core::sequence::DP_Matrix Class Reference

#include <DP_Matrix.hh>

Inheritance diagram for core::sequence::DP_Matrix:

Public Member Functions
	DP_Matrix (Size rs, Size cs)
	~DP_Matrix () override
void	clear ()
CellOP	operator() (Size row, Size col) const
Size	rows () const
Size	cols () const
void	xlab (utility::vector1< char > const &xs)
void	ylab (utility::vector1< char > const &ys)
utility::vector1< char >	xlab () const
utility::vector1< char >	ylab () const

Private Types
typedef utility::pointer::shared_ptr< Cell >	CellOP
typedef utility::vector1< CellOP >	Row
typedef utility::vector1< utility::vector1< CellOP > >	Matrix

Private Attributes
Matrix	scoring_matrix_
utility::vector1< char >	xlabels_
utility::vector1< char >	ylabels_

Friends
std::ostream &	operator<< (std::ostream &out, const DP_Matrix &m)

Member Typedef Documentation

CellOP

typedef utility::pointer::shared_ptr< Cell > core::sequence::DP_Matrix::CellOP

private

Matrix

typedef utility::vector1< utility::vector1< CellOP > > core::sequence::DP_Matrix::Matrix

private

Row

typedef utility::vector1< CellOP > core::sequence::DP_Matrix::Row

private

Constructor & Destructor Documentation

DP_Matrix()

core::sequence::DP_Matrix::DP_Matrix ( Size  rs, Size  cs  )

inline

References core::sequence::end, and scoring_matrix_.

~DP_Matrix()

core::sequence::DP_Matrix::~DP_Matrix ( )

overridedefault

Member Function Documentation

clear()

void core::sequence::DP_Matrix::clear

(

)

References scoring_matrix_.

Referenced by core::sequence::MCAligner::align(), core::sequence::NWAligner::align(), and core::sequence::SWAligner::align().

cols()

Size core::sequence::DP_Matrix::cols

(

)

const

References scoring_matrix_.

Referenced by core::sequence::MCAligner::align(), core::sequence::NWAligner::align(), and operator()().

operator()()

CellOP core::sequence::DP_Matrix::operator()	(	Size	row,
		Size	col
	)		const

References cols(), rows(), and scoring_matrix_.

rows()

Size core::sequence::DP_Matrix::rows

(

)

const

References scoring_matrix_.

Referenced by core::sequence::MCAligner::align(), core::sequence::NWAligner::align(), and operator()().

xlab() [1/2]

vector1< char > core::sequence::DP_Matrix::xlab

(

)

const

References xlabels_.

xlab() [2/2]

void core::sequence::DP_Matrix::xlab

(

utility::vector1< char > const &

xs

)

ylab() [1/2]

vector1< char > core::sequence::DP_Matrix::ylab

(

)

const

References ylabels_.

ylab() [2/2]

void core::sequence::DP_Matrix::ylab

(

utility::vector1< char > const &

ys

)

Friends And Related Function Documentation

operator<<

std::ostream& operator<< ( std::ostream &  out, const DP_Matrix &  m  )

friend

Member Data Documentation

scoring_matrix_

Matrix core::sequence::DP_Matrix::scoring_matrix_

private

Referenced by clear(), cols(), DP_Matrix(), operator()(), and rows().

xlabels_

utility::vector1< char > core::sequence::DP_Matrix::xlabels_

private

Referenced by xlab().

ylabels_

utility::vector1< char > core::sequence::DP_Matrix::ylabels_

private

Referenced by ylab().

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

• src/core/sequence/DP_Matrix.hh
• src/core/sequence/DP_Matrix.cc