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

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

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

inline

read access

Returns: structure of the PatternPair

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

inline

read access

Returns: EPMscore of the PatternPair

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

inline

read access

Returns: first pattern of the PatternPair

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

inline

read access

Returns: Id of the PatternPair

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

inline

read access

Returns: inside Bounds of the PatternPair

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

inline

read access

Returns: outside Bounds of the PatternPair

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

inline

read access

Returns: score of the PatternPair

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

inline

read access

Returns: second pattern of the PatternPair

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

inline

read access

Returns: size of the PatternPair

void LocARNA::PatternPair::setEPMScore ( int myScore )

write access

Parameters

myScore EPMscore is set to myScore

void LocARNA::PatternPair::setOutsideBounds ( intPPair myPPair )

write access

Parameters

myPPair outsideBounds are set to myPPair

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

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

Public Member Functions

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation