LocARNA::PatternPair Class Reference

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

#include <exact_matcher.hh>

List of all members.

Public Member Functions
	PatternPair (const std::string &myId, const SinglePattern &myFirstPat, const SinglePattern &mySecPat, const std::string &structure_, int &score_)
	Constructor.
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

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Detailed Description

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

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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

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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

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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