LocARNA::AlignerImpl::UnmodifiedScoringView Class Reference

Provides the standard view on the scoring. More...

#include <aligner_impl.hh>

Public Member Functions
	UnmodifiedScoringView (const AlignerImpl *aligner_impl)
const Scoring *	scoring () const
infty_score_t	D (const Arc &a, const Arc &b) const
infty_score_t	D (const ArcMatch &am) const

Detailed Description

Provides the standard view on the scoring.

See also

ModifiedScoringView

Note

We use a template-based scheme to switch between use of the unmodified score and the modified score without run-time penalty for the standard case the mechanism is used for methods align_noex and trace_noex

Constructor & Destructor Documentation

UnmodifiedScoringView()

LocARNA::AlignerImpl::UnmodifiedScoringView::UnmodifiedScoringView ( const AlignerImpl *  aligner_impl )

inlineexplicit

Construct for Aligner object

Parameters

aligner_impl

the aligner implementation object

Member Function Documentation

D() [1/2]

infty_score_t LocARNA::AlignerImpl::UnmodifiedScoringView::D ( const Arc &  a, const Arc &  b  ) const

inline

View on matrix D

Parameters

a	arc in A
b	arc in B

Returns

D matrix entry for match of a and b

D() [2/2]

infty_score_t LocARNA::AlignerImpl::UnmodifiedScoringView::D ( const ArcMatch &  am ) const

inline

View on matrix D

Parameters

am

arc match

Returns

D matrix entry for arc match am

scoring()

const Scoring* LocARNA::AlignerImpl::UnmodifiedScoringView::scoring ( ) const

inline

Get scoring object

Returns

(unmodified) scoring object of aligner

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

• src/LocARNA/aligner_impl.hh