Class IBHierarchyIntegrator provides an abstract interface for a time integrator for various versions of the immersed boundary method on an AMR grid hierarchy, along with basic data management for variables defined on that hierarchy. More...

#include </home/runner/work/IBAMR/IBAMR/include/ibamr/IBHierarchyIntegrator.h>

Inheritance diagram for IBAMR::IBHierarchyIntegrator:

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Classes
class	IBEulerianForceFunction
	A class to communicate the Eulerian body force computed by class IBHierarchyIntegrator to the incompressible Navier-Stokes solver. More...

class	IBEulerianSourceFunction
	A class to communicate the Eulerian fluid source-sink distribution computed by class IBHierarchyIntegrator to the incompressible Navier-Stokes solver. More...

Public Member Functions
	~IBHierarchyIntegrator ()=default

TimeSteppingType	getTimeSteppingType () const

SAMRAI::tbox::Pointer< IBStrategy >	getIBStrategy () const

void	registerBodyForceFunction (SAMRAI::tbox::Pointer< IBTK::CartGridFunction > F_fcn)

virtual void	registerLoadBalancer (SAMRAI::tbox::Pointer< SAMRAI::mesh::LoadBalancer< NDIM > > load_balancer) override

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	getVelocityVariable () const

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	getPressureVariable () const

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	getBodyForceVariable () const

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	getFluidSourceVariable () const

IBTK::RobinPhysBdryPatchStrategy *	getVelocityPhysBdryOp () const

void	preprocessIntegrateHierarchy (double current_time, double new_time, int num_cycles=1) override

void	postprocessIntegrateHierarchy (double current_time, double new_time, bool skip_synchronize_new_state_data, int num_cycles=1) override

void	initializeHierarchyIntegrator (SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > > hierarchy, SAMRAI::tbox::Pointer< SAMRAI::mesh::GriddingAlgorithm< NDIM > > gridding_alg) override

void	initializePatchHierarchy (SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > > hierarchy, SAMRAI::tbox::Pointer< SAMRAI::mesh::GriddingAlgorithm< NDIM > > gridding_alg) override

Public Member Functions inherited from IBTK::HierarchyIntegrator
	HierarchyIntegrator (std::string object_name, SAMRAI::tbox::Pointer< SAMRAI::tbox::Database > input_db, bool register_for_restart)

	~HierarchyIntegrator ()

const std::string &	getName () const

virtual void	advanceHierarchy (double dt)

double	getMinimumTimeStepSize ()

double	getMaximumTimeStepSize ()

void	synchronizeHierarchyData (VariableContextType ctx_type)

void	resetTimeDependentHierarchyData (double new_time)

void	resetIntegratorToPreadvanceState ()

virtual void	regridHierarchy ()

bool	atRegridPoint () const

double	getIntegratorTime () const

double	getStartTime () const

double	getEndTime () const

int	getIntegratorStep () const

int	getMaxIntegratorSteps () const

bool	stepsRemaining () const

void	updateWorkloadEstimates ()

SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > >	getPatchHierarchy () const

SAMRAI::tbox::Pointer< SAMRAI::mesh::GriddingAlgorithm< NDIM > >	getGriddingAlgorithm () const

int	getWorkloadDataIndex () const

void	registerVisItDataWriter (SAMRAI::tbox::Pointer< SAMRAI::appu::VisItDataWriter< NDIM > > visit_writer)

SAMRAI::tbox::Pointer< SAMRAI::appu::VisItDataWriter< NDIM > >	getVisItDataWriter () const

void	setupPlotData ()

virtual int	getNumberOfCycles () const

virtual int	getCurrentCycleNumber () const

virtual double	getCurrentTimeStepSize () const

void	integrateHierarchy (double current_time, double new_time, int cycle_num=0)

void	skipCycle (double current_time, double new_time, int cycle_num=0)

void	registerPreprocessIntegrateHierarchyCallback (PreprocessIntegrateHierarchyCallbackFcnPtr callback, void *ctx=nullptr)

void	registerIntegrateHierarchyCallback (IntegrateHierarchyCallbackFcnPtr callback, void *ctx=nullptr)

void	registerPostprocessIntegrateHierarchyCallback (PostprocessIntegrateHierarchyCallbackFcnPtr callback, void *ctx=nullptr)

void	registerApplyGradientDetectorCallback (ApplyGradientDetectorCallbackFcnPtr callback, void *ctx=nullptr)

void	registerRegridHierarchyCallback (RegridHierarchyCallbackFcnPtr, void *ctx=nullptr)

void	initializeCompositeHierarchyData (double init_data_time, bool initial_time)

void	initializeLevelData (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int level_number, double init_data_time, bool can_be_refined, bool initial_time, SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchLevel< NDIM > > old_level=SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchLevel< NDIM > >(NULL), bool allocate_data=true) override

void	resetHierarchyConfiguration (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int coarsest_level, int finest_level) override

void	applyGradientDetector (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int level_number, double error_data_time, int tag_index, bool initial_time, bool uses_richardson_extrapolation_too) override

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	getContext (VariableContextType ctx_type) const

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	getCurrentContext () const

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	getNewContext () const

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	getScratchContext () const

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	getPlotContext () const

bool	isAllocatedPatchData (int data_idx, int coarsest_ln=invalid_level_number, int finest_ln=invalid_level_number) const

void	allocatePatchData (int data_idx, double data_time, int coarsest_ln=invalid_level_number, int finest_ln=invalid_level_number) const

void	deallocatePatchData (int data_idx, int coarsest_ln=invalid_level_number, int finest_ln=invalid_level_number) const

SAMRAI::tbox::Pointer< HierarchyMathOps >	getHierarchyMathOps () const

void	registerVariable (int &current_idx, int &new_idx, int &scratch_idx, SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > > variable, const SAMRAI::hier::IntVector< NDIM > &scratch_ghosts=SAMRAI::hier::IntVector< NDIM >(0), const std::string &coarsen_name="NO_COARSEN", const std::string &refine_name="NO_REFINE", SAMRAI::tbox::Pointer< CartGridFunction > init_fcn=SAMRAI::tbox::Pointer< CartGridFunction >(NULL), const bool register_for_restart=true)

void	registerVariable (int &idx, SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > > variable, const SAMRAI::hier::IntVector< NDIM > &ghosts=SAMRAI::hier::IntVector< NDIM >(0), SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext > ctx=SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >(NULL), const bool register_for_restart=true)

void	putToDatabase (SAMRAI::tbox::Pointer< SAMRAI::tbox::Database > db) override

Public Member Functions inherited from SAMRAI::mesh::StandardTagAndInitStrategy< NDIM >
virtual double	getLevelDt (const tbox::Pointer< hier::BasePatchLevel< NDIM > > level, const double dt_time, const bool initial_time)

virtual double	advanceLevel (const tbox::Pointer< hier::BasePatchLevel< NDIM > > level, const tbox::Pointer< hier::BasePatchHierarchy< NDIM > > hierarchy, const double current_time, const double new_time, const bool first_step, const bool last_step, const bool regrid_advance=false)

virtual void	resetTimeDependentData (const tbox::Pointer< hier::BasePatchLevel< NDIM > > level, const double new_time, const bool can_be_refined)

virtual void	resetDataToPreadvanceState (const tbox::Pointer< hier::BasePatchLevel< NDIM > > level)

virtual void	applyRichardsonExtrapolation (const tbox::Pointer< hier::PatchLevel< NDIM > > level, const double error_data_time, const int tag_index, const double deltat, const int error_coarsen_ratio, const bool initial_time, const bool uses_gradient_detector_too)

virtual void	coarsenDataForRichardsonExtrapolation (const tbox::Pointer< hier::PatchHierarchy< NDIM > > hierarchy, const int level_number, const tbox::Pointer< hier::PatchLevel< NDIM > > coarser_level, const double coarsen_data_time, const bool before_advance)

Protected Member Functions
void	regridHierarchyBeginSpecialized () override

void	regridHierarchyEndSpecialized () override

	IBHierarchyIntegrator (const std::string &object_name, SAMRAI::tbox::Pointer< SAMRAI::tbox::Database > input_db, SAMRAI::tbox::Pointer< IBStrategy > ib_method_ops, SAMRAI::tbox::Pointer< INSHierarchyIntegrator > ins_hier_integrator, bool register_for_restart=true)

bool	atRegridPointSpecialized () const override

void	initializeLevelDataSpecialized (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int level_number, double init_data_time, bool can_be_refined, bool initial_time, SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchLevel< NDIM > > old_level, bool allocate_data) override

void	resetHierarchyConfigurationSpecialized (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int coarsest_level, int finest_level) override

void	applyGradientDetectorSpecialized (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int level_number, double error_data_time, int tag_index, bool initial_time, bool uses_richardson_extrapolation_too) override

void	putToDatabaseSpecialized (SAMRAI::tbox::Pointer< SAMRAI::tbox::Database > db) override

virtual void	addWorkloadEstimate (SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > > hierarchy, const int workload_data_idx) override

Protected Member Functions inherited from IBTK::HierarchyIntegrator
virtual void	integrateHierarchySpecialized (double current_time, double new_time, int cycle_num=0)=0

virtual double	getMinimumTimeStepSizeSpecialized ()

virtual double	getMaximumTimeStepSizeSpecialized ()

virtual void	synchronizeHierarchyDataSpecialized (VariableContextType ctx_type)

virtual void	resetTimeDependentHierarchyDataSpecialized (double new_time)

virtual void	resetIntegratorToPreadvanceStateSpecialized ()

virtual void	setupPlotDataSpecialized ()

virtual void	initializeCompositeHierarchyDataSpecialized (double init_data_time, bool initial_time)

virtual void	executePreprocessIntegrateHierarchyCallbackFcns (double current_time, double new_time, int num_cycles)

virtual void	executeIntegrateHierarchyCallbackFcns (double current_time, double new_time, int cycle_num)

virtual void	executePostprocessIntegrateHierarchyCallbackFcns (double current_time, double new_time, bool skip_synchronize_new_state_data, int num_cycles)

virtual void	executeApplyGradientDetectorCallbackFcns (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int level_number, double error_data_time, int tag_index, bool initial_time, bool uses_richardson_extrapolation_too)

virtual void	executeRegridHierarchyCallbackFcns (SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, double data_time, bool initial_time)

void	registerGhostfillRefineAlgorithm (const std::string &name, SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > > ghostfill_alg, std::unique_ptr< SAMRAI::xfer::RefinePatchStrategy< NDIM > > ghostfill_patch_strategy=nullptr)

void	registerProlongRefineAlgorithm (const std::string &name, SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > > prolong_alg, std::unique_ptr< SAMRAI::xfer::RefinePatchStrategy< NDIM > > prolong_patch_strategy=nullptr)

void	registerCoarsenAlgorithm (const std::string &name, SAMRAI::tbox::Pointer< SAMRAI::xfer::CoarsenAlgorithm< NDIM > > coarsen_alg, std::unique_ptr< SAMRAI::xfer::CoarsenPatchStrategy< NDIM > > coarsen_patch_strategy=nullptr)

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > >	getGhostfillRefineAlgorithm (const std::string &name) const

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > >	getProlongRefineAlgorithm (const std::string &name) const

SAMRAI::tbox::Pointer< SAMRAI::xfer::CoarsenAlgorithm< NDIM > >	getCoarsenAlgorithm (const std::string &name) const

const std::vector< SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineSchedule< NDIM > > > &	getGhostfillRefineSchedules (const std::string &name) const

const std::vector< SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineSchedule< NDIM > > > &	getProlongRefineSchedules (const std::string &name) const

const std::vector< SAMRAI::tbox::Pointer< SAMRAI::xfer::CoarsenSchedule< NDIM > > > &	getCoarsenSchedules (const std::string &name) const

void	registerChildHierarchyIntegrator (HierarchyIntegrator *child_integrator)

void	registerParentHierarchyIntegrator (HierarchyIntegrator *parent_integrator)

SAMRAI::tbox::Pointer< HierarchyMathOps >	buildHierarchyMathOps (SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > > hierarchy)

void	setupTagBuffer (SAMRAI::tbox::Pointer< SAMRAI::mesh::GriddingAlgorithm< NDIM > > gridding_alg)

bool	regriddingHierarchy () const

bool	atRegridTimeStep () const

Protected Attributes
bool	d_integrator_is_initialized = false

TimeSteppingType	d_time_stepping_type = MIDPOINT_RULE

bool	d_use_structure_predictor

bool	d_error_on_dt_change = true

bool	d_warn_on_dt_change = false

SAMRAI::tbox::Pointer< INSHierarchyIntegrator >	d_ins_hier_integrator

double	d_regrid_fluid_cfl_interval = -1.0

double	d_regrid_structure_cfl_interval = -1.0

double	d_regrid_fluid_cfl_estimate = 0.0

double	d_regrid_structure_cfl_estimate = 0.0

SAMRAI::tbox::Pointer< IBStrategy >	d_ib_method_ops

SAMRAI::tbox::Pointer< SAMRAI::math::HierarchyDataOpsReal< NDIM, double > >	d_hier_velocity_data_ops

SAMRAI::tbox::Pointer< SAMRAI::math::HierarchyDataOpsReal< NDIM, double > >	d_hier_pressure_data_ops

SAMRAI::tbox::Pointer< SAMRAI::math::HierarchyCellDataOpsReal< NDIM, double > >	d_hier_cc_data_ops

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	d_u_var

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	d_p_var

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	d_f_var

SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > >	d_q_var

int	d_u_idx = IBTK::invalid_index

int	d_p_idx = IBTK::invalid_index

int	d_f_idx = IBTK::invalid_index

int	d_f_current_idx = IBTK::invalid_index

int	d_q_idx = IBTK::invalid_index

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	d_ib_context

SAMRAI::hier::ComponentSelector	d_ib_data

IBTK::RobinPhysBdryPatchStrategy *	d_u_phys_bdry_op

IBTK::RobinPhysBdryPatchStrategy *	d_p_phys_bdry_op

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > >	d_u_ghostfill_alg

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > >	d_f_prolong_alg

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > >	d_p_ghostfill_alg

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineAlgorithm< NDIM > >	d_q_prolong_alg

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineOperator< NDIM > >	d_u_ghostfill_op

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineOperator< NDIM > >	d_f_prolong_op

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineOperator< NDIM > >	d_p_ghostfill_op

SAMRAI::tbox::Pointer< SAMRAI::xfer::RefineOperator< NDIM > >	d_q_prolong_op

SAMRAI::tbox::Pointer< SAMRAI::xfer::CoarsenAlgorithm< NDIM > >	d_u_coarsen_alg

SAMRAI::tbox::Pointer< SAMRAI::xfer::CoarsenAlgorithm< NDIM > >	d_p_coarsen_alg

SAMRAI::tbox::Pointer< SAMRAI::xfer::CoarsenOperator< NDIM > >	d_u_coarsen_op

SAMRAI::tbox::Pointer< SAMRAI::xfer::CoarsenOperator< NDIM > >	d_p_coarsen_op

SAMRAI::tbox::Pointer< IBTK::CartGridFunction >	d_body_force_fcn

Protected Attributes inherited from IBTK::HierarchyIntegrator
std::string	d_object_name

bool	d_registered_for_restart = false

SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > >	d_hierarchy

SAMRAI::tbox::Pointer< SAMRAI::mesh::GriddingAlgorithm< NDIM > >	d_gridding_alg

SAMRAI::tbox::Pointer< SAMRAI::mesh::LoadBalancer< NDIM > >	d_load_balancer

SAMRAI::tbox::Pointer< SAMRAI::pdat::CellVariable< NDIM, double > >	d_workload_var

int	d_workload_idx = IBTK::invalid_index

bool	d_hierarchy_is_initialized = false

bool	d_may_need_to_reset_hierarchy_configuration = false

HierarchyIntegrator *	d_parent_integrator = nullptr

std::set< HierarchyIntegrator * >	d_child_integrators

SAMRAI::tbox::Pointer< SAMRAI::appu::VisItDataWriter< NDIM > >	d_visit_writer

double	d_integrator_time = std::numeric_limits<double>::quiet_NaN()

double	d_start_time = 0.0

double	d_end_time = std::numeric_limits<double>::max()

double	d_dt_init = std::numeric_limits<double>::max()

double	d_dt_min = 0.0

double	d_dt_max = std::numeric_limits<double>::max()

double	d_dt_growth_factor = 2.0

int	d_integrator_step = 0

int	d_max_integrator_steps = std::numeric_limits<int>::max()

std::deque< double >	d_dt_previous

int	d_num_cycles = 1

int	d_current_num_cycles = -1

int	d_current_cycle_num = -1

double	d_current_dt = std::numeric_limits<double>::quiet_NaN()

int	d_regrid_interval = 1

RegridMode	d_regrid_mode = STANDARD

bool	d_enable_logging = false

bool	d_enable_logging_solver_iterations = false

std::string	d_bdry_extrap_type = "LINEAR"

SAMRAI::tbox::Array< int >	d_tag_buffer = { 0 }

SAMRAI::tbox::Pointer< HierarchyMathOps >	d_hier_math_ops

bool	d_manage_hier_math_ops = true

std::list< SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > > >	d_state_variables

std::list< SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > > >	d_scratch_variables

std::list< SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > > >	d_copy_scratch_to_current_fast

std::list< SAMRAI::tbox::Pointer< SAMRAI::hier::Variable< NDIM > > >	d_copy_scratch_to_current_slow

SAMRAI::hier::ComponentSelector	d_current_data

SAMRAI::hier::ComponentSelector	d_new_data

SAMRAI::hier::ComponentSelector	d_scratch_data

SAMRAI::hier::ComponentSelector	d_plot_data

std::map< SAMRAI::hier::Variable< NDIM > *, SAMRAI::tbox::Pointer< CartGridFunction > >	d_state_var_init_fcns

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	d_current_context

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	d_new_context

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	d_scratch_context

SAMRAI::tbox::Pointer< SAMRAI::hier::VariableContext >	d_plot_context

SAMRAI::hier::ComponentSelector	d_fill_after_regrid_bc_idxs

SAMRAI::xfer::RefineAlgorithm< NDIM >	d_fill_after_regrid_prolong_alg

std::unique_ptr< SAMRAI::xfer::RefinePatchStrategy< NDIM > >	d_fill_after_regrid_phys_bdry_bc_op

std::vector< PreprocessIntegrateHierarchyCallbackFcnPtr >	d_preprocess_integrate_hierarchy_callbacks

std::vector< void * >	d_preprocess_integrate_hierarchy_callback_ctxs

std::vector< IntegrateHierarchyCallbackFcnPtr >	d_integrate_hierarchy_callbacks

std::vector< void * >	d_integrate_hierarchy_callback_ctxs

std::vector< PostprocessIntegrateHierarchyCallbackFcnPtr >	d_postprocess_integrate_hierarchy_callbacks

std::vector< void * >	d_postprocess_integrate_hierarchy_callback_ctxs

std::vector< ApplyGradientDetectorCallbackFcnPtr >	d_apply_gradient_detector_callbacks

std::vector< void * >	d_apply_gradient_detector_callback_ctxs

std::vector< RegridHierarchyCallbackFcnPtr >	d_regrid_hierarchy_callbacks

std::vector< void * >	d_regrid_hierarchy_callback_ctxs

Friends
class	IBStrategy

class	IBEulerianForceFunction

class	IBEulerianSourceFunction

Additional Inherited Members
Public Types inherited from IBTK::HierarchyIntegrator
using	PreprocessIntegrateHierarchyCallbackFcnPtr = void()(double current_time, double new_time, int num_cycles, void ctx)

using	IntegrateHierarchyCallbackFcnPtr = void()(double current_time, double new_time, int cycle_num, void ctx)

using	PostprocessIntegrateHierarchyCallbackFcnPtr = void()(double current_time, double new_time, bool skip_synchronize_new_state_data, int num_cycles, void ctx)

using	ApplyGradientDetectorCallbackFcnPtr = void()(SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, int level_number, double error_data_time, int tag_index, bool initial_time, bool uses_richardson_extrapolation_too, void ctx)

using	RegridHierarchyCallbackFcnPtr = void()(SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > > hierarchy, double data_time, bool initial_time, void ctx)

Static Protected Attributes inherited from IBTK::HierarchyIntegrator
static const std::string	SYNCH_CURRENT_DATA_ALG = "SYNCH_CURRENT_DATA"

static const std::string	SYNCH_NEW_DATA_ALG = "SYNCH_NEW_DATA"

Detailed Description

Class IBHierarchyIntegrator provides an abstract interface for a time integrator for various versions of the immersed boundary method on an AMR grid hierarchy, along with basic data management for variables defined on that hierarchy.

Options Controlling Regridding

Most IBAMR applications involve structure meshes defined on the finest level of the patch hierarchy. These structures move: in particular, they can potentially move off the finest grid level, causing the interaction routines to no longer work.

This class offers two different strategies for calculating how much the structure has moved (which it then uses to specify that a regrid is required):

Estimation based on the fluid: The structure is assumed to move at the maximum velocity of the fluid at each time step. This class will regrid once a single fluid point has moved at least regrid_fluid_cfl_interval cell widths since the last regrid.
Estimation based on the structure: The structure's displacement is calculated directly from its position vector and that value is used to determine the number of cell widths the structure has moved. In this case we will regrid once a point on the structure has moved at least regrid_structure_cfl_interval cell widths since the last regrid.

Both regrid_fluid_cfl_interval and regrid_structure_cfl_interval can be specified in the input database. For backwards compatibility the value regrid_cfl_interval is equivalent to regrid_fluid_cfl_interval. At the present time regrid_structure_cfl_interval is not implemented for all IBStrategy classes.

Alternatively, one can request that the solver (regardless of any computed displacement or velocity) regrid every time a fixed number of timesteps have occurred by specifying regrid_interval in the input database. If either regrid_structure_cfl_interval or regrid_fluid_cfl_interval are provided in the input database then regrid_interval is ignored.

Constructor & Destructor Documentation

◆ ~IBHierarchyIntegrator()

IBAMR::IBHierarchyIntegrator::~IBHierarchyIntegrator ( )

default

The destructor for class IBHierarchyIntegrator unregisters the integrator object with the restart manager when the object is so registered.

◆ IBHierarchyIntegrator()

IBAMR::IBHierarchyIntegrator::IBHierarchyIntegrator	(	const std::string &	object_name,
		SAMRAI::tbox::Pointer< SAMRAI::tbox::Database >	input_db,
		SAMRAI::tbox::Pointer< IBStrategy >	ib_method_ops,
		SAMRAI::tbox::Pointer< INSHierarchyIntegrator >	ins_hier_integrator,
		bool	register_for_restart = `true`
	)

protected

The constructor for class IBHierarchyIntegrator sets some default values, reads in configuration information from input and restart databases, and registers the integrator object with the restart manager when requested.

Member Function Documentation

◆ addWorkloadEstimate()

void IBAMR::IBHierarchyIntegrator::addWorkloadEstimate	(	SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > >	hierarchy,
		const int	workload_data_idx
	)

overrideprotectedvirtual

Add the work contributions (excluding the background grid) for the current hierarchy into the variable with index workload_data_idx. The only direct workload contribution of this hierarchy manager is usually the work done by the IBStrategy object.

Reimplemented from IBTK::HierarchyIntegrator.

◆ applyGradientDetectorSpecialized()

void IBAMR::IBHierarchyIntegrator::applyGradientDetectorSpecialized	(	SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > >	hierarchy,
		int	level_number,
		double	error_data_time,
		int	tag_index,
		bool	initial_time,
		bool	uses_richardson_extrapolation_too
	)

overrideprotectedvirtual

Set integer tags to "one" in cells where refinement of the given level should occur according to the magnitude of the fluid vorticity.

Reimplemented from IBTK::HierarchyIntegrator.

◆ atRegridPointSpecialized()

bool IBAMR::IBHierarchyIntegrator::atRegridPointSpecialized ( ) const

overrideprotectedvirtual

Function to determine whether regridding should occur at the current time step.

Reimplemented from IBTK::HierarchyIntegrator.

◆ getBodyForceVariable()

Pointer< Variable< NDIM > > IBAMR::IBHierarchyIntegrator::getBodyForceVariable ( ) const

Return a pointer to the body force variable.

◆ getFluidSourceVariable()

Pointer< Variable< NDIM > > IBAMR::IBHierarchyIntegrator::getFluidSourceVariable ( ) const

Return a pointer to the source strength variable.

◆ getIBStrategy()

Pointer< IBStrategy > IBAMR::IBHierarchyIntegrator::getIBStrategy ( ) const

Return a pointer to the IBStrategy object registered with this integrator.

◆ getPressureVariable()

Pointer< Variable< NDIM > > IBAMR::IBHierarchyIntegrator::getPressureVariable ( ) const

Return a pointer to the fluid pressure state variable.

◆ getTimeSteppingType()

TimeSteppingType IBAMR::IBHierarchyIntegrator::getTimeSteppingType ( ) const

Return the time stepping scheme.

◆ getVelocityPhysBdryOp()

IBTK::RobinPhysBdryPatchStrategy * IBAMR::IBHierarchyIntegrator::getVelocityPhysBdryOp ( ) const

Return a pointer to the velocity physical boundary conditions

◆ getVelocityVariable()

Pointer< Variable< NDIM > > IBAMR::IBHierarchyIntegrator::getVelocityVariable ( ) const

Return a pointer to the fluid velocity variable.

◆ initializeHierarchyIntegrator()

void IBAMR::IBHierarchyIntegrator::initializeHierarchyIntegrator	(	SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > >	hierarchy,
		SAMRAI::tbox::Pointer< SAMRAI::mesh::GriddingAlgorithm< NDIM > >	gridding_alg
	)

overridevirtual

Initialize the variables, basic communications algorithms, solvers, and other data structures used by this time integrator object.

This method is called automatically by initializePatchHierarchy() prior to the construction of the patch hierarchy. It is also possible for users to make an explicit call to initializeHierarchyIntegrator() prior to calling initializePatchHierarchy().

Implements IBTK::HierarchyIntegrator.

Reimplemented in IBAMR::IBInterpolantHierarchyIntegrator, and IBAMR::IBImplicitStaggeredHierarchyIntegrator.

◆ initializeLevelDataSpecialized()

void IBAMR::IBHierarchyIntegrator::initializeLevelDataSpecialized	(	SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > >	hierarchy,
		int	level_number,
		double	init_data_time,
		bool	can_be_refined,
		bool	initial_time,
		SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchLevel< NDIM > >	old_level,
		bool	allocate_data
	)

overrideprotectedvirtual

Initialize data on a new level after it is inserted into an AMR patch hierarchy by the gridding algorithm.

Reimplemented from IBTK::HierarchyIntegrator.

◆ initializePatchHierarchy()

void IBAMR::IBHierarchyIntegrator::initializePatchHierarchy	(	SAMRAI::tbox::Pointer< SAMRAI::hier::PatchHierarchy< NDIM > >	hierarchy,
		SAMRAI::tbox::Pointer< SAMRAI::mesh::GriddingAlgorithm< NDIM > >	gridding_alg
	)

overridevirtual

Initialize the AMR patch hierarchy and data defined on the hierarchy at the start of a computation. If the computation is begun from a restart file, the patch hierarchy and patch data are read from the hierarchy database. Otherwise, the patch hierarchy and patch data are initialized by the gridding algorithm associated with the integrator object.

The implementation of this function assumes that the hierarchy exists upon entry to the function, but that it contains no patch levels. On return from this function, the state of the integrator object will be such that it is possible to step through time via the advanceHierarchy() function.

Reimplemented from IBTK::HierarchyIntegrator.

◆ postprocessIntegrateHierarchy()

void IBAMR::IBHierarchyIntegrator::postprocessIntegrateHierarchy	(	double	current_time,
		double	new_time,
		bool	skip_synchronize_new_state_data,
		int	num_cycles = `1`
	)

overridevirtual

Clean up data following call(s) to integrateHierarchy().

Reimplemented from IBTK::HierarchyIntegrator.

Reimplemented in IBAMR::IBInterpolantHierarchyIntegrator, and IBAMR::IBImplicitStaggeredHierarchyIntegrator.

◆ preprocessIntegrateHierarchy()

void IBAMR::IBHierarchyIntegrator::preprocessIntegrateHierarchy	(	double	current_time,
		double	new_time,
		int	num_cycles = `1`
	)

overridevirtual

Basic functions to prepare to advance data from current_time to new_time.

A default implementation is provided that sets the current values of num_cycles and the time step size and checks to see if the time step size has changed.

Reimplemented from IBTK::HierarchyIntegrator.

Reimplemented in IBAMR::IBInterpolantHierarchyIntegrator, and IBAMR::IBImplicitStaggeredHierarchyIntegrator.

◆ putToDatabaseSpecialized()

void IBAMR::IBHierarchyIntegrator::putToDatabaseSpecialized ( SAMRAI::tbox::Pointer< SAMRAI::tbox::Database > db )

overrideprotectedvirtual

Write out specialized object state to the given database.

Reimplemented from IBTK::HierarchyIntegrator.

Reimplemented in IBAMR::IBInterpolantHierarchyIntegrator, and IBAMR::IBImplicitStaggeredHierarchyIntegrator.

◆ registerBodyForceFunction()

void IBAMR::IBHierarchyIntegrator::registerBodyForceFunction ( SAMRAI::tbox::Pointer< IBTK::CartGridFunction > F_fcn )

Supply a body force (optional).

◆ registerLoadBalancer()

void IBAMR::IBHierarchyIntegrator::registerLoadBalancer ( SAMRAI::tbox::Pointer< SAMRAI::mesh::LoadBalancer< NDIM > > load_balancer )

overridevirtual

Register a load balancer for non-uniform load balancing.

Reimplemented from IBTK::HierarchyIntegrator.

◆ regridHierarchyBeginSpecialized()

void IBAMR::IBHierarchyIntegrator::regridHierarchyBeginSpecialized ( )

overrideprotectedvirtual

Perform necessary data movement, workload estimation, and logging prior to regridding.

Reimplemented from IBTK::HierarchyIntegrator.

◆ regridHierarchyEndSpecialized()

void IBAMR::IBHierarchyIntegrator::regridHierarchyEndSpecialized ( )

overrideprotectedvirtual

Perform necessary data movement and logging after regridding.

Reimplemented from IBTK::HierarchyIntegrator.

◆ resetHierarchyConfigurationSpecialized()

void IBAMR::IBHierarchyIntegrator::resetHierarchyConfigurationSpecialized	(	SAMRAI::tbox::Pointer< SAMRAI::hier::BasePatchHierarchy< NDIM > >	hierarchy,
		int	coarsest_level,
		int	finest_level
	)

overrideprotectedvirtual

Reset cached hierarchy dependent data.

Reimplemented from IBTK::HierarchyIntegrator.

Member Data Documentation

◆ d_error_on_dt_change

bool IBAMR::IBHierarchyIntegrator::d_error_on_dt_change = true

protected

Flags to determine whether warnings or error messages should be emitted when time step size changes are encountered.

◆ d_ib_context

SAMRAI::tbox::Pointer<SAMRAI::hier::VariableContext> IBAMR::IBHierarchyIntegrator::d_ib_context

protected

Context containing all patch data indices relevant to IB operations.

◆ d_ib_data

SAMRAI::hier::ComponentSelector IBAMR::IBHierarchyIntegrator::d_ib_data

protected

ComponentSelector corresponding to d_ib_context. Also contains patch data indices for relevant cloned indices (which, as they are clones, cannot be placed in the Context).

◆ d_regrid_fluid_cfl_estimate

double IBAMR::IBHierarchyIntegrator::d_regrid_fluid_cfl_estimate = 0.0

protected

Estimation on the maximum fraction of fluid cells the structure has moved based on the maximum fluid velocity.

◆ d_regrid_fluid_cfl_interval

double IBAMR::IBHierarchyIntegrator::d_regrid_fluid_cfl_interval = -1.0

protected

The regrid CFL interval indicates the number of meshwidths a particle may move in any coordinate direction between invocations of the regridding process.

Note: Currently, when the CFL-based regrid interval is specified, it is always used instead of the fixed-step regrid interval.

◆ d_regrid_structure_cfl_estimate

double IBAMR::IBHierarchyIntegrator::d_regrid_structure_cfl_estimate = 0.0

protected

Estimation on the maximum fraction of fluid cells the structure has moved based on the infinity norm of the structure's displacement.

◆ d_time_stepping_type

TimeSteppingType IBAMR::IBHierarchyIntegrator::d_time_stepping_type = MIDPOINT_RULE

protected

Enum indicating the time integration employed for the IB equations.

◆ d_use_structure_predictor

bool IBAMR::IBHierarchyIntegrator::d_use_structure_predictor

protected

Flag indicating whether to use an explicit predictor for the structure configuration in the time stepping scheme.

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

/home/runner/work/IBAMR/IBAMR/include/ibamr/IBHierarchyIntegrator.h
/home/runner/work/IBAMR/IBAMR/src/IB/IBHierarchyIntegrator.cpp

Classes

Public Member Functions

Protected Member Functions

Protected Attributes

Friends

Additional Inherited Members

Detailed Description

Options Controlling Regridding

Constructor & Destructor Documentation

◆ ~IBHierarchyIntegrator()

◆ IBHierarchyIntegrator()

Member Function Documentation

◆ addWorkloadEstimate()

◆ applyGradientDetectorSpecialized()

◆ atRegridPointSpecialized()

◆ getBodyForceVariable()

◆ getFluidSourceVariable()

◆ getIBStrategy()

◆ getPressureVariable()

◆ getTimeSteppingType()

◆ getVelocityPhysBdryOp()

◆ getVelocityVariable()

◆ initializeHierarchyIntegrator()

◆ initializeLevelDataSpecialized()

◆ initializePatchHierarchy()

◆ postprocessIntegrateHierarchy()

◆ preprocessIntegrateHierarchy()

◆ putToDatabaseSpecialized()

◆ registerBodyForceFunction()

◆ registerLoadBalancer()

◆ regridHierarchyBeginSpecialized()

◆ regridHierarchyEndSpecialized()

◆ resetHierarchyConfigurationSpecialized()

Member Data Documentation

◆ d_error_on_dt_change

◆ d_ib_context

◆ d_ib_data

◆ d_regrid_fluid_cfl_estimate

◆ d_regrid_fluid_cfl_interval

◆ d_regrid_structure_cfl_estimate

◆ d_time_stepping_type

◆ d_use_structure_predictor