#include <KernelMatrix.hpp>

Inheritance diagram for hmlp::DistKernelMatrix< T, TP, Allocator >:

Public Member Functions
	DistKernelMatrix (size_t m, size_t n, size_t d, DistData< STAR, CBLK, TP > &sources, DistData< STAR, CBLK, TP > &targets, mpi::Comm comm)

	DistKernelMatrix (size_t m, size_t n, size_t d, kernel_s< T, TP > &kernel, DistData< STAR, CBLK, TP > &sources, DistData< STAR, CBLK, TP > &targets, mpi::Comm comm)

	DistKernelMatrix (size_t n, size_t d, DistData< STAR, CBLK, TP > &sources, mpi::Comm comm)

	DistKernelMatrix (size_t n, size_t d, kernel_s< T, TP > &kernel, DistData< STAR, CBLK, TP > &sources, mpi::Comm comm)

	DistKernelMatrix (DistData< STAR, CBLK, TP > &sources, mpi::Comm comm)

	~DistKernelMatrix ()

virtual T	operator() (size_t i, size_t j) override

virtual Data< T >	operator() (const vector< size_t > &I, const vector< size_t > &J) override

virtual Data< T >	GeometryDistances (const vector< size_t > &I, const vector< size_t > &J) override

Data< T >	Diagonal (vector< size_t > &I)

pair< T, size_t >	ImportantSample (size_t j)

void	Print ()

size_t	dim ()

double	flops (size_t na, size_t nb)

void	SendIndices (vector< size_t > ids, int dest, mpi::Comm comm)

void	RecvIndices (int src, mpi::Comm comm, mpi::Status *status)

void	BcastIndices (vector< size_t > ids, int root, mpi::Comm comm)

void	RequestIndices (const vector< vector< size_t >> &ids) override

Public Member Functions inherited from hmlp::DistVirtualMatrix< T, Allocator >
	DistVirtualMatrix (size_t m, size_t n, mpi::Comm comm)

Public Member Functions inherited from hmlp::VirtualMatrix< T, Allocator >
	VirtualMatrix (size_t m, size_t n)

virtual void	resize (size_t m, size_t n)

size_t	row ()

size_t	col ()

Data< T >	KernelDistances (const vector< size_t > &I, const vector< size_t > &J)

Data< T >	AngleDistances (const vector< size_t > &I, const vector< size_t > &J)

virtual Data< T >	UserDistances (const vector< size_t > &I, const vector< size_t > &J)

Data< T >	Distances (DistanceMetric metric, const vector< size_t > &I, const vector< size_t > &J)

virtual Data< pair< T, size_t > >	NeighborSearch (DistanceMetric metric, size_t kappa, const vector< size_t > &Q, const vector< size_t > &R, pair< T, size_t > init)

virtual Data< T >	Diagonal (const vector< size_t > &I)

virtual pair< T, int >	ImportantSample (int j)

Public Member Functions inherited from hmlp::mpi::MPIObject
	MPIObject (mpi::Comm comm)

void	AssignCommunicator (mpi::Comm &comm)

mpi::Comm	GetComm ()

mpi::Comm	GetPrivateComm ()

int	GetCommSize ()

int	GetCommRank ()

int	Comm_size ()

int	Comm_rank ()

int	Barrier ()

int	PrivateBarrier ()

Public Member Functions inherited from hmlp::ReadWrite
	ReadWrite ()

void	DependencyAnalysis (ReadWriteType type, Task *task)
	This is the key function that encode the dependency. More...

void	DependencyCleanUp ()

Additional Inherited Members
Public Types inherited from hmlp::VirtualMatrix< T, Allocator >
typedef T	T

Public Attributes inherited from hmlp::ReadWrite
deque< Task * >	read

deque< Task * >	write

Detailed Description

template<typename T, typename TP, class Allocator = std::allocator<TP>>
class hmlp::DistKernelMatrix< T, TP, Allocator >

end class KernelMatrix

Constructor & Destructor Documentation

template<typename T , typename TP , class Allocator = std::allocator<TP>>

hmlp::DistKernelMatrix< T, TP, Allocator >::DistKernelMatrix	(	size_t	m,
		size_t	n,
		size_t	d,
		DistData< STAR, CBLK, TP > &	sources,
		DistData< STAR, CBLK, TP > &	targets,
		mpi::Comm	comm
	)

inline

(Default) unsymmetric kernel matrix

Parameters

sources	by default we assume sources are distributed in [STAR, CBLK]
targets	by default we assume targets are distributed in [STAR, CBLK]

template<typename T , typename TP , class Allocator = std::allocator<TP>>

hmlp::DistKernelMatrix< T, TP, Allocator >::DistKernelMatrix	(	size_t	m,
		size_t	n,
		size_t	d,
		kernel_s< T, TP > &	kernel,
		DistData< STAR, CBLK, TP > &	sources,
		DistData< STAR, CBLK, TP > &	targets,
		mpi::Comm	comm
	)

inline

Unsymmetric kernel matrix with legacy kernel_s<T>

Parameters

sources	by default we assume sources are distributed in [STAR, CBLK]
targets	by default we assume targets are distributed in [STAR, CBLK]

template<typename T , typename TP , class Allocator = std::allocator<TP>>

hmlp::DistKernelMatrix< T, TP, Allocator >::DistKernelMatrix	(	size_t	n,
		size_t	d,
		DistData< STAR, CBLK, TP > &	sources,
		mpi::Comm	comm
	)

inline

(Default) symmetric kernel matrix

Parameters

sources by default we assume sources are distributed in [STAR, CBLK]

template<typename T , typename TP , class Allocator = std::allocator<TP>>

hmlp::DistKernelMatrix< T, TP, Allocator >::DistKernelMatrix	(	size_t	n,
		size_t	d,
		kernel_s< T, TP > &	kernel,
		DistData< STAR, CBLK, TP > &	sources,
		mpi::Comm	comm
	)

inline

Symmetric kernel matrix with legacy kernel_s<T>

Parameters

sources by default we assume sources are distributed in [STAR, CBLK]

template<typename T , typename TP , class Allocator = std::allocator<TP>>

hmlp::DistKernelMatrix< T, TP, Allocator >::~DistKernelMatrix ( )

inline

(Default) destructor

Member Function Documentation

template<typename T , typename TP , class Allocator = std::allocator<TP>>

void hmlp::DistKernelMatrix< T, TP, Allocator >::BcastIndices	(	vector< size_t >	ids,
		int	root,
		mpi::Comm	comm
	)

inlinevirtual

Bcast cids from sender for K( :, cids ) evaluation.

Bcast size of cids from root

Resize to receive cids and parameters

Bcast cids and parameters from root

Insert into hash table

Reimplemented from hmlp::SPDMatrixMPISupport< T >.

template<typename T , typename TP , class Allocator = std::allocator<TP>>

Data<T> hmlp::DistKernelMatrix< T, TP, Allocator >::Diagonal ( vector< size_t > & I )

inline

end GeometryDistances() Get the diagonal of KII, i.e. diag( K( I, I ) ).

MPI

return values

NOTICE: even KIJ can be an 0-by-0 matrix for this MPI rank, yet early return is not allowed. All MPI process must execute all collaborative communication routines to avoid deadlock.

at this moment we already have the corrdinates on this process

template<typename T , typename TP , class Allocator = std::allocator<TP>>

size_t hmlp::DistKernelMatrix< T, TP, Allocator >::dim ( )

inline

end Print() return number of attributes

template<typename T , typename TP , class Allocator = std::allocator<TP>>

double hmlp::DistKernelMatrix< T, TP, Allocator >::flops	(	size_t	na,
		size_t	nb
	)

inline

flops required for Kab

template<typename T , typename TP , class Allocator = std::allocator<TP>>

virtual Data<T> hmlp::DistKernelMatrix< T, TP, Allocator >::GeometryDistances	(	const vector< size_t > &	I,
		const vector< size_t > &	J
	)

inlineoverridevirtual

Early return if possible.

Request for coordinates: A (targets), B (sources).

For symmetry matrices, extract from sources.

For non-symmetry matrices, extract from targets and sources.

Compute inner products.

Compute square 2-norms.

end omp parallel for

Add square norms to inner products to get square distances.

Return all pair-wise distances.

Reimplemented from hmlp::VirtualMatrix< T, Allocator >.

template<typename T , typename TP , class Allocator = std::allocator<TP>>

pair<T, size_t> hmlp::DistKernelMatrix< T, TP, Allocator >::ImportantSample ( size_t j )

inlinevirtual

end Diagonal() Important sampling

Reimplemented from hmlp::VirtualMatrix< T, Allocator >.

template<typename T , typename TP , class Allocator = std::allocator<TP>>

virtual T hmlp::DistKernelMatrix< T, TP, Allocator >::operator()	(	size_t	i,
		size_t	j
	)

inlineoverridevirtual

(Overwrittable) Request a single Kij

Implements hmlp::VirtualMatrix< T, Allocator >.

template<typename T , typename TP , class Allocator = std::allocator<TP>>

virtual Data<T> hmlp::DistKernelMatrix< T, TP, Allocator >::operator()	(	const vector< size_t > &	I,
		const vector< size_t > &	J
	)

inlineoverridevirtual

end operator () (Overwrittable) ESSENTIAL: return K( I, J )

Early return if possible.

Request for coordinates: A (targets), B (sources).

Reimplemented from hmlp::VirtualMatrix< T, Allocator >.

template<typename T , typename TP , class Allocator = std::allocator<TP>>

void hmlp::DistKernelMatrix< T, TP, Allocator >::RecvIndices	(	int	src,
		mpi::Comm	comm,
		mpi::Status *	status
	)

inlinevirtual

Insert into hash table

Reimplemented from hmlp::SPDMatrixMPISupport< T >.

template<typename T , typename TP , class Allocator = std::allocator<TP>>

void hmlp::DistKernelMatrix< T, TP, Allocator >::RequestIndices ( const vector< vector< size_t >> & ids )

inlineoverridevirtual

Send out cids request to each rank.

Exchange out parameters.

Reimplemented from hmlp::SPDMatrixMPISupport< T >.

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

/home/chenhany/Projects/hmlp/frame/containers/KernelMatrix.hpp

Public Member Functions

Additional Inherited Members

Detailed Description

template<typename T, typename TP, class Allocator = std::allocator<TP>> class hmlp::DistKernelMatrix< T, TP, Allocator >

Constructor & Destructor Documentation

Member Function Documentation

template<typename T, typename TP, class Allocator = std::allocator<TP>>
class hmlp::DistKernelMatrix< T, TP, Allocator >