blastkmerresults.hpp File Reference

#include <corelib/ncbistd.hpp>
#include <objects/seqloc/Seq_id.hpp>
#include <algo/blast/api/blast_exception.hpp>
#include <algo/blast/api/sseqloc.hpp>
#include <algo/blast/blastinput/blast_scope_src.hpp>
#include <objtools/blast/seqdb_reader/seqdb.hpp>
#include <objmgr/scope.hpp>
#include "blastkmerutils.hpp"

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Classes
class	CBlastKmerResults
	This class represents the results for one KMER search (one query). More...
class	CBlastKmerResultsSet
	This class holds one or more CBlastKmerResults. More...

Typedefs
typedef vector< pair< CRef< CSeq_id >, double > >	TBlastKmerScoreVector
	Vector of pairs of seq-ids and scores. More...

Functions
CRef< CBlastKmerResults >	MakeEmptyResults (TSeqLocVector &queryVector, int queryNum, const string &errMsg, EBlastSeverity severity=eBlastSevError)
	Empty results (use on error) More...

Typedef Documentation

TBlastKmerScoreVector

typedef vector< pair<CRef<CSeq_id>, double> > TBlastKmerScoreVector

Vector of pairs of seq-ids and scores.

Definition at line 53 of file blastkmerresults.hpp.

Function Documentation

MakeEmptyResults()

CRef<CBlastKmerResults> MakeEmptyResults	(	TSeqLocVector &	queryVector,
		int	queryNum,
		const string &	errMsg,
		EBlastSeverity	severity = eBlastSevError
	)

Empty results (use on error)

Parameters

queryVector	Query information.
queryNum	zero offset number of query
errMsg	error message
severity	Severity of messages (e.g., error or warning)

Definition at line 171 of file blastkmerresults.cpp.

References CSeq_id::AsFastaString(), CSeq_id::Assign(), msg(), CRef< C, Locker >::Reset(), TQueryMessages::SetQueryId(), and stats.

Referenced by CBlastKmer::x_SearchMultipleQueries().