BlastSeqSrcIterator Struct Reference

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Complete type definition of Blast Sequence Source Iterator. More...

#include <algo/blast/core/blast_seqsrc_impl.h>

Public Attributes
BlastSeqSrcItrType	itr_type
	Indicates which member to access: oid_list or oid_range. More...
int *	oid_list
	Array of ordinal ids used when itr_type is eOidList. More...
int	oid_range [2]
	This is a half-closed interval [a,b) More...
unsigned int	current_pos
	Keep track of this iterator's current position, implementations use UINT4_MAX to indicate this is uninitialized/invalid. More...
unsigned int	chunk_sz
	Size of the chunks to advance over the BlastSeqSrc, also size of oid_list member, this is provided to reduce mutex contention when implementing MT-safe iteration. More...

Detailed Description

Complete type definition of Blast Sequence Source Iterator.

Definition at line 170 of file blast_seqsrc_impl.h.

Member Data Documentation

chunk_sz

unsigned int BlastSeqSrcIterator::chunk_sz

Size of the chunks to advance over the BlastSeqSrc, also size of oid_list member, this is provided to reduce mutex contention when implementing MT-safe iteration.

Definition at line 185 of file blast_seqsrc_impl.h.

Referenced by BlastSeqSrcIteratorNewEx(), CBlastSeqSrcIterator::DebugDump(), s_SeqDbGetNextChunk(), and s_SeqDbIteratorNext().

current_pos

unsigned int BlastSeqSrcIterator::current_pos

Keep track of this iterator's current position, implementations use UINT4_MAX to indicate this is uninitialized/invalid.

Definition at line 181 of file blast_seqsrc_impl.h.

Referenced by BlastSeqSrcIteratorNewEx(), CBlastSeqSrcIterator::DebugDump(), s_MultiSeqGetNextChunk(), s_MultiSeqIteratorNext(), s_QueryFactoryGetNextChunk(), s_QueryFactoryIteratorNext(), s_SeqDbGetNextChunk(), s_SeqDbIteratorNext(), and s_VDBSRC_IteratorNext().

itr_type

BlastSeqSrcItrType BlastSeqSrcIterator::itr_type

Indicates which member to access: oid_list or oid_range.

Definition at line 172 of file blast_seqsrc_impl.h.

Referenced by CBlastSeqSrcIterator::DebugDump(), s_SeqDbGetNextChunk(), and s_SeqDbIteratorNext().

oid_list

int* BlastSeqSrcIterator::oid_list

Array of ordinal ids used when itr_type is eOidList.

Definition at line 175 of file blast_seqsrc_impl.h.

Referenced by BlastSeqSrcIteratorFree(), BlastSeqSrcIteratorNewEx(), s_SeqDbGetNextChunk(), and s_SeqDbIteratorNext().

oid_range

int BlastSeqSrcIterator::oid_range[2]

This is a half-closed interval [a,b)

Definition at line 177 of file blast_seqsrc_impl.h.

Referenced by s_SeqDbGetNextChunk(), and s_SeqDbIteratorNext().

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

• include/algo/blast/core/blast_seqsrc_impl.h