LocARNA::PatternPair Class Reference

is able to manage an EPM, consists of 2 singlepatterns, one in each RNA More...

#include <exact_matcher.hh>

Public Member Functions
	PatternPair (const std::string &myId, const SinglePattern &myFirstPat, const SinglePattern &mySecPat, const std::string &structure_, int &score_)
	Constructor. More...
virtual	~PatternPair ()
	Destructor.
const std::string &	getId () const
const int &	getSize () const
const SinglePattern &	getFirstPat () const
const SinglePattern &	getSecPat () const
void	resetBounds ()
	clears the insideBounds
void	setOutsideBounds (intPPair myPPair)
const intPPair	getOutsideBounds () const
void	addInsideBounds (intPPair myPPair)
	adds the inside Bound myPPair
const std::vector< intPPair > &	getInsideBounds () const
void	setEPMScore (int myScore)
const int	getScore () const
const int	getEPMScore () const
const std::string &	get_struct () const

Detailed Description

is able to manage an EPM, consists of 2 singlepatterns, one in each RNA

Constructor & Destructor Documentation

PatternPair()

LocARNA::PatternPair::PatternPair ( const std::string &  myId, const SinglePattern &  myFirstPat, const SinglePattern &  mySecPat, const std::string &  structure_, int &  score_  )

inline

Constructor.

Parameters

myId	Id for PatternPair
myFirstPat	first Pattern
mySecPat	second Pattern
structure_	structure
score_	score

Member Function Documentation

get_struct()

const std::string& LocARNA::PatternPair::get_struct ( ) const

inline

read access

Returns

structure of the PatternPair

getEPMScore()

const int LocARNA::PatternPair::getEPMScore ( ) const

inline

read access

Returns

EPMscore of the PatternPair

getFirstPat()

const SinglePattern& LocARNA::PatternPair::getFirstPat ( ) const

inline

read access

Returns

first pattern of the PatternPair

getId()

const std::string& LocARNA::PatternPair::getId ( ) const

inline

read access

Returns

Id of the PatternPair

getInsideBounds()

const std::vector<intPPair>& LocARNA::PatternPair::getInsideBounds ( ) const

inline

read access

Returns

inside Bounds of the PatternPair

getOutsideBounds()

const intPPair LocARNA::PatternPair::getOutsideBounds ( ) const

inline

read access

Returns

outside Bounds of the PatternPair

getScore()

const int LocARNA::PatternPair::getScore ( ) const

inline

read access

Returns

score of the PatternPair

getSecPat()

const SinglePattern& LocARNA::PatternPair::getSecPat ( ) const

inline

read access

Returns

second pattern of the PatternPair

getSize()

const int& LocARNA::PatternPair::getSize ( ) const

inline

read access

Returns

size of the PatternPair

setEPMScore()

void LocARNA::PatternPair::setEPMScore

(

int

myScore

)

write access

Parameters

myScore

EPMscore is set to myScore

setOutsideBounds()

void LocARNA::PatternPair::setOutsideBounds

(

intPPair

myPPair

)

write access

Parameters

myPPair

outsideBounds are set to myPPair

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The documentation for this class was generated from the following files:

• src/LocARNA/exact_matcher.hh
• src/LocARNA/exact_matcher.cc