.

Definition at line 705 of file SystemBase.C.

{
  mooseError("Not implemented yet");
  return 0;
}

timeMatrixTag()

TagID SystemBase::timeMatrixTag ( )

virtualinherited

Return the Matrix Tag ID for Time.

Definition at line 698 of file SystemBase.C.

{
  mooseError("Not implemented yet");
  return 0;
}

timeVectorTag()

virtual TagID DisplacedSystem::timeVectorTag ( )

inlineoverridevirtual

Ideally, we should not need this API.

There exists a really bad API "addCachedResidualDirectly " in FEProblem and DisplacedProblem This API should go away once addCachedResidualDirectly is removed in the future Return Tag ID for Time

Reimplemented from SystemBase.

Definition at line 41 of file DisplacedSystem.h.

Referenced by DisplacedProblem::addCachedResidualDirectly().

{ return _undisplaced_system.timeVectorTag(); }

update()

void SystemBase::update ( )

virtualinherited

Update the system (doing libMesh magic)

Definition at line 981 of file SystemBase.C.

Referenced by MooseEigenSystem::combineSystemSolution(), NonlinearSystemBase::computeDamping(), NonlinearSystemBase::computeJacobianInternal(), NonlinearSystemBase::computeResidualTags(), dataLoad(), MooseEigenSystem::initSystemSolution(), MooseEigenSystem::initSystemSolutionOld(), Resurrector::restartFromFile(), MooseEigenSystem::scaleSystemSolution(), NonlinearSystemBase::setConstraintSlaveValues(), NonlinearSystemBase::setInitialSolution(), PicardSolve::solve(), PicardSolve::solveStep(), DisplacedProblem::syncSolutions(), and MultiAppCopyTransfer::transfer().

{
  system().update();
}

zeroTaggedVectors()

void SystemBase::zeroTaggedVectors ( const std::set< TagID > &  tags )

virtualinherited

Zero all vectors for given tags.

Definition at line 570 of file SystemBase.C.

Referenced by NonlinearSystemBase::computeResidualTags().

{
  for (auto & tag : tags)
  {
    mooseAssert(_subproblem.vectorTagExists(tag), "Tag: " << tag << " does not exsit");
    getVector(tag).zero();
  }
}

zeroVariables()

virtual void DisplacedSystem::zeroVariables ( std::vector< std::string > &  vars_to_be_zeroed )

inlineoverridevirtual

Zero out the solution for the list of variables passed in.

Reimplemented from SystemBase.

Definition at line 151 of file DisplacedSystem.h.

  {
    _undisplaced_system.zeroVariables(vars_to_be_zeroed);
  }

zeroVariablesForJacobian()

void SystemBase::zeroVariablesForJacobian ( )

virtualinherited

Zero out the solution for the variables that were registered as needing to have their solutions zeroed on out on Jacobian evaluation by a call to addVariableToZeroOnResidual()

Definition at line 221 of file SystemBase.C.

{
  zeroVariables(_vars_to_be_zeroed_on_jacobian);
}

zeroVariablesForResidual()

void SystemBase::zeroVariablesForResidual ( )

virtualinherited

Zero out the solution for the variables that were registered as needing to have their solutions zeroed on out on residual evaluation by a call to addVariableToZeroOnResidual()

Definition at line 215 of file SystemBase.C.

{
  zeroVariables(_vars_to_be_zeroed_on_residual);
}

Member Data Documentation

_app

MooseApp& SystemBase::_app

protectedinherited

Definition at line 696 of file SystemBase.h.

Referenced by NonlinearSystemBase::computeJacobianBlocks(), NonlinearSystemBase::computeJacobianTags(), and NonlinearSystemBase::computeResidualTags().

_du_dot_du

Real SystemBase::_du_dot_du

protectedinherited

Definition at line 711 of file SystemBase.h.

Referenced by SystemBase::duDotDu().

_du_dotdot_du

Real SystemBase::_du_dotdot_du

protectedinherited

Definition at line 712 of file SystemBase.h.

Referenced by SystemBase::duDotDotDu().

_factory

Factory& SystemBase::_factory

protectedinherited

Definition at line 697 of file SystemBase.h.

Referenced by NonlinearSystemBase::addBoundaryCondition(), NonlinearSystemBase::addConstraint(), NonlinearSystemBase::addDamper(), NonlinearSystemBase::addDGKernel(), NonlinearSystemBase::addDiracKernel(), NonlinearSystemBase::addInterfaceKernel(), MooseEigenSystem::addKernel(), AuxiliarySystem::addKernel(), NonlinearSystemBase::addKernel(), NonlinearSystemBase::addNodalKernel(), AuxiliarySystem::addScalarKernel(), NonlinearSystemBase::addScalarKernel(), NonlinearSystemBase::addSplit(), AuxiliarySystem::addTimeIntegrator(), and NonlinearSystemBase::addTimeIntegrator().

_matrix_tag_active_flags

std::vector<bool> SystemBase::_matrix_tag_active_flags

protectedinherited

Active flags for tagged matrices.

Definition at line 719 of file SystemBase.h.

Referenced by SystemBase::activeAllMatrixTags(), SystemBase::activeMatrixTag(), SystemBase::deactiveAllMatrixTags(), SystemBase::deactiveMatrixTag(), and SystemBase::matrixTagActive().

_max_var_n_dofs_per_elem

size_t SystemBase::_max_var_n_dofs_per_elem

protectedinherited

Maximum number of dofs for any one variable on any one element.

Definition at line 735 of file SystemBase.h.

Referenced by SystemBase::assignMaxVarNDofsPerElem(), SystemBase::getMaxVarNDofsPerElem(), and NonlinearSystemBase::init().

_max_var_n_dofs_per_node

size_t SystemBase::_max_var_n_dofs_per_node

protectedinherited

Maximum number of dofs for any one variable on any one node.

Definition at line 738 of file SystemBase.h.

Referenced by SystemBase::assignMaxVarNDofsPerNode(), SystemBase::getMaxVarNDofsPerNode(), and NonlinearSystemBase::init().

_mesh

MooseMesh& SystemBase::_mesh

protectedinherited

Definition at line 699 of file SystemBase.h.

Referenced by SystemBase::augmentSendList(), NonlinearSystemBase::computeDamping(), AuxiliarySystem::computeElementalVarsHelper(), NonlinearSystemBase::computeJacobianBlocks(), NonlinearSystemBase::computeJacobianInternal(), NonlinearSystemBase::computeNodalBCs(), AuxiliarySystem::computeNodalVarsHelper(), NonlinearSystemBase::computeResidualInternal(), NonlinearSystemBase::constraintJacobians(), NonlinearSystemBase::constraintResiduals(), NonlinearSystemBase::findImplicitGeometricCouplingEntries(), NonlinearSystemBase::getNodeDofs(), NonlinearSystemBase::init(), SystemBase::mesh(), NonlinearSystemBase::setConstraintSlaveValues(), NonlinearSystemBase::setInitialSolution(), NonlinearSystemBase::setVariableGlobalDoFs(), and SystemBase::zeroVariables().

_name

std::string SystemBase::_name

protectedinherited

The name of this system.

Definition at line 701 of file SystemBase.h.

_saved_dot_old

NumericVector<Real>* SystemBase::_saved_dot_old

protectedinherited

Definition at line 726 of file SystemBase.h.

Referenced by SystemBase::restoreOldSolutions(), and SystemBase::saveOldSolutions().

_saved_dotdot_old

NumericVector<Real>* SystemBase::_saved_dotdot_old

protectedinherited

Definition at line 727 of file SystemBase.h.

Referenced by SystemBase::restoreOldSolutions(), and SystemBase::saveOldSolutions().

_saved_old

NumericVector<Real>* SystemBase::_saved_old

protectedinherited

Definition at line 722 of file SystemBase.h.

Referenced by SystemBase::restoreOldSolutions(), and SystemBase::saveOldSolutions().

_saved_older

NumericVector<Real>* SystemBase::_saved_older

protectedinherited

Definition at line 723 of file SystemBase.h.

Referenced by SystemBase::restoreOldSolutions(), and SystemBase::saveOldSolutions().

_subproblem

SubProblem& SystemBase::_subproblem

protectedinherited

Definition at line 694 of file SystemBase.h.

Referenced by SystemBase::activeAllMatrixTags(), SystemBase::activeMatrixTag(), NonlinearSystem::addMatrix(), SystemBase::addScalarVariable(), SystemBase::addVariable(), SystemBase::addVector(), SystemBase::associateMatrixToTag(), SystemBase::associateVectorToTag(), SystemBase::augmentSendList(), SystemBase::closeTaggedVectors(), SystemBase::deactiveAllMatrixTags(), SystemBase::deactiveMatrixTag(), SystemBase::disassociateMatrixFromTag(), SystemBase::disassociateVectorFromTag(), SystemBase::matrixTagActive(), SystemBase::prepare(), SystemBase::prepareFace(), SystemBase::reinitElem(), SystemBase::removeVector(), SystemBase::subproblem(), and SystemBase::zeroTaggedVectors().

_sys

TransientExplicitSystem& DisplacedSystem::_sys

protected

Definition at line 191 of file DisplacedSystem.h.

Referenced by getVector(), solutionOld(), solutionOlder(), sys(), and system().

_tagged_matrices

std::vector<SparseMatrix<Number> *> SystemBase::_tagged_matrices

protectedinherited

Tagged matrices (pointer)

Definition at line 717 of file SystemBase.h.

Referenced by NonlinearSystem::addMatrix(), SystemBase::associateMatrixToTag(), SystemBase::disassociateAllTaggedMatrices(), SystemBase::disassociateMatrixFromTag(), SystemBase::getMatrix(), and SystemBase::hasMatrix().

_tagged_vectors

std::vector<NumericVector<Number> *> SystemBase::_tagged_vectors

protectedinherited

Tagged vectors (pointer)

Definition at line 715 of file SystemBase.h.

Referenced by SystemBase::addVector(), SystemBase::associateVectorToTag(), SystemBase::disassociateAllTaggedVectors(), SystemBase::disassociateVectorFromTag(), SystemBase::getVector(), SystemBase::hasVector(), and SystemBase::removeVector().

_time_integrator

std::shared_ptr<TimeIntegrator> SystemBase::_time_integrator

protectedinherited

Time integrator.

Definition at line 741 of file SystemBase.h.

Referenced by NonlinearSystemBase::addTimeIntegrator(), addTimeIntegrator(), NonlinearSystemBase::computeResidualTags(), NonlinearSystemBase::computeTimeDerivatives(), SystemBase::getSharedTimeIntegrator(), SystemBase::getTimeIntegrator(), NonlinearSystemBase::onTimestepBegin(), NonlinearSystem::solve(), and NonlinearEigenSystem::solve().

_undisplaced_system

SystemBase& DisplacedSystem::_undisplaced_system

protected

Definition at line 190 of file DisplacedSystem.h.

Referenced by addVariableToZeroOnJacobian(), addVariableToZeroOnResidual(), associateMatrixToTag(), associateVectorToTag(), augmentSendList(), currentSolution(), disassociateAllTaggedMatrices(), disassociateAllTaggedVectors(), disassociateMatrixFromTag(), disassociateVectorFromTag(), duDotDotDu(), duDotDu(), getMatrix(), getVector(), hasMatrix(), hasVector(), nonTimeVectorTag(), residualCopy(), residualGhosted(), serializedSolution(), solution(), solutionUDot(), solutionUDotDot(), solutionUDotDotOld(), solutionUDotOld(), timeVectorTag(), and zeroVariables().

_var_kind

Moose::VarKindType SystemBase::_var_kind

protectedinherited

default kind of variables in this system

Definition at line 730 of file SystemBase.h.

Referenced by SystemBase::addScalarVariable(), and SystemBase::addVariable().

_var_map

std::map<unsigned int, std::set<SubdomainID> > SystemBase::_var_map

protectedinherited

Map of variables (variable id -> array of subdomains where it lives)

Definition at line 706 of file SystemBase.h.

Referenced by SystemBase::addScalarVariable(), SystemBase::addVariable(), SystemBase::getSubdomainsForVar(), and SystemBase::getVariableBlocks().

_var_to_copy

std::vector<VarCopyInfo> SystemBase::_var_to_copy

protectedinherited

Definition at line 732 of file SystemBase.h.

Referenced by SystemBase::addVariableToCopy(), and SystemBase::copyVars().

_vars

std::vector<VariableWarehouse> SystemBase::_vars

protectedinherited

Variable warehouses (one for each thread)

Definition at line 704 of file SystemBase.h.

Referenced by NonlinearSystemBase::addBoundaryCondition(), NonlinearSystemBase::addInterfaceKernel(), SystemBase::addScalarVariable(), AuxiliarySystem::addVariable(), SystemBase::addVariable(), AuxiliarySystem::compute(), SystemBase::getFieldVariable(), AuxiliarySystem::getMinQuadratureOrder(), SystemBase::getMinQuadratureOrder(), SystemBase::getScalarVariable(), SystemBase::getScalarVariables(), SystemBase::getVariable(), SystemBase::getVariableNames(), SystemBase::getVariables(), SystemBase::nVariables(), SystemBase::prepare(), SystemBase::prepareFace(), SystemBase::prepareNeighbor(), SystemBase::reinitElem(), SystemBase::reinitElemFace(), SystemBase::reinitNeighbor(), SystemBase::reinitNeighborFace(), SystemBase::reinitNode(), SystemBase::reinitNodeFace(), SystemBase::reinitNodes(), SystemBase::reinitNodesNeighbor(), and SystemBase::reinitScalars().

_vars_to_be_zeroed_on_jacobian

std::vector<std::string> SystemBase::_vars_to_be_zeroed_on_jacobian

protectedinherited

Definition at line 709 of file SystemBase.h.

Referenced by SystemBase::addVariableToZeroOnJacobian(), and SystemBase::zeroVariablesForJacobian().

_vars_to_be_zeroed_on_residual

std::vector<std::string> SystemBase::_vars_to_be_zeroed_on_residual

protectedinherited

Definition at line 708 of file SystemBase.h.

Referenced by SystemBase::addVariableToZeroOnResidual(), and SystemBase::zeroVariablesForResidual().

---

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

• include/systems/DisplacedSystem.h
• src/systems/DisplacedSystem.C