#include <DisplacedSystem.h>
Public Member Functions | |
DisplacedSystem (DisplacedSystem &&)=delete | |
DisplacedSystem & | operator= (DisplacedSystem &&)=delete |
DisplacedSystem (DisplacedProblem &problem, FEProblemBase &fe_problem, SystemBase &undisplaced_system, const std::string &name, Moose::VarKindType var_kind) | |
virtual | ~DisplacedSystem () |
virtual NumericVector< Number > & | getVector (TagID tag_id) override |
Get a raw NumericVector by tag. More... | |
virtual const NumericVector< Number > & | getVector (TagID tag_id) const override |
virtual TagID | residualVectorTag () const override |
virtual TagID | systemMatrixTag () const override |
Return the Matrix Tag ID for System. More... | |
virtual TagID | timeVectorTag () const override |
Ideally, we should not need this API. More... | |
virtual TagID | nonTimeVectorTag () const override |
virtual std::set< TagID > | defaultVectorTags () const override |
Get the default vector tags associated with this system. More... | |
virtual std::set< TagID > | defaultMatrixTags () const override |
Get the default matrix tags associted with this system. More... | |
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 |
Disassociate a given vector from a given tag. More... | |
virtual void | disassociateVectorFromTag (TagID tag) override |
Disassociate any vector that is associated with a given tag. More... | |
virtual void | disassociateDefaultVectorTags () override |
Disassociate the vectors associated with the default vector tags of this system. More... | |
virtual void | associateMatrixToTag (libMesh::SparseMatrix< Number > &matrix, TagID tag) override |
Associate a matrix to a tag. More... | |
virtual void | disassociateMatrixFromTag (libMesh::SparseMatrix< Number > &matrix, TagID tag) override |
Disassociate a matrix from a tag. More... | |
virtual void | disassociateMatrixFromTag (TagID tag) override |
Disassociate any matrix that is associated with a given tag. More... | |
virtual void | disassociateDefaultMatrixTags () override |
Disassociate the matrices associated with the default matrix tags of this system. More... | |
virtual NumericVector< Number > & | getVector (const std::string &name) override |
Get a raw NumericVector by name. More... | |
virtual const NumericVector< Number > & | getVector (const std::string &name) const override |
virtual NumericVector< Number > & | serializedSolution () override |
Returns a reference to a serialized version of the solution vector for this subproblem. More... | |
const NumericVector< Number > *const & | currentSolution () const override |
The solution vector that is currently being operated on. More... | |
NumericVector< Number > * | solutionPreviousNewton () override |
const NumericVector< Number > * | solutionPreviousNewton () const override |
NumericVector< Number > * | solutionUDot () override |
NumericVector< Number > * | solutionUDotDot () override |
NumericVector< Number > * | solutionUDotOld () override |
NumericVector< Number > * | solutionUDotDotOld () override |
const NumericVector< Number > * | solutionUDot () const override |
const NumericVector< Number > * | solutionUDotDot () const override |
const NumericVector< Number > * | solutionUDotOld () const override |
const NumericVector< Number > * | solutionUDotDotOld () const override |
virtual std::vector< Number > & | duDotDus () override |
virtual Number & | duDotDotDu () override |
virtual const Number & | duDotDu (unsigned int var_num=0) const override |
virtual const Number & | duDotDotDu () const override |
virtual void | addDotVectors () override |
Add u_dot, u_dotdot, u_dot_old and u_dotdot_old vectors if requested by the time integrator. More... | |
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 (libMesh::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) const override |
Check if the tagged vector exists in the system. More... | |
virtual bool | hasMatrix (TagID tag_id) const override |
Check if the tagged matrix exists in the system. More... | |
virtual void | initSolutionState () override |
Initializes the solution state. More... | |
virtual NumericVector< Number > & | solutionState (const unsigned int state, Moose::SolutionIterationType iteration_type=Moose::SolutionIterationType::Time) override |
Get a state of the solution (0 = current, 1 = old, 2 = older, etc). More... | |
virtual const NumericVector< Number > & | solutionState (const unsigned int state, Moose::SolutionIterationType iteration_type=Moose::SolutionIterationType::Time) const override |
Get a state of the solution (0 = current, 1 = old, 2 = older, etc). More... | |
virtual void | needSolutionState (const unsigned int state, Moose::SolutionIterationType iteration_type=Moose::SolutionIterationType::Time) override |
Registers that the solution state state is needed. More... | |
virtual bool | hasSolutionState (const unsigned int state, Moose::SolutionIterationType iteration_type=Moose::SolutionIterationType::Time) const override |
Whether or not the system has the solution state (0 = current, 1 = old, 2 = older, etc). More... | |
virtual libMesh::SparseMatrix< Number > & | getMatrix (TagID tag) override |
Get a raw SparseMatrix. More... | |
virtual const libMesh::SparseMatrix< Number > & | getMatrix (TagID tag) const override |
Get a raw SparseMatrix. More... | |
virtual libMesh::System & | sys () |
virtual System & | system () override |
Get the reference to the libMesh system. More... | |
virtual const System & | system () const override |
virtual void | compute (ExecFlagType) override |
Compute time derivatives, auxiliary variables, etc. More... | |
unsigned int | number () const |
Gets the number of this system. More... | |
MooseMesh & | mesh () |
const MooseMesh & | mesh () const |
SubProblem & | subproblem () |
const SubProblem & | subproblem () const |
FEProblemBase & | feProblem () |
const FEProblemBase & | feProblem () const |
void | applyScalingFactors (const std::vector< Real > &inverse_scaling_factors) |
Applies scaling factors to the system's variables. More... | |
bool | computingScalingJacobian () const |
Whether we are computing an initial Jacobian for automatic variable scaling. More... | |
bool | automaticScaling () const |
Getter for whether we are performing automatic scaling. More... | |
void | automaticScaling (bool automatic_scaling) |
Setter for whether we are performing automatic scaling. More... | |
void | setVerboseFlag (const bool &verbose) |
Sets the verbose flag. More... | |
virtual libMesh::DofMap & | dofMap () |
Gets writeable reference to the dof map. More... | |
virtual const libMesh::DofMap & | dofMap () const |
Gets const reference to the dof map. More... | |
virtual void | preInit () |
This is called prior to the libMesh system has been init'd. More... | |
virtual void | postInit () |
virtual void | reinit () |
Reinitialize the system when the degrees of freedom in this system have changed. More... | |
virtual void | initializeObjects () |
Called only once, just before the solve begins so objects can do some precalculations. More... | |
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 | copyPreviousNonlinearSolutions () |
Shifts the solutions backwards in nonlinear iteration history. More... | |
virtual void | restoreSolutions () |
Restore current solutions (call after your solve failed) More... | |
NumericVector< Number > & | solution () |
const NumericVector< Number > & | solution () const |
NumericVector< Number > & | solutionOld () |
const NumericVector< Number > & | solutionOld () const |
NumericVector< Number > & | solutionOlder () |
const NumericVector< Number > & | solutionOlder () const |
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 void | activeAllMatrixTags () |
Make all exsiting matrices ative. More... | |
virtual void | activeMatrixTag (TagID tag) |
Active a matrix for tag. More... | |
virtual bool | matrixTagActive (TagID tag) const |
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... | |
void | flushTaggedMatrices (const std::set< TagID > &tags) |
flushes all matrices associated to tags. More... | |
virtual void | addVariable (const std::string &var_type, const std::string &var_name, InputParameters ¶meters) |
Canonical method for adding a variable. More... | |
virtual bool | isArrayVariable (const std::string &var_name) const |
If a variable is an array variable. More... | |
virtual bool | isScalarVariable (unsigned int var_name) const |
MooseVariableFieldBase & | getVariable (THREAD_ID tid, const std::string &var_name) const |
Gets a reference to a variable of with specified name. More... | |
MooseVariableFieldBase & | getVariable (THREAD_ID tid, unsigned int var_number) const |
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... | |
template<typename T > | |
MooseVariableField< T > & | getActualFieldVariable (THREAD_ID tid, const std::string &var_name) |
Returns a field variable pointer - this includes finite volume variables. More... | |
template<typename T > | |
MooseVariableField< T > & | getActualFieldVariable (THREAD_ID tid, unsigned int var_number) |
Returns a field variable pointer - this includes finite volume variables. More... | |
template<typename T > | |
MooseVariableFV< T > & | getFVVariable (THREAD_ID tid, const std::string &var_name) |
Return a finite volume variable. More... | |
virtual MooseVariableScalar & | getScalarVariable (THREAD_ID tid, const std::string &var_name) const |
Gets a reference to a scalar variable with specified number. More... | |
virtual MooseVariableScalar & | getScalarVariable (THREAD_ID tid, unsigned int var_number) const |
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... | |
unsigned int | nFieldVariables () const |
Get the number of field variables in this system. More... | |
unsigned int | nFVVariables () const |
Get the number of finite volume variables in this system. More... | |
std::size_t | getMaxVarNDofsPerElem () const |
Gets the maximum number of dofs used by any one variable on any one element. More... | |
std::size_t | getMaxVarNDofsPerNode () const |
Gets the maximum number of dofs used by any one variable on any one node. More... | |
void | assignMaxVarNDofsPerElem (std::size_t max_dofs) |
assign the maximum element dofs More... | |
void | assignMaxVarNDofsPerNode (std::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 libMesh::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 | prepareLowerD (THREAD_ID tid) |
Prepare the system for use for lower dimensional elements. 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, THREAD_ID tid) |
Reinit assembly info for a side of an element. More... | |
virtual void | reinitNeighborFace (const Elem *elem, unsigned int side, 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 | reinitLowerD (THREAD_ID tid) |
Compute the values of the variables on the lower dimensional element. 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, bool reinit_for_derivative_reordering=false) |
Reinit scalar varaibles. More... | |
virtual void | addVariableToCopy (const std::string &dest_name, const std::string &source_name, const std::string ×tep) |
Add info about variable that will be copied. More... | |
const std::vector< MooseVariableFieldBase * > & | getVariables (THREAD_ID tid) |
const std::vector< MooseVariableScalar * > & | getScalarVariables (THREAD_ID tid) |
const std::set< SubdomainID > & | getSubdomainsForVar (unsigned int var_number) const |
const std::set< SubdomainID > & | getSubdomainsForVar (const std::string &var_name) const |
Get the block where a variable of this system is defined. More... | |
void | removeVector (const std::string &name) |
Remove a vector from the system with the given name. More... | |
void | removeVector (TagID tag_id) |
Remove a solution length vector from the system with the specified TagID. More... | |
NumericVector< Number > & | addVector (const std::string &vector_name, const bool project, const libMesh::ParallelType type) |
Adds a solution length vector to the system. More... | |
NumericVector< Number > & | addVector (TagID tag, const bool project, const libMesh::ParallelType type) |
Adds a solution length vector to the system with the specified TagID. More... | |
void | closeTaggedVector (const TagID tag) |
Close vector with the given tag. More... | |
void | closeTaggedVectors (const std::set< TagID > &tags) |
Close all vectors for given tags. More... | |
void | zeroTaggedVector (const TagID tag) |
Zero vector with the given tag. More... | |
void | zeroTaggedVectors (const std::set< TagID > &tags) |
Zero all vectors for given tags. More... | |
void | setVariableGlobalDoFs (const std::string &var_name) |
set all the global dof indices for a variable More... | |
const std::vector< dof_id_type > & | getVariableGlobalDoFs () |
Get the global dof indices of a variable, this needs to be called after the indices have been set by setVariableGlobalDoFs More... | |
libMesh::SparseMatrix< Number > & | addMatrix (TagID tag) |
Adds a matrix with a given tag. More... | |
void | removeMatrix (TagID tag) |
Removes a matrix with a given tag. More... | |
virtual const std::string & | name () const |
const std::vector< VariableName > & | getVariableNames () const |
void | getStandardFieldVariableNames (std::vector< VariableName > &std_field_variables) const |
unsigned int | getMaxVariableNumber () const |
Returns the maximum number of all variables on the system. More... | |
virtual void | computeVariables (const NumericVector< Number > &) |
void | copyVars (libMesh::ExodusII_IO &io) |
virtual void | copySolutionsBackwards () |
Copy current solution into old and older. More... | |
void | addTimeIntegrator (const std::string &type, const std::string &name, InputParameters ¶meters) |
bool | hasVarCopy () const |
Whether or not there are variables to be restarted from an Exodus mesh file. More... | |
void | addScalingVector () |
Add the scaling factor vector to the system. More... | |
bool | solutionStatesInitialized () const |
Whether or not the solution states have been initialized via initSolutionState() More... | |
virtual void | initialSetup () |
Setup Functions. More... | |
virtual void | timestepSetup () |
virtual void | customSetup (const ExecFlagType &exec_type) |
virtual void | subdomainSetup () |
virtual void | residualSetup () |
virtual void | jacobianSetup () |
void | clearAllDofIndices () |
Clear all dof indices from moose variables. More... | |
void | setActiveVariableCoupleableVectorTags (const std::set< TagID > &vtags, THREAD_ID tid) |
Set the active vector tags for the variables. More... | |
void | setActiveScalarVariableCoupleableVectorTags (const std::set< TagID > &vtags, THREAD_ID tid) |
Set the active vector tags for the scalar variables. More... | |
Moose::VarKindType | varKind () const |
const std::vector< std::unique_ptr< NumericVector< Number > > > & | gradientContainer () const |
Reference to the container vector which hold gradients at dofs (if it can be interpreted). More... | |
void | copyTimeIntegrators (const SystemBase &other_sys) |
Copy time integrators from another system. More... | |
const TimeIntegrator & | getTimeIntegrator (const unsigned int var_num) const |
Retrieve the time integrator that integrates the given variable's equation. More... | |
const TimeIntegrator * | queryTimeIntegrator (const unsigned int var_num) const |
Retrieve the time integrator that integrates the given variable's equation. More... | |
const std::vector< std::shared_ptr< TimeIntegrator > > & | getTimeIntegrators () |
std::string | prefix () const |
const Parallel::Communicator & | comm () const |
processor_id_type | n_processors () const |
processor_id_type | processor_id () const |
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 |
Public Attributes | |
const ConsoleStream | _console |
An instance of helper class to write streams to the Console objects. More... | |
Protected Member Functions | |
NumericVector< Number > & | solutionInternal () const override |
Internal getter for solution owned by libMesh. More... | |
Protected Attributes | |
SystemBase & | _undisplaced_system |
libMesh::System & | _sys |
SubProblem & | _subproblem |
The subproblem for whom this class holds variable data, etc; this can either be the governing finite element/volume problem or a subjugate displaced problem. More... | |
FEProblemBase & | _fe_problem |
the governing finite element/volume problem More... | |
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... | |
unsigned int | _max_var_number |
Maximum variable number. More... | |
std::vector< std::string > | _vars_to_be_zeroed_on_residual |
std::vector< std::string > | _vars_to_be_zeroed_on_jacobian |
NumericVector< Number > * | _u_dot |
solution vector for u^dot More... | |
NumericVector< Number > * | _u_dotdot |
solution vector for u^dotdot More... | |
NumericVector< Number > * | _u_dot_old |
old solution vector for u^dot More... | |
NumericVector< Number > * | _u_dotdot_old |
old solution vector for u^dotdot More... | |
std::vector< Real > | _du_dot_du |
Derivative of time derivative of u with respect to uj. More... | |
Real | _du_dotdot_du |
std::vector< NumericVector< Number > * > | _tagged_vectors |
Tagged vectors (pointer) More... | |
std::vector< libMesh::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::vector< std::shared_ptr< TimeIntegrator > > | _time_integrators |
Time integrator. More... | |
std::vector< std::vector< MooseVariableFieldBase * > > | _numbered_vars |
Map variable number to its pointer. More... | |
bool | _automatic_scaling |
Whether to automatically scale the variables. More... | |
bool | _verbose |
True if printing out additional information. More... | |
bool | _solution_states_initialized |
Whether or not the solution states have been initialized. More... | |
std::vector< dof_id_type > | _var_all_dof_indices |
Container for the dof indices of a given variable. More... | |
std::unique_ptr< NumericVector< Number > > | _serialized_solution |
Serialized version of the solution vector, or nullptr if a serialized solution is not needed. More... | |
std::vector< std::unique_ptr< NumericVector< Number > > > | _raw_grad_container |
A cache for storing gradients at dof locations. More... | |
const Parallel::Communicator & | _communicator |
Definition at line 21 of file DisplacedSystem.h.
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delete |
DisplacedSystem::DisplacedSystem | ( | DisplacedProblem & | problem, |
FEProblemBase & | fe_problem, | ||
SystemBase & | undisplaced_system, | ||
const std::string & | name, | ||
Moose::VarKindType | var_kind | ||
) |
Definition at line 18 of file DisplacedSystem.C.
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virtual |
Definition at line 35 of file DisplacedSystem.C.
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virtualinherited |
Make all exsiting matrices ative.
Definition at line 1137 of file SystemBase.C.
Referenced by NonlinearSystemBase::computeJacobianInternal(), LinearSystem::computeLinearSystemInternal(), NonlinearSystemBase::computeResidualAndJacobianInternal(), and NonlinearSystemBase::computeResidualTags().
Active a matrix for tag.
Definition at line 1102 of file SystemBase.C.
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inlineoverridevirtual |
Add u_dot, u_dotdot, u_dot_old and u_dotdot_old vectors if requested by the time integrator.
Reimplemented from SystemBase.
Definition at line 154 of file DisplacedSystem.h.
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inherited |
Adds a matrix with a given tag.
tag_name | The name of the tag |
Definition at line 562 of file SystemBase.C.
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inherited |
Add the scaling factor vector to the system.
Definition at line 1512 of file SystemBase.C.
Referenced by MooseVariableBase::initialSetup().
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inherited |
Definition at line 1625 of file SystemBase.C.
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virtualinherited |
Canonical method for adding a variable.
var_type | the type of the variable, e.g. MooseVariableScalar |
var_name | the variable name, e.g. 'u' |
params | the InputParameters from which to construct the variable |
Reimplemented in AuxiliarySystem.
Definition at line 710 of file SystemBase.C.
Referenced by AuxiliarySystem::addVariable().
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virtualinherited |
Add info about variable that will be copied.
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 1177 of file SystemBase.C.
Referenced by CopyNodalVarsAction::act(), and PhysicsBase::copyVariablesFromMesh().
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inlineoverridevirtual |
Adds this variable to the list of variables to be zeroed during each jacobian evaluation.
var_name | The name of the variable to be zeroed. |
Reimplemented from SystemBase.
Definition at line 197 of file DisplacedSystem.h.
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inlineoverridevirtual |
Adds this variable to the list of variables to be zeroed during each residual evaluation.
var_name | The name of the variable to be zeroed. |
Reimplemented from SystemBase.
Definition at line 188 of file DisplacedSystem.h.
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inherited |
Adds a solution length vector to the system.
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. |
Referenced by SystemBase::addDotVectors(), SystemBase::addScalingVector(), NonlinearTimeIntegratorInterface::addVector(), SecantSolve::allocateStorage(), SteffensenSolve::allocateStorage(), PicardSolve::allocateStorage(), NonlinearSystemBase::getResidualNonTimeVector(), NonlinearSystemBase::getResidualTimeVector(), CentralDifference::initialSetup(), SystemBase::needSolutionState(), NonlinearSystemBase::residualGhosted(), and SystemBase::saveOldSolutions().
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inherited |
Adds a solution length vector to the system with the specified TagID.
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. |
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inherited |
Applies scaling factors to the system's variables.
inverse_scaling_factors | A vector containing the inverse of each variable's scaling factor, e.g. 1 / scaling_factor |
Definition at line 1462 of file SystemBase.C.
Referenced by NonlinearSystemBase::computeScaling().
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inlineinherited |
assign the maximum element dofs
Definition at line 598 of file SystemBase.h.
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inlineinherited |
assign the maximum node dofs
Definition at line 603 of file SystemBase.h.
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inlineoverridevirtual |
Associate a matrix to a tag.
Reimplemented from SystemBase.
Definition at line 83 of file DisplacedSystem.h.
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inlineoverridevirtual |
Associate a vector for a given tag.
Reimplemented from SystemBase.
Definition at line 63 of file DisplacedSystem.h.
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inlineoverridevirtual |
Will modify the send_list to add all of the extra ghosted dofs for this system.
Reimplemented from SystemBase.
Definition at line 169 of file DisplacedSystem.h.
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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 178 of file DisplacedSystem.h.
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inlineinherited |
Getter for whether we are performing automatic scaling.
Definition at line 122 of file SystemBase.h.
Referenced by SubProblem::automaticScaling().
|
inlineinherited |
Setter for whether we are performing automatic scaling.
automatic_scaling | A boolean representing whether we are performing automatic scaling |
Definition at line 128 of file SystemBase.h.
|
inherited |
Clear all dof indices from moose variables.
Definition at line 1580 of file SystemBase.C.
Referenced by SubProblem::clearAllDofIndices().
Close all matrices associated the tags.
Definition at line 1043 of file SystemBase.C.
Referenced by NonlinearSystemBase::computeJacobianInternal(), LinearSystem::computeLinearSystemInternal(), and NonlinearSystemBase::computeResidualAndJacobianTags().
Close vector with the given tag.
Definition at line 641 of file SystemBase.C.
Referenced by SystemBase::closeTaggedVectors().
Close all vectors for given tags.
Definition at line 659 of file SystemBase.C.
Referenced by NonlinearSystemBase::computeResidualAndJacobianTags(), NonlinearSystemBase::computeResidualTags(), NonlinearSystem::stopSolve(), and LinearSystem::stopSolve().
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inlineoverridevirtual |
Compute time derivatives, auxiliary variables, etc.
type | Our current execution stage |
Implements SystemBase.
Definition at line 249 of file DisplacedSystem.h.
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inlinevirtualinherited |
Definition at line 870 of file SystemBase.h.
|
inherited |
Whether we are computing an initial Jacobian for automatic variable scaling.
Definition at line 1519 of file SystemBase.C.
Referenced by Assembly::addJacobianBlock(), Assembly::addJacobianBlockNonlocal(), Kernel::computeJacobian(), VectorKernel::computeJacobian(), EigenKernel::computeJacobian(), and FEProblemBase::computeJacobianTags().
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virtualinherited |
Shifts the solutions backwards in time.
Definition at line 1288 of file SystemBase.C.
Referenced by SystemBase::copySolutionsBackwards(), and EigenExecutionerBase::inversePowerIteration().
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virtualinherited |
Shifts the solutions backwards in nonlinear iteration history.
Definition at line 1271 of file SystemBase.C.
Referenced by SystemBase::copySolutionsBackwards().
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virtualinherited |
Copy current solution into old and older.
Definition at line 1260 of file SystemBase.C.
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inherited |
Copy time integrators from another system.
Definition at line 1634 of file SystemBase.C.
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inherited |
Definition at line 1185 of file SystemBase.C.
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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 111 of file DisplacedSystem.h.
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virtualinherited |
Reimplemented in NonlinearSystemBase, and AuxiliarySystem.
Definition at line 1552 of file SystemBase.C.
Referenced by AuxiliarySystem::customSetup(), and NonlinearSystemBase::customSetup().
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virtualinherited |
Make matrices inactive.
Definition at line 1126 of file SystemBase.C.
Referenced by NonlinearSystemBase::computeResidualTags(), and NonlinearSystemBase::setInitialSolution().
deactive a matrix for tag
Definition at line 1114 of file SystemBase.C.
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inlineoverridevirtual |
Get the default matrix tags associted with this system.
Reimplemented from SystemBase.
Definition at line 58 of file DisplacedSystem.h.
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inlineoverridevirtual |
Get the default vector tags associated with this system.
Reimplemented from SystemBase.
Definition at line 54 of file DisplacedSystem.h.
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inlineoverridevirtual |
Disassociate the matrices associated with the default matrix tags of this system.
Reimplemented from SystemBase.
Definition at line 98 of file DisplacedSystem.h.
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inlineoverridevirtual |
Disassociate the vectors associated with the default vector tags of this system.
Reimplemented from SystemBase.
Definition at line 78 of file DisplacedSystem.h.
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inlineoverridevirtual |
Disassociate a matrix from a tag.
Reimplemented from SystemBase.
Definition at line 88 of file DisplacedSystem.h.
Disassociate any matrix that is associated with a given tag.
Reimplemented from SystemBase.
Definition at line 93 of file DisplacedSystem.h.
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inlineoverridevirtual |
Disassociate a given vector from a given tag.
Reimplemented from SystemBase.
Definition at line 68 of file DisplacedSystem.h.
Disassociate any vector that is associated with a given tag.
Reimplemented from SystemBase.
Definition at line 73 of file DisplacedSystem.h.
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virtualinherited |
Gets writeable reference to the dof map.
Definition at line 1165 of file SystemBase.C.
Referenced by NonlinearSystemBase::assembleScalingVector(), MooseApp::attachRelationshipManagers(), SystemBase::augmentSendList(), NonlinearSystemBase::augmentSparsity(), NonlinearSystemBase::computeScaling(), NonlinearSystemBase::findImplicitGeometricCouplingEntries(), Adaptivity::init(), NonlinearEigenSystem::initializeCondensedMatrices(), ActivateElementsUserObjectBase::initSolutions(), PNGOutput::makeMeshFunc(), GhostingUserObject::meshChanged(), TableOutput::outputScalarVariables(), Exodus::outputScalarVariables(), and ElementSubdomainModifierBase::setOldAndOlderSolutions().
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virtualinherited |
Gets const reference to the dof map.
Definition at line 1171 of file SystemBase.C.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 150 of file DisplacedSystem.h.
|
inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 152 of file DisplacedSystem.h.
Reimplemented from SystemBase.
Definition at line 296 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 149 of file DisplacedSystem.h.
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inlineinherited |
Definition at line 103 of file SystemBase.h.
Referenced by DMMooseGetEmbedding_Private(), and DMSetUp_Moose_Pre().
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inlineinherited |
Definition at line 104 of file SystemBase.h.
flushes all matrices associated to tags.
Flush assembles the matrix but doesn't shrink memory allocation
Definition at line 1051 of file SystemBase.C.
|
inherited |
Returns a field variable pointer - this includes finite volume variables.
Definition at line 117 of file SystemBase.C.
Referenced by BoundsBase::BoundsBase(), Assembly::copyFaceShapes(), Assembly::copyNeighborShapes(), and Assembly::copyShapes().
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inherited |
Returns a field variable pointer - this includes finite volume variables.
Definition at line 138 of file SystemBase.C.
|
inherited |
Gets a reference to a variable of with specified name.
This excludes and cannot return finite volume variables.
tid | Thread id |
var_name | variable name |
Definition at line 110 of file SystemBase.C.
Referenced by Marker::getMarkerValue().
|
inherited |
Gets a reference to a variable with specified number.
This excludes and cannot return finite volume variables.
tid | Thread id |
var_number | libMesh variable number |
Definition at line 131 of file SystemBase.C.
|
inherited |
Return a finite volume variable.
Definition at line 124 of file SystemBase.C.
|
inlineoverridevirtual |
Get a raw SparseMatrix.
Reimplemented from SystemBase.
Definition at line 235 of file DisplacedSystem.h.
|
inlineoverridevirtual |
Get a raw SparseMatrix.
Reimplemented from SystemBase.
Definition at line 239 of file DisplacedSystem.h.
|
inlineinherited |
Returns the maximum number of all variables on the system.
Definition at line 868 of file SystemBase.h.
|
inlineinherited |
Gets the maximum number of dofs used by any one variable on any one element.
Definition at line 586 of file SystemBase.h.
Referenced by Moose::globalDofIndexToDerivative().
|
inlineinherited |
Gets the maximum number of dofs used by any one variable on any one node.
Definition at line 593 of file SystemBase.h.
|
virtualinherited |
Get minimal quadrature order needed for integrating variables in this system.
Reimplemented in AuxiliarySystem.
Definition at line 240 of file SystemBase.C.
|
virtualinherited |
Gets a reference to a scalar variable with specified number.
tid | Thread id |
var_name | A string which is the name of the variable to get. |
Definition at line 144 of file SystemBase.C.
Referenced by Assembly::addJacobianOffDiagScalar(), ODEKernel::computeOffDiagJacobianScalar(), VectorKernel::computeOffDiagJacobianScalar(), ArrayKernel::computeOffDiagJacobianScalar(), IntegratedBC::computeOffDiagJacobianScalar(), VectorIntegratedBC::computeOffDiagJacobianScalar(), ArrayIntegratedBC::computeOffDiagJacobianScalar(), Kernel::computeOffDiagJacobianScalar(), ScalarLagrangeMultiplier::computeOffDiagJacobianScalar(), MortarScalarBase::computeOffDiagJacobianScalar(), KernelScalarBase::computeOffDiagJacobianScalarLocal(), KernelScalarBase::computeScalarOffDiagJacobianScalar(), MortarScalarBase::computeScalarOffDiagJacobianScalar(), DMMooseSetVariables(), Assembly::init(), ReferenceResidualConvergence::initialSetup(), and NonlinearSystemBase::setupScalingData().
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virtualinherited |
Gets a reference to a variable with specified number.
tid | Thread id |
var_number | libMesh variable number |
Definition at line 153 of file SystemBase.C.
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inlineinherited |
Definition at line 757 of file SystemBase.h.
Referenced by Assembly::addResidualScalar(), ODEKernel::computeJacobian(), ComputeFullJacobianThread::computeOnBoundary(), ComputeFullJacobianThread::computeOnElement(), AuxiliarySystem::computeScalarVars(), Assembly::init(), SystemBase::initSolutionState(), NonlinearThread::onElement(), Assembly::prepareOffDiagScalar(), and Assembly::prepareScalar().
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inherited |
|
inlineinherited |
Definition at line 762 of file SystemBase.h.
Referenced by NonlinearSystemBase::checkKernelCoverage(), and SystemBase::getSubdomainsForVar().
|
inherited |
Get the block where a variable of this system is defined.
var_name | The name of the variable |
Definition at line 1674 of file SystemBase.C.
|
inherited |
Retrieve the time integrator that integrates the given variable's equation.
Definition at line 1650 of file SystemBase.C.
Referenced by AB2PredictorCorrector::estimateTimeError().
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inherited |
Definition at line 1662 of file SystemBase.C.
|
inherited |
Gets a reference to a variable of with specified name.
tid | Thread id |
var_name | variable name |
Definition at line 89 of file SystemBase.C.
Referenced by AdaptivityAction::act(), Assembly::addJacobianBlockNonlocal(), FEProblemBase::addJacobianBlockTags(), NonlocalKernel::computeNonlocalOffDiagJacobian(), NonlocalIntegratedBC::computeNonlocalOffDiagJacobian(), Assembly::copyFaceShapes(), Assembly::copyNeighborShapes(), Assembly::copyShapes(), SystemBase::copyVars(), DMMooseSetVariables(), FieldSplitPreconditioner::FieldSplitPreconditioner(), FiniteDifferencePreconditioner::FiniteDifferencePreconditioner(), NodeElemConstraint::getConnectedDofIndices(), NodeFaceConstraint::getConnectedDofIndices(), SystemBase::getSubdomainsForVar(), ResidualObject::getVariable(), SubProblem::getVariableHelper(), Assembly::init(), NodalNormalsPreprocessor::initialize(), ExplicitTimeIntegrator::initialSetup(), ReferenceResidualConvergence::initialSetup(), LinearSystem::initialSetup(), Assembly::initNonlocalCoupling(), PNGOutput::makeMeshFunc(), MooseStaticCondensationPreconditioner::MooseStaticCondensationPreconditioner(), UpdateErrorVectorsThread::onElement(), Assembly::prepareBlock(), Assembly::prepareBlockNonlocal(), AddPeriodicBCAction::setPeriodicVars(), NonlinearSystemBase::setupScalingData(), and VariableCondensationPreconditioner::VariableCondensationPreconditioner().
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inherited |
Gets a reference to a variable with specified number.
tid | Thread id |
var_number | libMesh variable number |
Definition at line 99 of file SystemBase.C.
|
virtualinherited |
Get the block where a variable of this system is defined.
var_number | The number of the variable |
Definition at line 163 of file SystemBase.C.
Referenced by PhysicsBasedPreconditioner::addSystem().
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inlineinherited |
Get the global dof indices of a variable, this needs to be called after the indices have been set by setVariableGlobalDoFs
Definition at line 843 of file SystemBase.h.
|
inlineinherited |
Definition at line 861 of file SystemBase.h.
Referenced by MooseEigenSystem::buildSystemDoFIndices(), NonlinearSystemBase::checkKernelCoverage(), MFEMProblem::getAuxVariableNames(), SystemBase::hasVariable(), SystemBase::isArrayVariable(), AddPeriodicBCAction::setPeriodicVars(), and SingleMatrixPreconditioner::SingleMatrixPreconditioner().
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inlineinherited |
Definition at line 752 of file SystemBase.h.
Referenced by Assembly::addJacobianOffDiagScalar(), Assembly::addResidual(), Assembly::addResidualLower(), Assembly::addResidualNeighbor(), Assembly::cacheResidual(), Assembly::cacheResidualLower(), Assembly::cacheResidualNeighbor(), ComputeFullJacobianThread::computeOnBoundary(), ComputeFullJacobianThread::computeOnElement(), Assembly::init(), Assembly::initNonlocalCoupling(), SystemBase::initSolutionState(), ComputeLinearFVGreenGaussGradientFaceThread::operator()(), Assembly::prepareLowerD(), Assembly::prepareNeighbor(), Assembly::prepareOffDiagScalar(), Assembly::prepareResidual(), Assembly::setResidual(), and Assembly::setResidualNeighbor().
Get a raw NumericVector by tag.
Reimplemented from SystemBase.
Definition at line 34 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 38 of file DisplacedSystem.h.
|
overridevirtual |
Get a raw NumericVector by name.
Get a raw NumericVector with the given name.
Reimplemented from SystemBase.
Definition at line 38 of file DisplacedSystem.C.
|
overridevirtual |
Reimplemented from SystemBase.
Definition at line 47 of file DisplacedSystem.C.
|
inlineinherited |
Reference to the container vector which hold gradients at dofs (if it can be interpreted).
Mainly used for finite volume systems.
Definition at line 931 of file SystemBase.h.
|
inlineoverridevirtual |
Check if the tagged matrix exists in the system.
Reimplemented from SystemBase.
Definition at line 215 of file DisplacedSystem.h.
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virtualinherited |
Definition at line 859 of file SystemBase.C.
Referenced by MortarScalarBase::computeJacobian(), NonlinearSystemBase::computeJacobianInternal(), ComputeFullJacobianThread::computeOnBoundary(), ComputeFullJacobianThread::computeOnElement(), SystemBase::copyVars(), ExplicitTimeIntegrator::initialSetup(), NonlinearEigenSystem::postAddResidualObject(), AddPeriodicBCAction::setPeriodicVars(), and NonlinearSystemBase::setupScalingData().
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inlineoverridevirtual |
Whether or not the system has the solution state (0 = current, 1 = old, 2 = older, etc).
Reimplemented from SystemBase.
Definition at line 289 of file DisplacedSystem.h.
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inlineinherited |
Whether or not there are variables to be restarted from an Exodus mesh file.
Definition at line 884 of file SystemBase.h.
|
virtualinherited |
Query a system for a variable.
var_name | name of the variable |
Definition at line 834 of file SystemBase.C.
Referenced by ADDGKernel::ADDGKernel(), ArrayDGKernel::ArrayDGKernel(), SystemBase::copyVars(), DGKernel::DGKernel(), DMMooseSetVariables(), FEProblemBase::duplicateVariableCheck(), SubProblem::getVariableHelper(), SubProblem::hasAuxiliaryVariable(), ExplicitTimeIntegrator::initialSetup(), InterfaceKernelTempl< T >::InterfaceKernelTempl(), PNGOutput::makeMeshFunc(), MultiAppVariableValueSamplePostprocessorTransfer::MultiAppVariableValueSamplePostprocessorTransfer(), NonlinearSystemBase::setupScalingData(), and Coupleable::writableCoupledValue().
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inlineoverridevirtual |
Check if the tagged vector exists in the system.
Reimplemented from SystemBase.
Definition at line 210 of file DisplacedSystem.h.
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inherited |
Check if the named vector exists in the system.
Definition at line 907 of file SystemBase.C.
Referenced by FEProblemBase::addCachedResidualDirectly(), Assembly::addCachedResiduals(), Assembly::addResidual(), Assembly::addResidualLower(), Assembly::addResidualNeighbor(), Assembly::addResidualScalar(), NonlinearSystemBase::assembleScalingVector(), Assembly::cacheResidual(), Assembly::cacheResidualLower(), Assembly::cacheResidualNeighbor(), SystemBase::closeTaggedVector(), FEProblemBase::computeBounds(), NonlinearSystemBase::computeResidualTags(), CentralDifference::computeTimeDerivatives(), SystemBase::getVector(), hasVector(), MooseVariableScalar::reinit(), SystemBase::removeVector(), SubProblem::selectVectorTagsFromSystem(), NonlinearSystemBase::setPreviousNewtonSolution(), TaggingInterface::setResidual(), SystemBase::solutionPreviousNewton(), and SystemBase::zeroTaggedVector().
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inlinevirtualinherited |
Called only once, just before the solve begins so objects can do some precalculations.
Definition at line 173 of file SystemBase.h.
|
virtualinherited |
Setup Functions.
Reimplemented in NonlinearSystemBase, LinearSystem, and AuxiliarySystem.
Definition at line 1525 of file SystemBase.C.
Referenced by AuxiliarySystem::initialSetup(), LinearSystem::initialSetup(), and NonlinearSystemBase::initialSetup().
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inlineoverridevirtual |
Initializes the solution state.
Reimplemented from SystemBase.
Definition at line 262 of file DisplacedSystem.h.
|
virtualinherited |
If a variable is an array variable.
Definition at line 847 of file SystemBase.C.
|
virtualinherited |
Definition at line 868 of file SystemBase.C.
Referenced by Assembly::init(), ReferenceResidualConvergence::initialSetup(), and Assembly::initNonlocalCoupling().
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virtualinherited |
Reimplemented in NonlinearSystemBase, LinearSystem, and AuxiliarySystem.
Definition at line 1573 of file SystemBase.C.
Referenced by AuxiliarySystem::jacobianSetup(), and NonlinearSystemBase::jacobianSetup().
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virtualinherited |
If or not a matrix tag is active.
Definition at line 1151 of file SystemBase.C.
|
inlineinherited |
Definition at line 99 of file SystemBase.h.
Referenced by CreateDisplacedProblemAction::addProxyRelationshipManagers(), DMMooseGetEmbedding_Private(), DMSetUp_Moose_Pre(), SolutionIC::initialSetup(), ComputeNodalUserObjectsThread::onNode(), ComputeNodalKernelsThread::onNode(), and ComputeNodalKernelJacobiansThread::onNode().
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inlineinherited |
Definition at line 100 of file SystemBase.h.
|
virtualinherited |
Definition at line 1330 of file SystemBase.C.
Referenced by NonlinearSystemBase::addBoundaryCondition(), NonlinearSystemBase::addConstraint(), NonlinearSystemBase::addDamper(), NonlinearSystemBase::addDGKernel(), NonlinearSystemBase::addDiracKernel(), NonlinearSystemBase::addHDGKernel(), NonlinearSystemBase::addInterfaceKernel(), MooseEigenSystem::addKernel(), AuxiliarySystem::addKernel(), NonlinearSystemBase::addKernel(), SystemBase::addMatrix(), NonlinearSystemBase::addNodalKernel(), AuxiliarySystem::addScalarKernel(), NonlinearSystemBase::addScalarKernel(), NonlinearSystemBase::addSplit(), SystemBase::addTimeIntegrator(), AuxiliarySystem::addVariable(), SystemBase::addVariable(), DiffusionLHDGAssemblyHelper::checkCoupling(), SystemBase::closeTaggedVector(), LinearSystem::computeGradients(), LinearSystem::computeLinearSystemTags(), DisplacedProblem::DisplacedProblem(), SystemBase::getMatrix(), NonlinearSystemBase::getSplit(), getVector(), SystemBase::getVector(), SystemBase::hasVector(), MooseStaticCondensationPreconditioner::initialSetup(), LinearSystem::initialSetup(), Moose::PetscSupport::petscSetDefaults(), NonlinearEigenSystem::postAddResidualObject(), SystemBase::removeMatrix(), SystemBase::removeVector(), SystemBase::solutionState(), LinearSystem::solve(), LinearTimeIntegratorInterface::timeDerivativeMatrixContribution(), LinearTimeIntegratorInterface::timeDerivativeRHSContribution(), and SystemBase::zeroTaggedVector().
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inlineoverridevirtual |
Registers that the solution state state
is needed.
Reimplemented from SystemBase.
Definition at line 282 of file DisplacedSystem.h.
|
inherited |
Get the number of field variables in this system.
Definition at line 883 of file SystemBase.C.
Referenced by SystemBase::nVariables().
|
inherited |
Get the number of finite volume variables in this system.
Definition at line 893 of file SystemBase.C.
|
inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 52 of file DisplacedSystem.h.
|
inherited |
Gets the number of this system.
Definition at line 1159 of file SystemBase.C.
Referenced by SetupResidualDebugAction::act(), FEProblemBase::addCachedResidualDirectly(), FEProblemBase::addJacobian(), FEProblemBase::addJacobianBlockTags(), FEProblemBase::addJacobianLowerD(), FEProblemBase::addJacobianNeighbor(), FEProblemBase::addJacobianNeighborLowerD(), FEProblemBase::addJacobianOffDiagScalar(), FEProblemBase::addJacobianScalar(), FEProblemBase::addResidual(), FEProblemBase::addResidualLower(), FEProblemBase::addResidualNeighbor(), FEProblemBase::addResidualScalar(), SystemBase::addScalingVector(), ADKernelTempl< T >::ADKernelTempl(), ElementSubdomainModifierBase::applyIC(), ArrayKernel::ArrayKernel(), NonlinearSystemBase::assembleScalingVector(), NonlinearEigenSystem::attachPreconditioner(), DiffusionLHDGAssemblyHelper::checkCoupling(), SolverSystem::compute(), MooseVariableScalar::computeAD(), FEProblemBase::computeBounds(), Assembly::computeFaceMap(), InternalSideIndicatorBase::computeIndicator(), ArrayNodalBC::computeJacobian(), VectorNodalBC::computeJacobian(), NodalBC::computeJacobian(), FVBoundaryScalarLagrangeMultiplierConstraint::computeJacobian(), FVFluxBC::computeJacobian(), FVFluxKernel::computeJacobian(), FVInterfaceKernel::computeJacobian(), FEProblemBase::computeJacobianBlock(), NonlinearSystemBase::computeJacobianInternal(), FEProblemBase::computeJacobianTags(), LinearSystem::computeLinearSystemInternal(), FEProblemBase::computeNearNullSpace(), NonlinearSystemBase::computeNodalBCsResidualAndJacobian(), FEProblemBase::computeNullSpace(), VectorNodalBC::computeOffDiagJacobian(), ArrayNodalBC::computeOffDiagJacobian(), NodalBC::computeOffDiagJacobian(), NodalKernel::computeOffDiagJacobian(), ComputeFullJacobianThread::computeOnBoundary(), ComputeFullJacobianThread::computeOnElement(), ComputeFullJacobianThread::computeOnInterface(), ComputeFullJacobianThread::computeOnInternalFace(), FEProblemBase::computePostCheck(), FVOrthogonalBoundaryDiffusion::computeQpResidual(), FVBoundaryScalarLagrangeMultiplierConstraint::computeResidual(), FVFluxKernel::computeResidual(), FVInterfaceKernel::computeResidual(), Kernel::computeResidualAndJacobian(), NodalBC::computeResidualAndJacobian(), IntegratedBC::computeResidualAndJacobian(), FEProblemBase::computeResidualAndJacobian(), NonlinearSystemBase::computeResidualAndJacobianInternal(), NonlinearSystemBase::computeResidualInternal(), FEProblemBase::computeResidualL2Norm(), NonlinearSystemBase::computeResidualTags(), NonlinearSystemBase::computeScaling(), Assembly::computeSinglePointMapAD(), FEProblemBase::computeTransposeNullSpace(), DebugResidualAux::computeValue(), NearestNodeValueAux::computeValue(), SlepcEigenSolverConfiguration::configure_solver(), NonlinearSystemBase::constraintJacobians(), LinearSystem::containsTimeKernel(), Coupleable::coupled(), FEProblemBase::currentLinearSysNum(), FEProblemBase::currentNlSysNum(), PseudoTimestep::currentResidualNorm(), ComputeResidualThread::determineObjectWarehouses(), ComputeResidualAndJacobianThread::determineObjectWarehouses(), Moose::doDerivatives(), VariableResidual::execute(), GreaterThanLessThanPostprocessor::execute(), NodalNormalsCorner::execute(), NodalNormalsEvaluator::execute(), NodalNormalsPreprocessor::execute(), ExplicitTimeIntegrator::ExplicitTimeIntegrator(), InternalSideIndicatorBase::finalize(), NumNonlinearIterations::finalize(), BoundsBase::getDoFIndex(), NonlinearSystemBase::getNodeDofs(), NonlinearEigenSystem::getSNES(), SystemBase::getSubdomainsForVar(), NumLinearIterations::getValue(), NumResidualEvaluations::getValue(), Residual::getValue(), Moose::globalDofIndexToDerivative(), FVBoundaryCondition::hasFaceSide(), ExplicitTimeIntegrator::init(), ExplicitTimeIntegrator::initialSetup(), NonlinearSystemBase::initialSetup(), ActivateElementsUserObjectBase::initSolutions(), EigenExecutionerBase::inversePowerIteration(), Kernel::Kernel(), Moose::SlepcSupport::mooseSlepcEigenFormFunctionA(), Moose::SlepcSupport::mooseSlepcEigenFormFunctionAB(), Moose::SlepcSupport::mooseSlepcEigenFormFunctionB(), Moose::SlepcSupport::mooseSlepcEigenFormJacobianA(), MooseStaticCondensationPreconditioner::MooseStaticCondensationPreconditioner(), MooseVariableInterface< Real >::MooseVariableInterface(), EigenExecutionerBase::nonlinearSolve(), ComputeDiracThread::onElement(), ComputeNodalKernelBCJacobiansThread::onNode(), ComputeNodalKernelJacobiansThread::onNode(), VariableResidualNormsDebugOutput::output(), Moose::PetscSupport::petscLinearConverged(), Moose::PetscSupport::petscNonlinearConverged(), PhysicsBasedPreconditioner::PhysicsBasedPreconditioner(), PointwiseRenormalizeVector::PointwiseRenormalizeVector(), ComputeJacobianThread::postElement(), FEProblemBase::prepareAssembly(), SystemBase::prepareFace(), FEProblemBase::prepareFaceShapes(), FEProblemBase::prepareNeighborShapes(), FEProblemBase::prepareShapes(), FEProblemBase::reinitDirac(), FEProblemBase::reinitOffDiagScalars(), NonlinearSystem::residualAndJacobianTogether(), FEProblemBase::setResidual(), FEProblemBase::setResidualNeighbor(), PhysicsBasedPreconditioner::setup(), FVInterfaceKernel::setupData(), NonlinearSystemBase::shouldEvaluatePreSMOResidual(), ActuallyExplicitEuler::solve(), NonlinearEigenSystem::solve(), LStableDirk2::solve(), LStableDirk3::solve(), ImplicitMidpoint::solve(), ExplicitTVDRK2::solve(), AStableDirk4::solve(), LStableDirk4::solve(), ExplicitRK2::solve(), ExplicitSSPRungeKutta::solveStage(), NonlinearThread::subdomainChanged(), UserObject::systemNumber(), MultiAppDofCopyTransfer::transferDofObject(), FVFluxBC::uOnGhost(), FVFluxBC::uOnUSub(), FVFluxBC::updateCurrentFace(), and MortarConstraintBase::zeroInactiveLMDofs().
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virtualinherited |
Get the number of variables in this system.
Definition at line 874 of file SystemBase.C.
Referenced by AdaptivityAction::act(), FieldSplitPreconditioner::FieldSplitPreconditioner(), FiniteDifferencePreconditioner::FiniteDifferencePreconditioner(), NonlinearSystemBase::getNodeDofs(), Assembly::init(), ExplicitTimeIntegrator::initialSetup(), MaxVarNDofsPerElem::onElement(), MaxVarNDofsPerNode::onNode(), PhysicsBasedPreconditioner::PhysicsBasedPreconditioner(), SingleMatrixPreconditioner::SingleMatrixPreconditioner(), and AuxiliarySystem::variableWiseRelativeSolutionDifferenceNorm().
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delete |
|
inlinevirtualinherited |
Reimplemented in NonlinearEigenSystem.
Definition at line 162 of file SystemBase.h.
Referenced by NonlinearEigenSystem::postInit().
|
inherited |
Definition at line 1680 of file SystemBase.C.
Referenced by MoosePreconditioner::initialSetup().
|
inlinevirtualinherited |
This is called prior to the libMesh system has been init'd.
MOOSE system wrappers can use this method to add vectors and matrices to the libMesh system
Reimplemented in NonlinearSystemBase, and SolverSystem.
Definition at line 156 of file SystemBase.h.
Referenced by SolverSystem::preInit().
Prepare the system for use.
tid | ID of the thread |
Definition at line 255 of file SystemBase.C.
Referenced by SubProblem::reinitElemFaceRef().
Prepare the system for use on sides.
This will try to reuse the preparation done on the element.
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 278 of file SystemBase.C.
Prepare the system for use for lower dimensional elements.
tid | ID of the thread |
Definition at line 331 of file SystemBase.C.
Referenced by SubProblem::reinitLowerDElem().
Prepare the system for use.
tid | ID of the thread |
Definition at line 323 of file SystemBase.C.
Referenced by SubProblem::reinitNeighborFaceRef().
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inherited |
Retrieve the time integrator that integrates the given variable's equation.
If no suitable time integrator is found (this could happen for instance if we're solving a non-transient problem), then a nullptr will be returned
Definition at line 1640 of file SystemBase.C.
Referenced by SystemBase::getTimeIntegrator(), HDGKernel::HDGKernel(), and MooseVariableData< OutputType >::MooseVariableData().
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inlinevirtualinherited |
Reinitialize the system when the degrees of freedom in this system have changed.
This is called after the libMesh system has been reinit'd
Reimplemented in NonlinearEigenSystem.
Definition at line 168 of file SystemBase.h.
Referenced by NonlinearEigenSystem::reinit().
Reinit an element assembly info.
elem | Which element we are reinitializing for |
tid | ID of the thread |
Reimplemented in AuxiliarySystem.
Definition at line 339 of file SystemBase.C.
|
virtualinherited |
Reinit assembly info for a side of an element.
elem | The element |
side | Side of of the element |
tid | Thread ID |
Reimplemented in AuxiliarySystem.
Definition at line 358 of file SystemBase.C.
Referenced by SubProblem::reinitElemFaceRef().
Compute the values of the variables on the lower dimensional element.
Definition at line 382 of file SystemBase.C.
Referenced by SubProblem::reinitLowerDElem().
Compute the values of the variables at all the current points.
Definition at line 374 of file SystemBase.C.
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virtualinherited |
Compute the values of the variables at all the current points.
Definition at line 366 of file SystemBase.C.
Referenced by SubProblem::reinitNeighborFaceRef().
Reinit nodal assembly info.
node | Node to reinit for |
tid | Thread ID |
Definition at line 390 of file SystemBase.C.
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virtualinherited |
Reinit nodal assembly info on a face.
node | Node to reinit |
bnd_id | Boundary ID |
tid | Thread ID |
Definition at line 402 of file SystemBase.C.
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virtualinherited |
Reinit variables at a set of nodes.
nodes | List of node ids to reinit |
tid | Thread ID |
Definition at line 414 of file SystemBase.C.
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virtualinherited |
Reinit variables at a set of neighbor nodes.
nodes | List of node ids to reinit |
tid | Thread ID |
Definition at line 425 of file SystemBase.C.
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virtualinherited |
Reinit scalar varaibles.
tid | Thread ID |
reinit_for_derivative_reordering | A flag indicating whether we are reinitializing for the purpose of re-ordering derivative information for ADNodalBCs |
Definition at line 436 of file SystemBase.C.
Removes a matrix with a given tag.
tag_name | The name of the tag |
Definition at line 582 of file SystemBase.C.
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inherited |
Remove a vector from the system with the given name.
Definition at line 1324 of file SystemBase.C.
Referenced by SystemBase::restoreOldSolutions().
Remove a solution length vector from the system with the specified TagID.
tag_id | Tag ID |
Definition at line 692 of file SystemBase.C.
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inlineoverridevirtual |
Return the residual copy from the NonlinearSystem.
Reimplemented from SystemBase.
Definition at line 160 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 164 of file DisplacedSystem.h.
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virtualinherited |
Reimplemented in NonlinearSystemBase, LinearSystem, and AuxiliarySystem.
Definition at line 1566 of file SystemBase.C.
Referenced by AuxiliarySystem::residualSetup(), and NonlinearSystemBase::residualSetup().
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 43 of file DisplacedSystem.h.
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virtualinherited |
Restore the old and older solutions when the saved solutions present.
Definition at line 534 of file SystemBase.C.
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virtualinherited |
Restore current solutions (call after your solve failed)
Reimplemented in SolverSystem.
Definition at line 1307 of file SystemBase.C.
Referenced by SolverSystem::restoreSolutions().
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virtualinherited |
Save the old and older solutions.
Definition at line 502 of file SystemBase.C.
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inlineoverridevirtual |
Returns a reference to a serialized version of the solution vector for this subproblem.
Reimplemented from SystemBase.
Definition at line 106 of file DisplacedSystem.h.
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inherited |
Set the active vector tags for the scalar variables.
Definition at line 1593 of file SystemBase.C.
Referenced by SubProblem::setActiveScalarVariableCoupleableVectorTags().
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inherited |
Set the active vector tags for the variables.
Definition at line 1587 of file SystemBase.C.
Referenced by SubProblem::setActiveFEVariableCoupleableVectorTags().
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inherited |
set all the global dof indices for a variable
var_name | The name of the variable |
Definition at line 185 of file SystemBase.C.
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inlineinherited |
Sets the verbose flag.
[in] | verbose | Verbose flag |
Definition at line 134 of file SystemBase.h.
Referenced by Executioner::Executioner().
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inlineinherited |
Definition at line 195 of file SystemBase.h.
Referenced by Adaptivity::adaptMesh(), TransientMultiApp::appTransferVector(), MooseEigenSystem::combineSystemSolution(), NonlinearSystemBase::computeDamping(), AuxiliarySystem::computeElementalVarsHelper(), NonlinearSystemBase::computeJacobianInternal(), AuxiliarySystem::computeMortarNodalVars(), NonlinearSystemBase::computeNodalBCs(), AuxiliarySystem::computeNodalVarsHelper(), NonlinearSystemBase::computeResidualTags(), AuxiliarySystem::computeScalarVars(), NonlinearSystemBase::constraintResiduals(), SystemBase::copyVars(), MultiAppPostprocessorToAuxScalarTransfer::execute(), MultiAppScalarToAuxScalarTransfer::execute(), NodalNormalsCorner::execute(), NodalNormalsEvaluator::execute(), MultiAppVariableValueSamplePostprocessorTransfer::execute(), NodalNormalsPreprocessor::execute(), NodalNormalsCorner::finalize(), NodalNormalsEvaluator::finalize(), NodalNormalsPreprocessor::finalize(), NodalNormalsEvaluator::initialize(), NodalNormalsCorner::initialize(), NodalNormalsPreprocessor::initialize(), MooseEigenSystem::initSystemSolution(), ComputeMarkerThread::onElement(), ComputeIndicatorThread::onElement(), ComputeUserObjectsThread::onElement(), ComputeNodalUserObjectsThread::onNode(), FEProblemBase::projectInitialConditionOnCustomRange(), FEProblemBase::projectSolution(), Transient::relativeSolutionDifferenceNorm(), MultiApp::restore(), SystemBase::restoreSolutions(), SecantSolve::saveVariableValues(), SteffensenSolve::saveVariableValues(), PicardSolve::saveVariableValues(), MooseEigenSystem::scaleSystemSolution(), AuxiliarySystem::serializeSolution(), NonlinearSystemBase::setConstraintSecondaryValues(), NonlinearSystemBase::setInitialSolution(), solutionInternal(), NonlinearEigenSystem::solve(), MultiAppDofCopyTransfer::transfer(), SecantSolve::transformVariables(), SteffensenSolve::transformVariables(), PicardSolve::transformVariables(), AuxiliarySystem::variableWiseRelativeSolutionDifferenceNorm(), and SystemBase::zeroVariables().
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inlineinherited |
Definition at line 198 of file SystemBase.h.
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inlineoverrideprotectedvirtual |
Internal getter for solution owned by libMesh.
Implements SystemBase.
Definition at line 252 of file DisplacedSystem.h.
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inlineinherited |
Definition at line 196 of file SystemBase.h.
Referenced by MooseEigenSystem::combineSystemSolution(), CentralDifference::computeTimeDerivatives(), NonlinearSystemBase::constraintResiduals(), ActivateElementsUserObjectBase::initSolutions(), MooseEigenSystem::initSystemSolutionOld(), MooseVariableScalar::reinit(), Transient::relativeSolutionDifferenceNorm(), SystemBase::restoreSolutions(), ElementSubdomainModifierBase::setOldAndOlderSolutions(), ActuallyExplicitEuler::solve(), AdamsPredictor::timestepSetup(), and AuxiliarySystem::variableWiseRelativeSolutionDifferenceNorm().
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inlineinherited |
Definition at line 199 of file SystemBase.h.
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inlineinherited |
Definition at line 197 of file SystemBase.h.
Referenced by MooseEigenSystem::combineSystemSolution(), CentralDifference::computeTimeDerivatives(), ActivateElementsUserObjectBase::initSolutions(), MooseVariableScalar::reinit(), and ElementSubdomainModifierBase::setOldAndOlderSolutions().
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inlineinherited |
Definition at line 200 of file SystemBase.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 116 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 117 of file DisplacedSystem.h.
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inlineoverridevirtual |
Get a state of the solution (0 = current, 1 = old, 2 = older, etc).
If the state does not exist, it will be initialized in addition to any newer states before it that have not been initialized.
Reimplemented from SystemBase.
Definition at line 268 of file DisplacedSystem.h.
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inlineoverridevirtual |
Get a state of the solution (0 = current, 1 = old, 2 = older, etc).
Reimplemented from SystemBase.
Definition at line 275 of file DisplacedSystem.h.
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inlineinherited |
Whether or not the solution states have been initialized via initSolutionState()
After the solution states have been initialized, additional solution states cannot be added.
Definition at line 897 of file SystemBase.h.
Referenced by ScalarKernelBase::uOld(), and AuxScalarKernel::uOld().
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 119 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 132 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 120 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 136 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 128 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 144 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 124 of file DisplacedSystem.h.
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inlineoverridevirtual |
Reimplemented from SystemBase.
Definition at line 140 of file DisplacedSystem.h.
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virtualinherited |
Solve the system (using libMesh magic)
Reimplemented in NonlinearSystemBase, LinearSystem, NonlinearEigenSystem, NonlinearSystem, DumpObjectsLinearSystem, and DumpObjectsNonlinearSystem.
Definition at line 1251 of file SystemBase.C.
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virtualinherited |
Reimplemented in AuxiliarySystem.
Definition at line 1559 of file SystemBase.C.
Referenced by AuxiliarySystem::subdomainSetup(), and NonlinearSystemBase::subdomainSetup().
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inlineinherited |
Definition at line 101 of file SystemBase.h.
Referenced by CreateDisplacedProblemAction::addProxyRelationshipManagers(), MooseVariableBase::allDofIndices(), NonlinearSystemBase::constraintJacobians(), NonlinearSystemBase::constraintResiduals(), Moose::globalDofIndexToDerivative(), NonlinearSystemBase::initialSetup(), MooseVariableScalar::MooseVariableScalar(), NonlinearSystemBase::overwriteNodeFace(), MooseVariableScalar::reinit(), NonlinearSystemBase::reinitNodeFace(), and NonlinearSystemBase::setConstraintSecondaryValues().
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inlineinherited |
Definition at line 102 of file SystemBase.h.
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inlinevirtual |
Definition at line 244 of file DisplacedSystem.h.
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overridevirtual |
Get the reference to the libMesh system.
Implements SystemBase.
Definition at line 56 of file DisplacedSystem.C.
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overridevirtual |
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inlineoverridevirtual |
Return the Matrix Tag ID for System.
Reimplemented from SystemBase.
Definition at line 48 of file DisplacedSystem.h.
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virtualinherited |
Reimplemented in NonlinearSystemBase, and AuxiliarySystem.
Definition at line 1545 of file SystemBase.C.
Referenced by AuxiliarySystem::timestepSetup(), and NonlinearSystemBase::timestepSetup().
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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 50 of file DisplacedSystem.h.
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inherited |
Update the system (doing libMesh magic)
Definition at line 1245 of file SystemBase.C.
Referenced by Adaptivity::adaptMesh(), MooseEigenSystem::combineSystemSolution(), NonlinearSystemBase::computeDamping(), NonlinearSystemBase::computeJacobianInternal(), NonlinearSystemBase::computeResidualTags(), EigenProblem::doFreeNonlinearPowerIterations(), PointwiseRenormalizeVector::finalize(), MooseEigenSystem::initSystemSolution(), MooseEigenSystem::initSystemSolutionOld(), MooseEigenSystem::scaleSystemSolution(), NonlinearSystemBase::setConstraintSecondaryValues(), NonlinearSystemBase::setInitialSolution(), EigenProblem::solve(), FEProblemBase::solve(), DisplacedProblem::syncSolutions(), MultiAppDofCopyTransfer::transfer(), SecantSolve::transformVariables(), SteffensenSolve::transformVariables(), and PicardSolve::transformVariables().
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inlineinherited |
Definition at line 925 of file SystemBase.h.
Referenced by Coupleable::coupled().
Zero vector with the given tag.
Definition at line 666 of file SystemBase.C.
Referenced by SystemBase::zeroTaggedVectors().
Zero all vectors for given tags.
Definition at line 685 of file SystemBase.C.
Referenced by NonlinearSystemBase::computeResidualAndJacobianTags(), and NonlinearSystemBase::computeResidualTags().
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inlineoverridevirtual |
Zero out the solution for the list of variables passed in.
Reimplemented from SystemBase.
Definition at line 205 of file DisplacedSystem.h.
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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 234 of file SystemBase.C.
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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 228 of file SystemBase.C.
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protectedinherited |
Definition at line 982 of file SystemBase.h.
Referenced by SolverSystem::checkInvalidSolution(), NonlinearSystemBase::computeJacobianBlocks(), NonlinearSystemBase::computeJacobianInternal(), NonlinearSystemBase::computeJacobianTags(), LinearSystem::computeLinearSystemInternal(), LinearSystem::computeLinearSystemTags(), NonlinearSystemBase::computeResidualInternal(), NonlinearSystemBase::computeResidualTags(), NonlinearSystemBase::jacobianSetup(), NonlinearSystemBase::residualSetup(), NonlinearSystemBase::shouldEvaluatePreSMOResidual(), and NonlinearSystem::solve().
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protectedinherited |
Whether to automatically scale the variables.
Definition at line 1047 of file SystemBase.h.
Referenced by SystemBase::automaticScaling(), NonlinearSystemBase::initialSetup(), and NonlinearSystemBase::preSolve().
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inherited |
An instance of helper class to write streams to the Console objects.
Definition at line 31 of file ConsoleStreamInterface.h.
Referenced by IterationAdaptiveDT::acceptStep(), MeshOnlyAction::act(), SetupDebugAction::act(), MaterialOutputAction::act(), Adaptivity::adaptMesh(), FEProblemBase::adaptMesh(), PerfGraph::addToExecutionList(), SimplePredictor::apply(), SystemBase::applyScalingFactors(), MultiApp::backup(), FEProblemBase::backupMultiApps(), CoarsenedPiecewiseLinear::buildCoarsenedGrid(), MeshDiagnosticsGenerator::checkElementOverlap(), MeshDiagnosticsGenerator::checkElementTypes(), MeshDiagnosticsGenerator::checkElementVolumes(), FEProblemBase::checkExceptionAndStopSolve(), SolverSystem::checkInvalidSolution(), MeshDiagnosticsGenerator::checkLocalJacobians(), MeshDiagnosticsGenerator::checkNonConformalMesh(), MeshDiagnosticsGenerator::checkNonConformalMeshFromAdaptivity(), MeshDiagnosticsGenerator::checkNonMatchingEdges(), MeshDiagnosticsGenerator::checkNonPlanarSides(), FEProblemBase::checkProblemIntegrity(), ReferenceResidualConvergence::checkRelativeConvergence(), MeshDiagnosticsGenerator::checkSidesetsOrientation(), MeshDiagnosticsGenerator::checkWatertightNodesets(), MeshDiagnosticsGenerator::checkWatertightSidesets(), IterationAdaptiveDT::computeAdaptiveDT(), TransientBase::computeConstrainedDT(), DefaultMultiAppFixedPointConvergence::computeCustomConvergencePostprocessor(), NonlinearSystemBase::computeDamping(), FixedPointIterationAdaptiveDT::computeDT(), IterationAdaptiveDT::computeDT(), IterationAdaptiveDT::computeFailedDT(), IterationAdaptiveDT::computeInitialDT(), IterationAdaptiveDT::computeInterpolationDT(), LinearSystem::computeLinearSystemTags(), FEProblemBase::computeLinearSystemTags(), NonlinearSystemBase::computeScaling(), Problem::console(), IterationAdaptiveDT::constrainStep(), TimeStepper::constrainStep(), MultiApp::createApp(), FEProblemBase::execMultiApps(), FEProblemBase::execMultiAppTransfers(), MFEMSteady::execute(), MessageFromInput::execute(), SteadyBase::execute(), Eigenvalue::execute(), ActionWarehouse::executeActionsWithAction(), ActionWarehouse::executeAllActions(), MeshGeneratorSystem::executeMeshGenerators(), ElementQualityChecker::finalize(), FEProblemBase::finishMultiAppStep(), MeshRepairGenerator::fixOverlappingNodes(), CoarsenBlockGenerator::generate(), MeshGenerator::generateInternal(), VariableCondensationPreconditioner::getDofToCondense(), InversePowerMethod::init(), NonlinearEigen::init(), FEProblemBase::initialAdaptMesh(), DefaultMultiAppFixedPointConvergence::initialize(), EigenExecutionerBase::inversePowerIteration(), FEProblemBase::joinAndFinalize(), TransientBase::keepGoing(), IterationAdaptiveDT::limitDTByFunction(), IterationAdaptiveDT::limitDTToPostprocessorValue(), FEProblemBase::logAdd(), EigenExecutionerBase::makeBXConsistent(), Console::meshChanged(), MooseBaseErrorInterface::mooseDeprecated(), MooseBaseErrorInterface::mooseInfo(), MooseBaseErrorInterface::mooseWarning(), MooseBaseErrorInterface::mooseWarningNonPrefixed(), ReferenceResidualConvergence::nonlinearConvergenceSetup(), ReporterDebugOutput::output(), PerfGraphOutput::output(), SolutionInvalidityOutput::output(), MaterialPropertyDebugOutput::output(), DOFMapOutput::output(), VariableResidualNormsDebugOutput::output(), Console::output(), ControlOutput::outputActiveObjects(), ControlOutput::outputChangedControls(), ControlOutput::outputControls(), Console::outputInput(), Console::outputPostprocessors(), PseudoTimestep::outputPseudoTimestep(), Console::outputReporters(), DefaultMultiAppFixedPointConvergence::outputResidualNorm(), Console::outputScalarVariables(), Console::outputSystemInformation(), FEProblemBase::possiblyRebuildGeomSearchPatches(), EigenExecutionerBase::postExecute(), AB2PredictorCorrector::postSolve(), ActionWarehouse::printActionDependencySets(), BlockRestrictionDebugOutput::printBlockRestrictionMap(), SolutionInvalidity::printDebug(), EigenExecutionerBase::printEigenvalue(), SecantSolve::printFixedPointConvergenceHistory(), SteffensenSolve::printFixedPointConvergenceHistory(), PicardSolve::printFixedPointConvergenceHistory(), FixedPointSolve::printFixedPointConvergenceReason(), PerfGraphLivePrint::printLiveMessage(), MaterialPropertyDebugOutput::printMaterialMap(), PerfGraphLivePrint::printStats(), NEML2Action::printSummary(), AutomaticMortarGeneration::projectPrimaryNodesSinglePair(), AutomaticMortarGeneration::projectSecondaryNodesSinglePair(), CoarsenBlockGenerator::recursiveCoarsen(), SolutionTimeAdaptiveDT::rejectStep(), MultiApp::restore(), FEProblemBase::restoreMultiApps(), FEProblemBase::restoreSolutions(), NonlinearSystemBase::setInitialSolution(), MooseApp::setupOptions(), Checkpoint::shouldOutput(), SubProblem::showFunctorRequestors(), SubProblem::showFunctors(), FullSolveMultiApp::showStatusMessage(), FEProblemSolve::solve(), FixedPointSolve::solve(), EigenProblem::solve(), NonlinearSystem::solve(), LinearSystem::solve(), LStableDirk2::solve(), LStableDirk3::solve(), ImplicitMidpoint::solve(), ExplicitTVDRK2::solve(), AStableDirk4::solve(), LStableDirk4::solve(), ExplicitRK2::solve(), TransientMultiApp::solveStep(), FixedPointSolve::solveStep(), PerfGraphLivePrint::start(), AB2PredictorCorrector::step(), NonlinearEigen::takeStep(), TransientBase::takeStep(), TerminateChainControl::terminate(), Convergence::verboseOutput(), Console::writeTimestepInformation(), Console::writeVariableNorms(), and FEProblemBase::~FEProblemBase().
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protectedinherited |
Derivative of time derivative of u with respect to uj.
This depends on the time integration scheme
Definition at line 1011 of file SystemBase.h.
Referenced by SystemBase::addVariable(), SystemBase::duDotDu(), and SystemBase::duDotDus().
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protectedinherited |
Definition at line 1012 of file SystemBase.h.
Referenced by SystemBase::duDotDotDu().
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protectedinherited |
Definition at line 983 of file SystemBase.h.
Referenced by NonlinearSystemBase::addBoundaryCondition(), NonlinearSystemBase::addConstraint(), NonlinearSystemBase::addDamper(), NonlinearSystemBase::addDGKernel(), NonlinearSystemBase::addDiracKernel(), NonlinearSystemBase::addHDGKernel(), NonlinearSystemBase::addInterfaceKernel(), MooseEigenSystem::addKernel(), AuxiliarySystem::addKernel(), NonlinearSystemBase::addKernel(), NonlinearSystemBase::addNodalKernel(), AuxiliarySystem::addScalarKernel(), NonlinearSystemBase::addScalarKernel(), NonlinearSystemBase::addSplit(), SystemBase::addTimeIntegrator(), and SystemBase::addVariable().
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protectedinherited |
the governing finite element/volume problem
Definition at line 980 of file SystemBase.h.
Referenced by NonlinearSystemBase::addBoundaryCondition(), NonlinearSystemBase::addDGKernel(), NonlinearSystemBase::addDiracKernel(), SystemBase::addDotVectors(), NonlinearSystemBase::addHDGKernel(), NonlinearSystemBase::addInterfaceKernel(), NonlinearSystemBase::addKernel(), NonlinearSystemBase::addNodalKernel(), NonlinearSystemBase::addScalarKernel(), NonlinearSystemBase::addSplit(), NonlinearSystemBase::assembleScalingVector(), NonlinearSystemBase::augmentSparsity(), AuxiliarySystem::AuxiliarySystem(), SolverSystem::checkInvalidSolution(), NonlinearSystemBase::checkKernelCoverage(), AuxiliarySystem::clearScalarVariableCoupleableTags(), SolverSystem::compute(), AuxiliarySystem::compute(), NonlinearSystemBase::computeDamping(), NonlinearSystemBase::computeDiracContributions(), AuxiliarySystem::computeElementalVarsHelper(), LinearSystem::computeGradients(), NonlinearSystemBase::computeJacobian(), NonlinearSystemBase::computeJacobianBlocks(), NonlinearSystemBase::computeJacobianInternal(), LinearSystem::computeLinearSystemInternal(), LinearSystem::computeLinearSystemTags(), AuxiliarySystem::computeMortarNodalVars(), NonlinearSystemBase::computeNodalBCs(), NonlinearSystemBase::computeNodalBCsResidualAndJacobian(), AuxiliarySystem::computeNodalVarsHelper(), NonlinearSystemBase::computeResidualAndJacobianInternal(), NonlinearSystemBase::computeResidualInternal(), NonlinearSystemBase::computeResidualTags(), NonlinearSystemBase::computeScalarKernelsJacobians(), AuxiliarySystem::computeScalarVars(), NonlinearSystemBase::computeScaling(), NonlinearSystem::computeScalingJacobian(), NonlinearSystem::computeScalingResidual(), NonlinearSystemBase::constraintJacobians(), NonlinearSystemBase::constraintResiduals(), LinearSystem::containsTimeKernel(), NonlinearSystem::converged(), NonlinearSystemBase::customSetup(), MooseEigenSystem::eigenKernelOnCurrent(), MooseEigenSystem::eigenKernelOnOld(), NonlinearSystemBase::enforceNodalConstraintsJacobian(), NonlinearSystemBase::enforceNodalConstraintsResidual(), SystemBase::feProblem(), NonlinearSystemBase::getResidualNonTimeVector(), NonlinearSystemBase::getResidualTimeVector(), NonlinearSystemBase::initialSetup(), NonlinearSystemBase::jacobianSetup(), LinearSystem::LinearSystem(), NonlinearSystemBase::NonlinearSystemBase(), NonlinearSystemBase::overwriteNodeFace(), NonlinearSystem::potentiallySetupFiniteDifferencing(), NonlinearSystemBase::preInit(), NonlinearSystemBase::reinitNodeFace(), NonlinearSystem::residualAndJacobianTogether(), NonlinearSystemBase::residualSetup(), NonlinearSystemBase::setConstraintSecondaryValues(), NonlinearSystemBase::setInitialSolution(), AuxiliarySystem::setScalarVariableCoupleableTags(), NonlinearSystemBase::shouldEvaluatePreSMOResidual(), NonlinearSystem::solve(), and NonlinearSystemBase::timestepSetup().
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protectedinherited |
Active flags for tagged matrices.
Definition at line 1019 of file SystemBase.h.
Referenced by SystemBase::activeAllMatrixTags(), SystemBase::activeMatrixTag(), SystemBase::deactiveAllMatrixTags(), SystemBase::deactiveMatrixTag(), and SystemBase::matrixTagActive().
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protectedinherited |
Maximum number of dofs for any one variable on any one element.
Definition at line 1035 of file SystemBase.h.
Referenced by SystemBase::assignMaxVarNDofsPerElem(), and SystemBase::getMaxVarNDofsPerElem().
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protectedinherited |
Maximum number of dofs for any one variable on any one node.
Definition at line 1038 of file SystemBase.h.
Referenced by SystemBase::assignMaxVarNDofsPerNode(), and SystemBase::getMaxVarNDofsPerNode().
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protectedinherited |
Maximum variable number.
Definition at line 994 of file SystemBase.h.
Referenced by SystemBase::addVariable(), and SystemBase::getMaxVariableNumber().
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protectedinherited |
Definition at line 985 of file SystemBase.h.
Referenced by SystemBase::addVariable(), NonlinearSystemBase::assembleScalingVector(), SystemBase::augmentSendList(), NonlinearSystemBase::checkKernelCoverage(), AuxiliarySystem::computeElementalVarsHelper(), NonlinearSystemBase::computeJacobianInternal(), AuxiliarySystem::computeMortarNodalVars(), AuxiliarySystem::computeNodalVarsHelper(), NonlinearSystemBase::constraintJacobians(), NonlinearSystemBase::constraintResiduals(), NonlinearSystemBase::findImplicitGeometricCouplingEntries(), NonlinearSystemBase::getNodeDofs(), SystemBase::initialSetup(), SystemBase::mesh(), NonlinearSystemBase::overwriteNodeFace(), NonlinearSystemBase::reinitNodeFace(), NonlinearSystemBase::setConstraintSecondaryValues(), SystemBase::setVariableGlobalDoFs(), AuxiliarySystem::variableWiseRelativeSolutionDifferenceNorm(), and SystemBase::zeroVariables().
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protectedinherited |
The name of this system.
Definition at line 987 of file SystemBase.h.
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protectedinherited |
Map variable number to its pointer.
Definition at line 1044 of file SystemBase.h.
Referenced by SystemBase::addVariable(), and SystemBase::getVariable().
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protectedinherited |
A cache for storing gradients at dof locations.
We store it on the system because we create copies of variables on each thread and that would lead to increased data duplication when using threading-based parallelism.
Definition at line 1065 of file SystemBase.h.
Referenced by LinearSystem::computeGradients(), SystemBase::gradientContainer(), and SystemBase::initialSetup().
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protectedinherited |
Definition at line 1026 of file SystemBase.h.
Referenced by SystemBase::restoreOldSolutions(), and SystemBase::saveOldSolutions().
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protectedinherited |
Definition at line 1027 of file SystemBase.h.
Referenced by SystemBase::restoreOldSolutions(), and SystemBase::saveOldSolutions().
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protectedinherited |
Definition at line 1022 of file SystemBase.h.
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protectedinherited |
Definition at line 1023 of file SystemBase.h.
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protectedinherited |
Serialized version of the solution vector, or nullptr if a serialized solution is not needed.
Definition at line 1060 of file SystemBase.h.
Referenced by AuxiliarySystem::compute(), SolverSystem::preInit(), SystemBase::serializedSolution(), SolverSystem::serializeSolution(), AuxiliarySystem::serializeSolution(), and SolverSystem::setSolution().
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protectedinherited |
Whether or not the solution states have been initialized.
Definition at line 1053 of file SystemBase.h.
Referenced by SystemBase::initSolutionState(), and SystemBase::solutionStatesInitialized().
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protectedinherited |
The subproblem for whom this class holds variable data, etc; this can either be the governing finite element/volume problem or a subjugate displaced problem.
Definition at line 977 of file SystemBase.h.
Referenced by SystemBase::activeAllMatrixTags(), SystemBase::activeMatrixTag(), SystemBase::addMatrix(), SystemBase::addScalingVector(), SystemBase::addVariable(), SystemBase::associateMatrixToTag(), SystemBase::associateVectorToTag(), SystemBase::augmentSendList(), SystemBase::closeTaggedVector(), SystemBase::computingScalingJacobian(), SystemBase::deactiveAllMatrixTags(), SystemBase::deactiveMatrixTag(), SystemBase::disassociateDefaultMatrixTags(), SystemBase::disassociateDefaultVectorTags(), SystemBase::disassociateMatrixFromTag(), SystemBase::disassociateVectorFromTag(), SystemBase::getMatrix(), NonlinearSystemBase::getResidualNonTimeVector(), NonlinearSystemBase::getResidualTimeVector(), SystemBase::getVector(), SystemBase::matrixTagActive(), SystemBase::needSolutionState(), SystemBase::prepare(), SystemBase::prepareFace(), SystemBase::reinitElem(), SystemBase::removeMatrix(), SystemBase::removeVector(), NonlinearSystemBase::residualGhosted(), SolverSystem::setSolution(), SystemBase::setVariableGlobalDoFs(), SystemBase::subproblem(), SystemBase::zeroTaggedVector(), and SystemBase::zeroVariables().
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protected |
Definition at line 258 of file DisplacedSystem.h.
Referenced by DisplacedSystem(), getVector(), sys(), and system().
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protectedinherited |
Tagged matrices (pointer)
Definition at line 1017 of file SystemBase.h.
Referenced by SystemBase::associateMatrixToTag(), SystemBase::disassociateMatrixFromTag(), SystemBase::getMatrix(), SystemBase::hasMatrix(), and SystemBase::removeMatrix().
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protectedinherited |
Tagged vectors (pointer)
Definition at line 1015 of file SystemBase.h.
Referenced by SystemBase::associateVectorToTag(), SystemBase::disassociateVectorFromTag(), SystemBase::getVector(), SystemBase::hasVector(), and SystemBase::removeVector().
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protectedinherited |
Time integrator.
Definition at line 1041 of file SystemBase.h.
Referenced by SystemBase::addTimeIntegrator(), SolverSystem::compute(), AuxiliarySystem::compute(), NonlinearSystemBase::computeResidualAndJacobianTags(), NonlinearSystemBase::computeResidualTags(), SystemBase::copyTimeIntegrators(), SystemBase::getTimeIntegrators(), NonlinearSystemBase::onTimestepBegin(), SystemBase::queryTimeIntegrator(), NonlinearSystem::solve(), and NonlinearEigenSystem::solve().
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protectedinherited |
solution vector for u^dot
Definition at line 1000 of file SystemBase.h.
Referenced by SystemBase::addDotVectors(), NonlinearSystemBase::setSolutionUDot(), and SystemBase::solutionUDot().
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protectedinherited |
old solution vector for u^dot
Definition at line 1005 of file SystemBase.h.
Referenced by SystemBase::addDotVectors(), NonlinearSystemBase::setSolutionUDotOld(), and SystemBase::solutionUDotOld().
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protectedinherited |
solution vector for u^dotdot
Definition at line 1002 of file SystemBase.h.
Referenced by SystemBase::addDotVectors(), NonlinearSystemBase::setSolutionUDotDot(), and SystemBase::solutionUDotDot().
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protectedinherited |
old solution vector for u^dotdot
Definition at line 1007 of file SystemBase.h.
Referenced by SystemBase::addDotVectors(), NonlinearSystemBase::setSolutionUDotDotOld(), and SystemBase::solutionUDotDotOld().
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protected |
Definition at line 257 of file DisplacedSystem.h.
Referenced by addDotVectors(), addVariableToZeroOnJacobian(), addVariableToZeroOnResidual(), associateMatrixToTag(), associateVectorToTag(), augmentSendList(), currentSolution(), defaultMatrixTags(), defaultVectorTags(), disassociateDefaultMatrixTags(), disassociateDefaultVectorTags(), disassociateMatrixFromTag(), disassociateVectorFromTag(), duDotDotDu(), duDotDu(), duDotDus(), getMatrix(), getVector(), hasMatrix(), hasSolutionState(), hasVector(), initSolutionState(), needSolutionState(), nonTimeVectorTag(), residualCopy(), residualGhosted(), residualVectorTag(), serializedSolution(), solutionInternal(), solutionState(), solutionUDot(), solutionUDotDot(), solutionUDotDotOld(), solutionUDotOld(), systemMatrixTag(), timeVectorTag(), and zeroVariables().
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Container for the dof indices of a given variable.
Definition at line 1056 of file SystemBase.h.
Referenced by SystemBase::getVariableGlobalDoFs(), and SystemBase::setVariableGlobalDoFs().
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default kind of variables in this system
Definition at line 1030 of file SystemBase.h.
Referenced by SystemBase::varKind().
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Map of variables (variable id -> array of subdomains where it lives)
Definition at line 992 of file SystemBase.h.
Referenced by SystemBase::addVariable(), SystemBase::getSubdomainsForVar(), and SystemBase::getVariableBlocks().
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Definition at line 1032 of file SystemBase.h.
Referenced by SystemBase::addVariableToCopy(), SystemBase::copyVars(), and SystemBase::hasVarCopy().
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Variable warehouses (one for each thread)
Definition at line 990 of file SystemBase.h.
Referenced by NonlinearSystemBase::addBoundaryCondition(), NonlinearSystemBase::addInterfaceKernel(), AuxiliarySystem::addVariable(), SystemBase::addVariable(), SystemBase::applyScalingFactors(), NonlinearSystemBase::assembleScalingVector(), SystemBase::clearAllDofIndices(), AuxiliarySystem::compute(), SystemBase::customSetup(), SystemBase::getActualFieldVariable(), SystemBase::getFieldVariable(), SystemBase::getFVVariable(), AuxiliarySystem::getMinQuadratureOrder(), SystemBase::getMinQuadratureOrder(), SystemBase::getScalarVariable(), SystemBase::getScalarVariables(), SystemBase::getVariable(), SystemBase::getVariableNames(), SystemBase::getVariables(), LinearSystem::initialSetup(), SystemBase::initialSetup(), SystemBase::jacobianSetup(), SystemBase::nFieldVariables(), SystemBase::nFVVariables(), SystemBase::nVariables(), SystemBase::prepare(), SystemBase::prepareFace(), SystemBase::prepareLowerD(), SystemBase::prepareNeighbor(), SystemBase::reinitElem(), SystemBase::reinitElemFace(), SystemBase::reinitLowerD(), SystemBase::reinitNeighbor(), SystemBase::reinitNeighborFace(), SystemBase::reinitNode(), SystemBase::reinitNodeFace(), SystemBase::reinitNodes(), SystemBase::reinitNodesNeighbor(), SystemBase::reinitScalars(), SystemBase::residualSetup(), SystemBase::setActiveScalarVariableCoupleableVectorTags(), SystemBase::setActiveVariableCoupleableVectorTags(), NonlinearSystemBase::setupScalingData(), SystemBase::subdomainSetup(), and SystemBase::timestepSetup().
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Definition at line 997 of file SystemBase.h.
Referenced by SystemBase::addVariableToZeroOnJacobian(), and SystemBase::zeroVariablesForJacobian().
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Definition at line 996 of file SystemBase.h.
Referenced by SystemBase::addVariableToZeroOnResidual(), and SystemBase::zeroVariablesForResidual().
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True if printing out additional information.
Definition at line 1050 of file SystemBase.h.
Referenced by SystemBase::applyScalingFactors(), and SystemBase::setVerboseFlag().