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RazorBack::Gapseq_::Gap_ Class Reference

subclass Gap_: a Gap_ object stores the position in the sequence before it is inserted and the gap length (>0). More...

List of all members.

Public Methods
	Gap_ (size_t P=0, size_t L=1)
	Inits a gap before ungapped position P with length L.
size_t	pos () const
void	pos (size_t P)
size_t	len () const
void	len (size_t L)
Private Attributes
size_t	Pos
	position before gap is inserted [0..NPOS].
size_t	Len
	length of gap, >0.
Friends
class	Gapseq_

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Detailed Description

subclass Gap_: a Gap_ object stores the position in the sequence before it is inserted and the gap length (>0).

A gapped sequence then contains a list of Gap_-s and the insertion/deletion of gaps does not change the underlying original sequence itself. A placeholder gap before the sequence has position 0, and position NPOS after the sequence.

Definition at line 74 of file Gapseq.hh.

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Constructor & Destructor Documentation

RazorBack::Gapseq_::Gap_::Gap_ ( size_t P = 0, size_t L = 1 ) [inline, explicit]

Inits a gap before ungapped position P with length L. Definition at line 87 of file Gapseq.hh.

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Member Function Documentation

size_t RazorBack::Gapseq_::Gap_::pos ( ) const [inline]

Definition at line 89 of file Gapseq.hh.

void RazorBack::Gapseq_::Gap_::pos ( size_t P ) [inline]

Definition at line 90 of file Gapseq.hh.

size_t RazorBack::Gapseq_::Gap_::len ( ) const [inline]

Definition at line 91 of file Gapseq.hh.

void RazorBack::Gapseq_::Gap_::len ( size_t L ) [inline]

Definition at line 92 of file Gapseq.hh.

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Friends And Related Function Documentation

friend class Gapseq_ [friend]

Definition at line 76 of file Gapseq.hh.

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Member Data Documentation

size_t RazorBack::Gapseq_::Gap_::Pos [private]

position before gap is inserted [0..NPOS]. Definition at line 80 of file Gapseq.hh.

size_t RazorBack::Gapseq_::Gap_::Len [private]

length of gap, >0. Definition at line 81 of file Gapseq.hh.

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

• Gapseq.hh

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