src/algo/ms/omssa/omssa.hpp File Reference

#include <corelib/ncbistd.hpp>
#include <corelib/ncbiargs.hpp>
#include <corelib/ncbiapp.hpp>
#include <corelib/ncbienv.hpp>
#include <corelib/ncbidiag.hpp>
#include <corelib/ncbiutil.hpp>
#include <corelib/ncbifloat.h>
#include <corelib/ncbifile.hpp>
#include <corelib/ncbithr.hpp>
#include <serial/serial.hpp>
#include <serial/objistrasn.hpp>
#include <serial/objistrasnb.hpp>
#include <serial/objostrasn.hpp>
#include <serial/objostrasnb.hpp>
#include <serial/iterator.hpp>
#include <serial/objostrxml.hpp>
#include <objects/omssa/omssa__.hpp>
#include <objtools/blast/seqdb_reader/seqdb.hpp>
#include "msms.hpp"
#include "msladder.hpp"
#include "mspeak.hpp"
#include <vector>
#include <set>

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Classes
struct	_MassMask
class	CSearch< LEGACY, NHITS >
class	CSearchHelper
	class to hold various helper functions for CSearch More...
Defines
#define	MAXMISSEDCLEAVE   4
#define	MAXMOD   32
#define	MAXMOD2   8192
Typedefs
typedef void(*	TOMSSACallback )(int TotalSeq, int Completed, void *Anything)
	progress callback for CSearch
typedef _MassMask	TMassMask
typedef multimap< double, CMSHit * >	TScoreList
Variables
const int	kAccLen = 20
const double	kHighEval = 1e50

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Define Documentation

#define MAXMISSEDCLEAVE   4

Definition at line 72 of file omssa.hpp. Referenced by CSearch< LEGACY, NHITS >::Search().

#define MAXMOD   32

Definition at line 75 of file omssa.hpp. Referenced by CSearch< LEGACY, NHITS >::Search().

#define MAXMOD2   8192

Definition at line 77 of file omssa.hpp. Referenced by CSearch< LEGACY, NHITS >::Search().

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Typedef Documentation

typedef struct _MassMask TMassMask

typedef void(* TOMSSACallback)(int TotalSeq, int Completed, void *Anything)

progress callback for CSearch Definition at line 86 of file omssa.hpp.

typedef multimap<double, CMSHit *> TScoreList

Definition at line 106 of file omssa.hpp.

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Variable Documentation

const int kAccLen = 20

Definition at line 80 of file omssa.hpp.

const double kHighEval = 1e50

Definition at line 83 of file omssa.hpp.

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