#include <pm_system_stokes.h>

Inheritance diagram for libMesh::PMSystemStokes:

Collaboration diagram for libMesh::PMSystemStokes:

Public Types
typedef PMSystemStokes	sys_type

Public Types inherited from libMesh::PMLinearImplicitSystem
typedef PMLinearImplicitSystem	sys_type

Public Member Functions
	PMSystemStokes (EquationSystems &es, const std::string &name, const unsigned int number)

virtual	~PMSystemStokes ()

sys_type &	system ()

void	reinit_hi_system (bool &neighbor_list_update_flag)

void	reinit_fd_system (bool &neighbor_list_update_flag)

void	clear ()

void	assemble_matrix (const std::string &system_name, const std::string &option)

void	assemble_rhs (const std::string &system_name, const std::string &option)

void	solve (const std::string &option, const bool &re_init)

void	add_local_solution ()

void	test_l2_norm (bool &neighbor_list_update_flag)

void	write_equation_systems (const std::size_t time_step, const std::string &output_filename, const std::string &output_format)

StokesSolver &	stokes_solver ()

void	compute_point_velocity (const std::string &option, std::vector< Real > &pv)

std::vector< Real >	compute_unperturbed_point_velocity ()

std::vector< Real >	point_velocity (const std::vector< Real > &vel_beads, const std::size_t i) const

std::vector< Real >	local_velocity_fluid (const Point &p, const std::string &force_type) const

std::vector< Real >	local_velocity_fluid (const Elem *elem, const Point &p, const std::string &force_type) const

Point	local_velocity_bead (const std::size_t &bead_id, const std::string &force_type) const

Point	global_self_exclusion (const std::size_t p_id) const

void	test_velocity_profile (bool &neighbor_list_update_flag)

void	write_fluid_velocity_data (const std::string &filename)

Public Member Functions inherited from libMesh::PMLinearImplicitSystem
	PMLinearImplicitSystem (EquationSystems &es, const std::string &name, const unsigned int number)

virtual	~PMLinearImplicitSystem ()

sys_type &	system ()

void	attach_point_mesh (PointMesh< 3 > *pm)

PointMesh< 3 > *	point_mesh ()

PointMesh< 3 > *	point_mesh () const

void	attach_particle_mesh (ParticleMesh< 3 > *pm)

ParticleMesh< 3 > *	particle_mesh ()

ParticleMesh< 3 > *	particle_mesh () const

void	attach_fixes (std::vector< Fix * > fixes)

std::vector< Fix * >	fixes ()

std::vector< Fix * >	fixes () const

void	write_out_single_particle (const Point &coords, const std::vector< Real > &vel, const int i_step, const Real time) const

void	write_out_point_coordinate (Vec *ROUT, const std::size_t istep, const Real &time, const std::string &f_name, const std::string &openmode) const

void	write_point_csv (const std::string &filename, const std::vector< Real > &pv, const bool write_velocity) const

PetscErrorCode	write_point_csv (const std::string &filename, Vec *petsc_vector, const bool write_velocity) const

Additional Inherited Members
Protected Attributes inherited from libMesh::PMLinearImplicitSystem
PointMesh< 3 > *	_point_mesh

ParticleMesh< 3 > *	_particle_mesh

std::vector< Fix * >	_fixes

Member Typedef Documentation

typedef PMSystemStokes libMesh::PMSystemStokes::sys_type

The type of system.

Constructor & Destructor Documentation

libMesh::PMSystemStokes::PMSystemStokes	(	EquationSystems &	es,
		const std::string &	name,
		const unsigned int	number
	)

Constructor.

libMesh::PMSystemStokes::~PMSystemStokes ( )

virtual

Destructor.

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Member Function Documentation

void libMesh::PMSystemStokes::add_local_solution ( )

virtual

Implements libMesh::PMLinearImplicitSystem.

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void libMesh::PMSystemStokes::assemble_matrix	(	const std::string &	system_name,
		const std::string &	option
	)

virtual

Assemble the system matrix. option == "undisturbed" : undisturbed velocity field (without particles) option == "disturbed" : disturbed velocity field (with particles)

Implements libMesh::PMLinearImplicitSystem.

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void libMesh::PMSystemStokes::assemble_rhs	(	const std::string &	system_name,
		const std::string &	option
	)

virtual

Assemble the system rhs.

Implements libMesh::PMLinearImplicitSystem.

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void libMesh::PMSystemStokes::clear ( )

virtual

Clear all the data structures associated with the system.

Implements libMesh::PMLinearImplicitSystem.

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void libMesh::PMSystemStokes::compute_point_velocity	(	const std::string &	option,
		std::vector< Real > &	pv
	)

Compute the purturbed velocity vector of moving points according to physical fields. which is a dim*N vector NOTE that the "self-term" should be excluded, which is done in GGEMSystem. See ref. [1] Y Zhang, J J de Pablo, and M D Graham, J Chem Phys (2012) 014901. [2] P Pranay, S G Anekal, J P Hernandez-Ortiz, Phys Fluids (2010)

option = "disturbed" or "undistrubed" pv = particle_velocity

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std::vector< Real > libMesh::PMSystemStokes::compute_unperturbed_point_velocity ( )

Compute the unperturbed velocity vector at the location of particles

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Point libMesh::PMSystemStokes::global_self_exclusion ( const std::size_t p_id ) const

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Point libMesh::PMSystemStokes::local_velocity_bead	(	const std::size_t &	bead_id,
		const std::string &	force_type
	)		const

Local velocity of a bead in an unbounded space, which is computed from Green's function. force_type: "regularized" or "smooth"

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std::vector< Number > libMesh::PMSystemStokes::local_velocity_fluid	(	const Point &	p,
		const std::string &	force_type
	)		const

Local velocity of a fluid point in an unbounded space, which is computed from Green's function force_type: "regularized" or "smooth"

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std::vector< Number > libMesh::PMSystemStokes::local_velocity_fluid	(	const Elem *	elem,
		const Point &	p,
		const std::string &	force_type
	)		const

Local velocity of a fluid point in an unbounded space, which is computed from Green's function force_type: "regularized" or "smooth"

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std::vector< Real > libMesh::PMSystemStokes::point_velocity	(	const std::vector< Real > &	vel_beads,
		const std::size_t	i
	)		const

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void libMesh::PMSystemStokes::reinit_fd_system ( bool & neighbor_list_update_flag )

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void libMesh::PMSystemStokes::reinit_hi_system ( bool & neighbor_list_update_flag )

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void libMesh::PMSystemStokes::solve	(	const std::string &	option,
		const bool &	re_init
	)

virtual

Solve the system.

Implements libMesh::PMLinearImplicitSystem.

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StokesSolver& libMesh::PMSystemStokes::stokes_solver ( )

inline

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sys_type& libMesh::PMSystemStokes::system ( )

inline

Returns: a clever pointer to the system.

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void libMesh::PMSystemStokes::test_l2_norm ( bool & neighbor_list_update_flag )

virtual

Implements libMesh::PMLinearImplicitSystem.

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void libMesh::PMSystemStokes::test_velocity_profile ( bool & neighbor_list_update_flag )

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void libMesh::PMSystemStokes::write_equation_systems	(	const std::size_t	time_step,
		const std::string &	output_filename,
		const std::string &	output_format
	)

virtual

Implements libMesh::PMLinearImplicitSystem.

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void libMesh::PMSystemStokes::write_fluid_velocity_data ( const std::string & filename )

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

/home/cody/copss-hydrodynamics-public/src/pm_system_stokes.h
/home/cody/copss-hydrodynamics-public/src/pm_system_stokes.C

Public Types

Public Member Functions

Additional Inherited Members

Member Typedef Documentation

Constructor & Destructor Documentation

Member Function Documentation