#include <AmrParticleBase.h>

Inheritance diagram for AmrParticleBase< PLayout >:

Collaboration diagram for AmrParticleBase< PLayout >:

Public Types
typedef PLayout::ParticlePos_t	ParticlePos_t

typedef PLayout::ParticleIndex_t	ParticleIndex_t

typedef PLayout::SingleParticlePos_t	SingleParticlePos_t

typedef PLayout::AmrField_t	AmrField_t

typedef PLayout::AmrVectorField_t	AmrVectorField_t

typedef PLayout::AmrScalarFieldContainer_t	AmrScalarFieldContainer_t

typedef PLayout::AmrVectorFieldContainer_t	AmrVectorFieldContainer_t

typedef long	SortListIndex_t

typedef std::vector < SortListIndex_t >	SortList_t

typedef std::vector < ParticleAttribBase * >	attrib_container_t

typedef AmrParticleLevelCounter < size_t, size_t >	ParticleLevelCounter_t

Public Types inherited from IpplParticleBase< PLayout >
enum	{ Dim = PLayout::Dimension }

typedef PLayout	Layout_t

typedef PLayout::Position_t	Position_t

typedef PLayout::Index_t	Index_t

typedef PLayout::ParticlePos_t	ParticlePos_t

typedef PLayout::ParticleIndex_t	ParticleIndex_t

typedef PLayout::pair_iterator	pair_iterator

typedef PLayout::pair_t	pair_t

typedef PLayout::UpdateFlags	UpdateFlags

typedef std::vector < ParticleAttribBase * >	attrib_container_t

typedef attrib_container_t::iterator	attrib_iterator

typedef ParticleAttribBase::SortList_t	SortList_t

Public Types inherited from DataSource
enum	DsMode { INPUT, OUTPUT, BOTH, DEFAULT }

typedef std::vector < DataSourceObject * >	container_t

Public Types inherited from AbstractParticle< PLayout::Position_t, PLayout::Dimension >
typedef ParticleLayout < PLayout::Position_t, Dim > ::SingleParticlePos_t	SingleParticlePos_t

typedef ParticleLayout < PLayout::Position_t, Dim > ::Index_t	Index_t

typedef ParticleAttrib < SingleParticlePos_t >	ParticlePos_t

typedef ParticleAttrib< Index_t >	ParticleIndex_t

typedef ParticleLayout < PLayout::Position_t, Dim > ::UpdateFlags	UpdateFlags

typedef ParticleLayout < PLayout::Position_t, Dim > ::Position_t	Position_t

typedef ParticleLayout < PLayout::Position_t, Dim >	Layout_t

Public Member Functions
	AmrParticleBase ()

	AmrParticleBase (PLayout *layout)

	~AmrParticleBase ()

void	initializeAmr ()

const ParticleLevelCounter_t &	getLocalNumPerLevel () const

ParticleLevelCounter_t &	getLocalNumPerLevel ()

void	setLocalNumPerLevel (const ParticleLevelCounter_t &LocalNumPerLevel)

void	createWithID (unsigned id)

void	create (size_t M)

void	destroy (size_t M, size_t I, bool doNow=false)

void	performDestroy (bool updateLocalNum=false)

void	update ()

void	update (int lev_min, int lev_max, bool isRegrid=false)

void	update (const ParticleAttrib< char > &canSwap)

void	sort ()

void	sort (SortList_t &sortlist)

PLayout &	getAmrLayout ()

const PLayout &	getAmrLayout () const

void	setForbidTransform (bool forbidTransform)

bool	isForbidTransform () const

const double &	domainMapping (bool inverse=false)

const double &	getScalingFactor () const

void	setLorentzFactor (const Vector_t &lorentzFactor)

Public Member Functions inherited from IpplParticleBase< PLayout >
	IpplParticleBase ()

	IpplParticleBase (PLayout *layout)

	~IpplParticleBase ()

void	initialize (PLayout *)

size_t	getTotalNum () const

size_t	getLocalNum () const

size_t	getDestroyNum () const

size_t	getGhostNum () const

void	setTotalNum (size_t n)

void	setLocalNum (size_t n)

unsigned int	getMinimumNumberOfParticlesPerCore () const

void	setMinimumNumberOfParticlesPerCore (unsigned int n)

PLayout &	getLayout ()

const PLayout &	getLayout () const

ParticleBConds< Position_t, PLayout::Dimension > &	getBConds ()

void	setBConds (const ParticleBConds< Position_t, PLayout::Dimension > &bc)

bool	singleInitNode () const

bool	getUpdateFlag (UpdateFlags f) const

void	setUpdateFlag (UpdateFlags f, bool val)

void	addAttribute (ParticleAttribBase &pa)

ParticleAttribBase &	getAttribute (attrib_container_t::size_type N)

attrib_container_t::size_type	numAttributes () const

attrib_iterator	begin ()

attrib_iterator	end ()

void	resetID ()

void	createWithID (unsigned id)

void	create (size_t)

void	globalCreate (size_t np)

void	destroy (size_t, size_t, bool=false)

size_t	putMessage (Message &, size_t, size_t)

size_t	putMessage (Message &, const std::vector< size_t > &)

size_t	putMessage (Message &, size_t)

Format *	getFormat ()

size_t	writeMsgBuffer (MsgBuffer *&, const std::vector< size_t > &)

template<class O >
size_t	writeMsgBufferWithOffsets (MsgBuffer *&, const std::vector< size_t > &, const std::vector< O > &)

size_t	readMsgBuffer (MsgBuffer *)

size_t	readGhostMsgBuffer (MsgBuffer *, int)

size_t	getMessage (Message &)

size_t	getSingleMessage (Message &)

size_t	getMessageAndCreate (Message &)

void	performDestroy (bool updateLocalNum=false)

void	sort (SortList_t &)

size_t	ghostPutMessage (Message &, size_t, size_t)

size_t	ghostPutMessage (Message &, const std::vector< size_t > &)

size_t	ghostGetMessage (Message &, int)

size_t	ghostGetSingleMessage (Message &, int)

void	ghostDestroy (size_t, size_t)

void	printDebug (Inform &)

Public Member Functions inherited from DataSource
	DataSource ()

virtual	~DataSource ()

bool	connected (DataConnect *=0) const

DataSourceObject *	findDataSourceObject (DataConnect *) const

DataConnect *	connect (const char , DataConnect =0, int=DataSource::DEFAULT)

bool	connect (DataSourceObject *)

bool	disconnect (DataConnect *=0)

bool	updateConnection (DataConnect *=0)

void	interact (DataConnect *=0)

void	interact (const char , DataConnect =0)

Public Member Functions inherited from AbstractParticle< PLayout::Position_t, PLayout::Dimension >
	AbstractParticle ()

virtual	~AbstractParticle ()

virtual bool	getUpdateFlag (UpdateFlags f) const =0

virtual void	setUpdateFlag (UpdateFlags f, bool val)=0

virtual void	setBConds (const ParticleBConds< Position_t, Dim > &bc)=0

Public Attributes
ParticleIndex_t	Level

ParticleIndex_t	Grid

Public Attributes inherited from IpplParticleBase< PLayout >
unsigned int	MIN_NUM_PART_PER_CORE

ParticlePos_t	R

ParticleIndex_t	ID

Public Attributes inherited from AbstractParticle< PLayout::Position_t, PLayout::Dimension >
ParticlePos_t *	R_p

ParticleIndex_t *	ID_p

Protected Attributes
IpplTimings::TimerRef	updateParticlesTimer_m

IpplTimings::TimerRef	sortParticlesTimer_m

IpplTimings::TimerRef	domainMappingTimer_m

bool	forbidTransform_m
	To avoid multiple transformations during regrid. More...

double	scale_m

Vector_t	lorentzFactor_m

Protected Attributes inherited from IpplParticleBase< PLayout >
std::vector< std::pair< size_t, size_t > >	DestroyList

Private Member Functions
void	getLocalBounds_m (Vector_t &rmin, Vector_t &rmax)

void	getGlobalBounds_m (Vector_t &rmin, Vector_t &rmax)

Private Attributes
ParticleLevelCounter_t	LocalNumPerLevel_m

Additional Inherited Members
Protected Member Functions inherited from IpplParticleBase< PLayout >
virtual DataSourceObject *	createDataSourceObject (const char nm, DataConnect dc, int tm)

Detailed Description

template<class PLayout>
class AmrParticleBase< PLayout >

Definition at line 32 of file AmrParticleBase.h.

Member Typedef Documentation

template<class PLayout>

typedef PLayout::AmrField_t AmrParticleBase< PLayout >::AmrField_t

Definition at line 38 of file AmrParticleBase.h.

template<class PLayout>

typedef PLayout::AmrScalarFieldContainer_t AmrParticleBase< PLayout >::AmrScalarFieldContainer_t

Definition at line 40 of file AmrParticleBase.h.

template<class PLayout>

typedef PLayout::AmrVectorField_t AmrParticleBase< PLayout >::AmrVectorField_t

Definition at line 39 of file AmrParticleBase.h.

template<class PLayout>

typedef PLayout::AmrVectorFieldContainer_t AmrParticleBase< PLayout >::AmrVectorFieldContainer_t

Definition at line 41 of file AmrParticleBase.h.

template<class PLayout>

typedef std::vector<ParticleAttribBase *> AmrParticleBase< PLayout >::attrib_container_t

Definition at line 45 of file AmrParticleBase.h.

template<class PLayout>

typedef PLayout::ParticleIndex_t AmrParticleBase< PLayout >::ParticleIndex_t

Definition at line 36 of file AmrParticleBase.h.

template<class PLayout>

typedef AmrParticleLevelCounter<size_t, size_t> AmrParticleBase< PLayout >::ParticleLevelCounter_t

Definition at line 50 of file AmrParticleBase.h.

template<class PLayout>

typedef PLayout::ParticlePos_t AmrParticleBase< PLayout >::ParticlePos_t

Definition at line 35 of file AmrParticleBase.h.

template<class PLayout>

typedef PLayout::SingleParticlePos_t AmrParticleBase< PLayout >::SingleParticlePos_t

Definition at line 37 of file AmrParticleBase.h.

template<class PLayout>

typedef std::vector<SortListIndex_t> AmrParticleBase< PLayout >::SortList_t

Definition at line 44 of file AmrParticleBase.h.

template<class PLayout>

typedef long AmrParticleBase< PLayout >::SortListIndex_t

Definition at line 43 of file AmrParticleBase.h.

Constructor & Destructor Documentation

template<class PLayout >

AmrParticleBase< PLayout >::AmrParticleBase ( )

Definition at line 8 of file AmrParticleBase.hpp.

References AmrParticleBase< PLayout >::domainMappingTimer_m, IpplTimings::getTimer(), AmrParticleBase< PLayout >::sortParticlesTimer_m, and AmrParticleBase< PLayout >::updateParticlesTimer_m.

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template<class PLayout>

AmrParticleBase< PLayout >::AmrParticleBase ( PLayout * layout )

Definition at line 21 of file AmrParticleBase.hpp.

References AmrParticleBase< PLayout >::domainMappingTimer_m, IpplTimings::getTimer(), AmrParticleBase< PLayout >::sortParticlesTimer_m, and AmrParticleBase< PLayout >::updateParticlesTimer_m.

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template<class PLayout>

AmrParticleBase< PLayout >::~AmrParticleBase ( )

inline

Definition at line 58 of file AmrParticleBase.h.

Member Function Documentation

template<class PLayout >

void AmrParticleBase< PLayout >::create ( size_t M )

virtual

Implements AbstractParticle< PLayout::Position_t, PLayout::Dimension >.

Definition at line 100 of file AmrParticleBase.hpp.

References IpplParticleBase< PLayout >::create().

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template<class PLayout >

void AmrParticleBase< PLayout >::createWithID ( unsigned id )

virtual

Implements AbstractParticle< PLayout::Position_t, PLayout::Dimension >.

Definition at line 117 of file AmrParticleBase.hpp.

References IpplParticleBase< PLayout >::createWithID().

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template<class PLayout >

void AmrParticleBase< PLayout >::destroy	(	size_t	M,
		size_t	I,
		bool	doNow = `false`
	)

virtual

Implements AbstractParticle< PLayout::Position_t, PLayout::Dimension >.

Definition at line 60 of file AmrParticleBase.hpp.

References IpplParticleBase< PLayout >::destroy().

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template<class PLayout >

const double & AmrParticleBase< PLayout >::domainMapping ( bool inverse = false )

Linear mapping to AMReX computation domain [-1, 1]^3 including the Lorentz transform. All dimensions are mapped by the same scaling factor. The potential and electric field need to be scaled afterwards appropriately.

Parameters

PData	is the particle data
inverse	is true if we want to do the inverse operation

Returns: scaling factor

Definition at line 230 of file AmrParticleBase.hpp.

References abs(), matheval::detail::math::isinf(), matheval::detail::math::isnan(), max(), IpplInfo::myNode(), Attrib::Distribution::R, IpplTimings::startTimer(), and IpplTimings::stopTimer().

Referenced by AmrPartBunch::boundp(), AmrBoxLib::computeSelfFields_cycl(), AmrPartBunch::do_binaryRepart(), and AmrBoxLib::initFineLevels().

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template<class PLayout>

PLayout& AmrParticleBase< PLayout >::getAmrLayout ( )

inline

Definition at line 111 of file AmrParticleBase.h.

References IpplParticleBase< PLayout >::getLayout().

Referenced by AmrPartBunch::set_meshEnlargement(), AmrPartBunch::setAmrDomainRatio(), and AmrYtWriter::writeBunch().

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template<class PLayout>

const PLayout& AmrParticleBase< PLayout >::getAmrLayout ( ) const

inline

Definition at line 112 of file AmrParticleBase.h.

References IpplParticleBase< PLayout >::getLayout().

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template<class PLayout >

void AmrParticleBase< PLayout >::getGlobalBounds_m	(	Vector_t &	rmin,
		Vector_t &	rmax
	)

private

Definition at line 335 of file AmrParticleBase.hpp.

References allreduce(), and min().

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template<class PLayout >

void AmrParticleBase< PLayout >::getLocalBounds_m	(	Vector_t &	rmin,
		Vector_t &	rmax
	)

private

Definition at line 314 of file AmrParticleBase.hpp.

References max(), and Attrib::Distribution::R.

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template<class PLayout >

const AmrParticleBase< PLayout >::ParticleLevelCounter_t & AmrParticleBase< PLayout >::getLocalNumPerLevel ( ) const

Definition at line 37 of file AmrParticleBase.hpp.

Referenced by AmrPartBunch::gatherLevelStatistics(), AmrBoxLib::postRegrid_m(), AmrBoxLib::tagForMaxNumParticles_m(), AmrBoxLib::tagForMinNumParticles_m(), AmrBoxLib::tagForMomenta_m(), AmrYtWriter::writeBunch(), and AmrYtWriter::writeParticles_m().

template<class PLayout >

AmrParticleBase< PLayout >::ParticleLevelCounter_t & AmrParticleBase< PLayout >::getLocalNumPerLevel ( )

Definition at line 45 of file AmrParticleBase.hpp.

template<class PLayout >

const double & AmrParticleBase< PLayout >::getScalingFactor ( ) const

inline

This function is used during the cell tagging routines.

Returns: the scaling factor of the particle domain mapping.

Definition at line 303 of file AmrParticleBase.hpp.

Referenced by AmrPartBunch::get_hr(), and AmrBoxLib::tagForChargeDensity_m().

template<class PLayout>

void AmrParticleBase< PLayout >::initializeAmr ( )

inline

Definition at line 61 of file AmrParticleBase.h.

References IpplParticleBase< PLayout >::addAttribute(), AmrParticleBase< PLayout >::Grid, and AmrParticleBase< PLayout >::Level.

Referenced by AmrPartBunch::AmrPartBunch().

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template<class PLayout >

bool AmrParticleBase< PLayout >::isForbidTransform ( ) const

inline

Returns: true if we are not mapping the particles onto \([-1, 1]^3\) during an update call.

Definition at line 224 of file AmrParticleBase.hpp.

Referenced by AmrPartBunch::boundp(), AmrPartBunch::do_binaryRepart(), and AmrBoxLib::initFineLevels().

template<class PLayout >

void AmrParticleBase< PLayout >::performDestroy ( bool updateLocalNum = false )

virtual

Implements AbstractParticle< PLayout::Position_t, PLayout::Dimension >.

Definition at line 75 of file AmrParticleBase.hpp.

References IpplParticleBase< PLayout >::performDestroy().

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template<class PLayout >

void AmrParticleBase< PLayout >::setForbidTransform ( bool forbidTransform )

inline

This method is used in the AmrPartBunch::boundp() function in order to avoid multpile particle mappings during the mesh regridding process.

Parameters

forbidTransform true if we don't want to map particles onto \([-1, 1]^3\)

Definition at line 218 of file AmrParticleBase.hpp.

Referenced by AmrPartBunch::boundp(), AmrBoxLib::computeSelfFields_cycl(), AmrPartBunch::do_binaryRepart(), and AmrBoxLib::initFineLevels().

template<class PLayout >

void AmrParticleBase< PLayout >::setLocalNumPerLevel ( const ParticleLevelCounter_t & LocalNumPerLevel )

Definition at line 52 of file AmrParticleBase.hpp.

template<class PLayout >

void AmrParticleBase< PLayout >::setLorentzFactor ( const Vector_t & lorentzFactor )

Definition at line 308 of file AmrParticleBase.hpp.

Referenced by AmrPartBunch::updateLorentzFactor().

template<class PLayout >

void AmrParticleBase< PLayout >::sort ( )

Definition at line 180 of file AmrParticleBase.hpp.

References IpplTimings::startTimer(), and IpplTimings::stopTimer().

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template<class PLayout >

void AmrParticleBase< PLayout >::sort ( SortList_t & sortlist )

Definition at line 209 of file AmrParticleBase.hpp.

template<class PLayout >

void AmrParticleBase< PLayout >::update ( )

virtual

Reimplemented from IpplParticleBase< PLayout >.

Definition at line 131 of file AmrParticleBase.hpp.

Referenced by AmrBoxLib::computeSelfFields_cycl(), AmrBoxLib::postRegrid_m(), AmrBoxLib::tagForChargeDensity_m(), AmrBoxLib::tagForMaxNumParticles_m(), AmrBoxLib::tagForMinNumParticles_m(), and AmrBoxLib::tagForMomenta_m().

template<class PLayout >

void AmrParticleBase< PLayout >::update	(	int	lev_min,
		int	lev_max,
		bool	isRegrid = `false`
	)

There's is NO check performed if lev_min <= lev_max and lev_min >= 0.

Parameters

lev_min	is the start level to update
lev_max	is the last level to update
isRegrid	is true if we are updating the grids (default: false)

Definition at line 138 of file AmrParticleBase.hpp.

References INCIPPLSTAT, PAssert, IpplTimings::startTimer(), and IpplTimings::stopTimer().

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template<class PLayout >

void AmrParticleBase< PLayout >::update ( const ParticleAttrib< char > & canSwap )

virtual

Reimplemented from IpplParticleBase< PLayout >.

Definition at line 159 of file AmrParticleBase.hpp.

References INCIPPLSTAT, PAssert, IpplTimings::startTimer(), and IpplTimings::stopTimer().

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Member Data Documentation

template<class PLayout>

IpplTimings::TimerRef AmrParticleBase< PLayout >::domainMappingTimer_m

protected

Definition at line 159 of file AmrParticleBase.h.

Referenced by AmrParticleBase< PLayout >::AmrParticleBase().

template<class PLayout>

bool AmrParticleBase< PLayout >::forbidTransform_m

protected

To avoid multiple transformations during regrid.

Definition at line 161 of file AmrParticleBase.h.

template<class PLayout>

ParticleIndex_t AmrParticleBase< PLayout >::Grid

Definition at line 48 of file AmrParticleBase.h.

Referenced by AmrParticleBase< PLayout >::initializeAmr(), and AmrYtWriter::writeParticles_m().

template<class PLayout>

ParticleIndex_t AmrParticleBase< PLayout >::Level

Definition at line 47 of file AmrParticleBase.h.

Referenced by AmrParticleBase< PLayout >::initializeAmr().

template<class PLayout>

ParticleLevelCounter_t AmrParticleBase< PLayout >::LocalNumPerLevel_m

private

Definition at line 180 of file AmrParticleBase.h.

template<class PLayout>

Vector_t AmrParticleBase< PLayout >::lorentzFactor_m

protected

Lorentz factor used for the domain mapping. Is updated in AmrBoxLib

Definition at line 174 of file AmrParticleBase.h.

template<class PLayout>

double AmrParticleBase< PLayout >::scale_m

protected

Scaling factor for particle coordinate transform (used for Poisson solve and particle-to-core distribution)

Definition at line 167 of file AmrParticleBase.h.

template<class PLayout>

IpplTimings::TimerRef AmrParticleBase< PLayout >::sortParticlesTimer_m

protected

Definition at line 158 of file AmrParticleBase.h.

Referenced by AmrParticleBase< PLayout >::AmrParticleBase().

template<class PLayout>

IpplTimings::TimerRef AmrParticleBase< PLayout >::updateParticlesTimer_m

protected

Definition at line 157 of file AmrParticleBase.h.

Referenced by AmrParticleBase< PLayout >::AmrParticleBase().

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

ippl/src/AmrParticle/AmrParticleBase.h
ippl/src/AmrParticle/AmrParticleBase.hpp

Public Types

Public Member Functions

Public Attributes

Protected Attributes

Private Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

template<class PLayout> class AmrParticleBase< PLayout >

Member Typedef Documentation

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation

template<class PLayout>
class AmrParticleBase< PLayout >