SequencePosition Class Reference

#include <seq_search.hxx>

Public Member Functions
	SequencePosition (const CompactedSubSequence &seq, long pos=0)
	SequencePosition (const SequencePosition &pos, long offset=0)
	~SequencePosition ()
	DECLARE_ASSIGNMENT_OPERATOR (SequencePosition)
const char *	text () const
const CompactedSubSequence &	sequence () const
long	expdPosition () const
long	expdPosition (int offset)
SequencePosition &	operator++ ()
SequencePosition &	operator-- ()
SequencePosition &	operator+= (long l)
SequencePosition &	operator-= (long l)
int	operator< (const SequencePosition &other) const
int	operator> (const SequencePosition &other) const
long	leftOf () const
long	rightOf () const

Detailed Description

Definition at line 243 of file seq_search.hxx.

Constructor & Destructor Documentation

SequencePosition::SequencePosition ( const CompactedSubSequence &  seq, long  pos = 0  )

inline

Definition at line 253 of file seq_search.hxx.

SequencePosition::SequencePosition ( const SequencePosition &  pos, long  offset = 0  )

inline

Definition at line 257 of file seq_search.hxx.

SequencePosition::~SequencePosition ( )

inline

Definition at line 261 of file seq_search.hxx.

Member Function Documentation

SequencePosition::DECLARE_ASSIGNMENT_OPERATOR

(

SequencePosition

)

const char* SequencePosition::text ( ) const

inline

Definition at line 264 of file seq_search.hxx.

Referenced by FastSearchSequence::fast_align(), FastSearchSequence::FastSearchSequence(), insertBase(), insertGap(), and insertSlaveBases().

const CompactedSubSequence& SequencePosition::sequence ( ) const

inline

Definition at line 265 of file seq_search.hxx.

Referenced by expdPosition(), and insertsToNextBase().

long SequencePosition::expdPosition ( ) const

inline

Definition at line 267 of file seq_search.hxx.

References CompactedSubSequence::expdPosition(), and sequence().

Referenced by insertAligned(), insertClustalValigned(), and insertsToNextBase().

long SequencePosition::expdPosition ( int  offset )

inline

Definition at line 268 of file seq_search.hxx.

References CompactedSubSequence::expdPosition(), and sequence().

SequencePosition& SequencePosition::operator++ ( )

inline

Definition at line 270 of file seq_search.hxx.

SequencePosition& SequencePosition::operator-- ( )

inline

Definition at line 271 of file seq_search.hxx.

SequencePosition& SequencePosition::operator+= ( long  l )

inline

Definition at line 273 of file seq_search.hxx.

SequencePosition& SequencePosition::operator-= ( long  l )

inline

Definition at line 274 of file seq_search.hxx.

int SequencePosition::operator< ( const SequencePosition &  other ) const

inline

Definition at line 276 of file seq_search.hxx.

int SequencePosition::operator> ( const SequencePosition &  other ) const

inline

Definition at line 277 of file seq_search.hxx.

long SequencePosition::leftOf ( ) const

inline

Definition at line 279 of file seq_search.hxx.

Referenced by FastSearchSequence::fast_align(), and FastSearchSequence::FastSearchSequence().

long SequencePosition::rightOf ( ) const

inline

Definition at line 280 of file seq_search.hxx.

References CompactedSubSequence::length().

Referenced by FastSearchSequence::fast_align(), FastSearchSequence::FastSearchSequence(), and insertsToNextBase().

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

• SL/FAST_ALIGNER/seq_search.hxx