dlvhex: bm::gap_transpose_engine< GT, BT, BLOCK_SIZE > Class Template Reference

dlvhex 2.5.0

Bit-plain splicing of a GAP block. More...

#include <vs10/bm/bmtrans.h>

Collaboration diagram for bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >:

Collaboration graph

Public Types
typedef tmatrix< GT, sizeof(GT)8,(((BLOCK_SIZE sizeof(unsigned))/(sizeof(GT)))/(sizeof(GT)*8))	tmatrix_type )
	cryptic calculation of equivalent size for the transpose matrix based on BLOCK_SIZE and sizeof(GT)(16)
typedef tmatrix< GT, sizeof(GT)8,(((BLOCK_SIZE sizeof(unsigned))/(sizeof(GT)))/(sizeof(GT)*8))	tmatrix_type )
	cryptic calculation of equivalent size for the transpose matrix based on BLOCK_SIZE and sizeof(GT)(16)
Public Member Functions
	gap_transpose_engine ()
void	transpose (const GT *BMRESTRICT gap_buf)
	Transpose GAP block through a temp.
void	transpose (const GT *BMRESTRICT garr, unsigned garr_size)
	Transpose array of shorts.
void	compute_distance_matrix ()
void	reduce ()
void	restore ()
void	trestore (GT gap_head, GT *BMRESTRICT gap_buf)
	Restore GAP block from the transposed matrix.
	gap_transpose_engine ()
void	transpose (const GT *BMRESTRICT gap_buf)
	Transpose GAP block through a temp.
void	transpose (const GT *BMRESTRICT garr, unsigned garr_size)
	Transpose array of shorts.
void	compute_distance_matrix ()
void	reduce ()
void	restore ()
void	trestore (GT gap_head, GT *BMRESTRICT gap_buf)
	Restore GAP block from the transposed matrix.
Data Fields
tmatrix_type	tmatrix_
unsigned	eff_cols_
unsigned	distance_ [tmatrix_type::n_rows][tmatrix_type::n_rows]
unsigned char	pc_vector_ [tmatrix_type::n_rows]
unsigned	pc_vector_stat_ [bm::ibpc_end]
tmatrix_type::rstat	rstat_vector_ [tmatrix_type::n_rows]
GT BM_ALIGN16 tmp_gap_block_[BLOCK_SIZE *2]	BM_ALIGN16ATTR

Detailed Description

template<typename GT, typename BT, unsigned BLOCK_SIZE>
class bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >

Bit-plain splicing of a GAP block.

GT - gap word type BT - block word type BLOCK_SIZE - bit block size in words (works as a transposition basis)

Definition at line 774 of file bmtrans.h.

Member Typedef Documentation

template<typename GT , typename BT , unsigned BLOCK_SIZE>

typedef tmatrix<GT, sizeof(GT)*8, (((BLOCK_SIZE * sizeof(unsigned)) / (sizeof(GT))) / (sizeof(GT) * 8)) bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_type)

cryptic calculation of equivalent size for the transpose matrix based on BLOCK_SIZE and sizeof(GT)(16)

matrix[size_of_gap*8][(Size_block_in_bytes / size_of_gap) / number_of_planes)]

Definition at line 784 of file bmtrans.h.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

typedef tmatrix<GT, sizeof(GT)*8, (((BLOCK_SIZE * sizeof(unsigned)) / (sizeof(GT))) / (sizeof(GT) * 8)) bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_type)

cryptic calculation of equivalent size for the transpose matrix based on BLOCK_SIZE and sizeof(GT)(16)

matrix[size_of_gap*8][(Size_block_in_bytes / size_of_gap) / number_of_planes)]

Definition at line 784 of file bmtrans.h.

Constructor & Destructor Documentation

template<typename GT , typename BT , unsigned BLOCK_SIZE>

bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::gap_transpose_engine ( ) [inline]

Definition at line 786 of file bmtrans.h.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::gap_transpose_engine ( ) [inline]

Definition at line 786 of file bmtrans.h.

Member Function Documentation

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::compute_distance_matrix ( ) [inline]

Definition at line 830 of file bmtrans.h.

References bm::bit_iblock_make_pcv(), bm::bit_iblock_pcv_stat(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::distance_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_stat_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_, and bm::tmatrix_distance().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::compute_distance_matrix ( ) [inline]

Definition at line 830 of file bmtrans.h.

References bm::bit_iblock_make_pcv(), bm::bit_iblock_pcv_stat(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::distance_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_stat_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_, and bm::tmatrix_distance().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::reduce ( ) [inline]

Definition at line 846 of file bmtrans.h.

References bm::compute_tmatrix_rstat(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::rstat_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_, and bm::tmatrix_reduce().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::reduce ( ) [inline]

Definition at line 846 of file bmtrans.h.

References bm::compute_tmatrix_rstat(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::rstat_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_, and bm::tmatrix_reduce().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::restore ( ) [inline]

Definition at line 852 of file bmtrans.h.

References bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_, and bm::tmatrix_restore().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::restore ( ) [inline]

Definition at line 852 of file bmtrans.h.

References bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_, bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_, and bm::tmatrix_restore().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::transpose ( const GT *BMRESTRICT gap_buf ) [inline]

Transpose GAP block through a temp.

block of aligned(!) memory

Definition at line 791 of file bmtrans.h.

References bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::find_effective_columns(), bm::gap_2_bitblock(), and bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::transpose ( const GT *BMRESTRICT gap_buf ) [inline]

Transpose GAP block through a temp.

block of aligned(!) memory

Definition at line 791 of file bmtrans.h.

References bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::find_effective_columns(), bm::gap_2_bitblock(), and bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::transpose	(	const GT *BMRESTRICT	garr,
		unsigned	garr_size
	)		`[inline]`

Transpose array of shorts.

Definition at line 810 of file bmtrans.h.

References bm::bit_block_set(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::find_effective_columns(), and bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::transpose	(	const GT *BMRESTRICT	garr,
		unsigned	garr_size
	)		`[inline]`

Transpose array of shorts.

Definition at line 810 of file bmtrans.h.

References bm::bit_block_set(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_, bm::find_effective_columns(), and bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::trestore	(	GT	gap_head,
		GT *BMRESTRICT	gap_buf
	)		`[inline]`

Restore GAP block from the transposed matrix.

Definition at line 860 of file bmtrans.h.

References bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

void bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::trestore	(	GT	gap_head,
		GT *BMRESTRICT	gap_buf
	)		`[inline]`

Restore GAP block from the transposed matrix.

Definition at line 860 of file bmtrans.h.

References bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_.

Field Documentation

template<typename GT , typename BT , unsigned BLOCK_SIZE>

GT BM_ALIGN16 tmp_gap_block_ [BLOCK_SIZE*2] bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::BM_ALIGN16ATTR

Definition at line 885 of file bmtrans.h.

template<typename GT , typename BT , unsigned BLOCK_SIZE>

unsigned bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::distance_

Definition at line 880 of file bmtrans.h.

Referenced by bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::compute_distance_matrix().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

unsigned bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::eff_cols_

Definition at line 879 of file bmtrans.h.

Referenced by bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::reduce(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::restore(), and bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::transpose().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

unsigned char bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_

Definition at line 881 of file bmtrans.h.

Referenced by bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::compute_distance_matrix(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::reduce(), and bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::restore().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

unsigned bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::pc_vector_stat_

Definition at line 882 of file bmtrans.h.

Referenced by bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::compute_distance_matrix().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

tmatrix_type::rstat bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::rstat_vector_

Definition at line 883 of file bmtrans.h.

Referenced by bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::reduce().

template<typename GT , typename BT , unsigned BLOCK_SIZE>

tmatrix_type bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::tmatrix_

Definition at line 878 of file bmtrans.h.

Referenced by bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::compute_distance_matrix(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::reduce(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::restore(), bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::transpose(), and bm::gap_transpose_engine< GT, BT, BLOCK_SIZE >::trestore().

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

vs10/bm/bmtrans.h
vs12/bm/bmtrans.h

bm
gap_transpose_engine
Generated on Tue Apr 12 2016 15:51:22 for dlvhex by 1.7.6.1