NCBI C++ ToolKit
Classes | Typedefs | Functions
dbindex_search.cpp File Reference
#include <ncbi_pch.hpp>
#include <list>
#include <algorithm>
#include <corelib/ncbifile.hpp>
#include <algo/blast/core/blast_extend.h>
#include <algo/blast/core/blast_gapalign.h>
#include <algo/blast/core/blast_hits.h>
#include <algo/blast/dbindex/dbindex.hpp>
#include <algo/blast/dbindex/dbindex_sp.hpp>
+ Include dependency graph for dbindex_search.cpp:

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Classes

class  CNmerIterator
 Type used to iterate over the consecutive Nmer values of the query sequence. More...
 
struct  SSeedRoot
 Representation of a seed root. More...
 
struct  SSubjRootsInfo
 SSeedRoot container for one subject. More...
 
class  CSeedRoots
 Seed roots container for all subjects. More...
 
struct  STrackedSeed< ONE_HIT >
 Specialization for one-hit based search. More...
 
struct  STrackedSeed< TWO_HIT >
 Specializarion for two-hit based search. More...
 
class  CTrackedSeeds_Base< NHITS >
 Representation of a collection of tacked seeds for a specific subject sequence. More...
 
class  CTrackedSeeds< ONE_HIT >
 Specialization for one-hit searches. More...
 
class  CTrackedSeeds< TWO_HIT >
 Specialization for two-hit searches. More...
 
class  CSearch_Base< LEGACY, NHITS, derived_t >
 CSearch_Base –. More...
 
class  CSearch< LEGACY, NHITS >
 CSearch –. More...
 

Typedefs

typedef CDbIndex::TSeqNum TSeqNum
 Forwarding declarations for convenience. More...
 
typedef CDbIndex::TWord TWord
 

Functions

CMemoryFileMapFile (const std::string &fname)
 Memory map a file and return a pointer to the mapped area. More...
 

Typedef Documentation

◆ TSeqNum

Forwarding declarations for convenience.

Definition at line 60 of file dbindex_search.cpp.

◆ TWord

Definition at line 61 of file dbindex_search.cpp.

Function Documentation

◆ MapFile()

CMemoryFile* MapFile ( const std::string fname)

Memory map a file and return a pointer to the mapped area.

Parameters
fname[I] file name
Returns
pointer to the start of the mapped memory area

Definition at line 68 of file dbindex_search.cpp.

References ERR_POST, and result.

Referenced by CDbIndex::LoadIndex().

Modified on Fri Jun 14 16:53:00 2024 by modify_doxy.py rev. 669887