OpenMS  2.5.0
Public Types | Public Member Functions | Public Attributes | List of all members
PatternAuxData< TNeedle > Struct Template Reference

#include <OpenMS/ANALYSIS/ID/AhoCorasickAmbiguous.h>

Public Types

typedef Size< TNeedle >::Type TSize
 
typedef Value< TNeedle >::Type TKeyword
 
typedef Value< TKeyword >::Type TAlphabet
 
typedef Graph< Automaton< TAlphabet > > TGraph
 
typedef VertexDescriptor< TGraph >::Type TVert
 
typedef __uint8 KeyWordLengthType
 
typedef std::list< Spawn< TNeedle > > Spawns
 
typedef std::list< Spawn< TNeedle > >::iterator SpawnIt
 
typedef std::list< Spawn< TNeedle > >::const_iterator SpawnCIt
 

Public Member Functions

 PatternAuxData ()
 
void reset ()
 

Public Attributes

Spawns spawns
 spawn instances currently walking the tree More...
 
TVert data_lastState
 Last state of master instance in the trie. More...
 
String< TSizehits_endPositions
 All remaining keyword indices. More...
 
TSize data_keywordIndex
 Current keyword that produced a hit. More...
 
TSize data_needleLength
 Last length of needle to reposition finder. More...
 

Member Typedef Documentation

◆ KeyWordLengthType

typedef __uint8 KeyWordLengthType

◆ SpawnCIt

typedef std::list<Spawn<TNeedle> >::const_iterator SpawnCIt

◆ SpawnIt

typedef std::list<Spawn<TNeedle> >::iterator SpawnIt

◆ Spawns

typedef std::list<Spawn<TNeedle> > Spawns

◆ TAlphabet

typedef Value<TKeyword>::Type TAlphabet

◆ TGraph

typedef Graph<Automaton<TAlphabet> > TGraph

◆ TKeyword

typedef Value<TNeedle>::Type TKeyword

◆ TSize

typedef Size<TNeedle>::Type TSize

◆ TVert

typedef VertexDescriptor<TGraph>::Type TVert

Constructor & Destructor Documentation

◆ PatternAuxData()

PatternAuxData ( )
inline

Member Function Documentation

◆ reset()

void reset ( )
inline

Member Data Documentation

◆ data_keywordIndex

TSize data_keywordIndex

Current keyword that produced a hit.

Referenced by seqan::_reportHit(), seqan::position(), and PatternAuxData< PeptideDB >::reset().

◆ data_lastState

TVert data_lastState

Last state of master instance in the trie.

Referenced by seqan::_masterConsumeChar(), seqan::find(), and PatternAuxData< PeptideDB >::reset().

◆ data_needleLength

TSize data_needleLength

Last length of needle to reposition finder.

Referenced by seqan::_reportHit(), seqan::find(), and PatternAuxData< PeptideDB >::reset().

◆ hits_endPositions

String<TSize> hits_endPositions

All remaining keyword indices.

Referenced by seqan::_reportHit(), seqan::addHits(), seqan::find(), and PatternAuxData< PeptideDB >::reset().

◆ spawns

Spawns spawns