CAlnPos_CI Class Reference

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#include <objtools/alnmgr/alnpos_ci.hpp>

Collaboration diagram for CAlnPos_CI:

Public Member Functions
	CAlnPos_CI (const CAlnMap &alnmap, TSeqPos aln_pos=0)
CAlnPos_CI &	operator= (const CAlnPos_CI &iter)
CAlnPos_CI &	operator++ (void)
CAlnPos_CI &	operator-- (void)
	DECLARE_OPERATOR_BOOL (m_Valid)
TSeqPos	GetAlnPos (void) const
TSignedSeqPos	GetSeqPos (CAlnMap::TNumrow row) const

Private Types
typedef vector< TSignedSeqPos >	TSeqStartsCache

Private Attributes
const CAlnMap &	m_AlnMap
TSeqPos	m_AlnPos
TSeqPos	m_AlnStart
TSeqPos	m_AlnStop
TSeqStartsCache	m_SeqStartsCache
CAlnMap::TNumseg	m_AlnSeg
TSeqPos	m_LDelta
TSeqPos	m_RDelta
bool	m_Valid
CAlnMap::TNumrow	m_Anchor

Detailed Description

Definition at line 41 of file alnpos_ci.hpp.

Member Typedef Documentation

TSeqStartsCache

typedef vector<TSignedSeqPos> CAlnPos_CI::TSeqStartsCache

private

Definition at line 57 of file alnpos_ci.hpp.

Constructor & Destructor Documentation

CAlnPos_CI()

CAlnPos_CI::CAlnPos_CI	(	const CAlnMap &	alnmap,
		TSeqPos	aln_pos = 0
	)

Definition at line 42 of file alnpos_ci.cpp.

References _ASSERT, CAlnMap::GetAlnStart(), CAlnMap::GetAlnStop(), CAlnMap::GetNumRows(), CAlnMap::GetSeg(), m_AlnMap, m_AlnPos, m_AlnSeg, m_AlnStart, m_AlnStop, m_LDelta, m_RDelta, and m_SeqStartsCache.

Member Function Documentation

DECLARE_OPERATOR_BOOL()

CAlnPos_CI::DECLARE_OPERATOR_BOOL

(

m_Valid

)

GetAlnPos()

TSeqPos CAlnPos_CI::GetAlnPos ( void  ) const

inline

Definition at line 141 of file alnpos_ci.hpp.

References _ASSERT, m_AlnPos, and m_Valid.

Referenced by CAlnVwrApp::View10().

GetSeqPos()

TSignedSeqPos CAlnPos_CI::GetSeqPos ( CAlnMap::TNumrow  row ) const

inline

Definition at line 149 of file alnpos_ci.hpp.

References _ASSERT, CAlnMap::GetStart(), CAlnMap::IsPositiveStrand(), m_AlnMap, m_AlnSeg, m_LDelta, m_RDelta, m_SeqStartsCache, m_Valid, and row.

Referenced by CAlnVwrApp::View10().

operator++()

CAlnPos_CI & CAlnPos_CI::operator++ ( void  )

inline

Definition at line 79 of file alnpos_ci.hpp.

References _ASSERT, CAlnMap::GetAnchor(), CAlnMap::GetLen(), m_AlnMap, m_AlnPos, m_AlnSeg, m_AlnStop, m_Anchor, m_LDelta, m_RDelta, m_SeqStartsCache, m_Valid, and NON_CONST_ITERATE.

operator--()

CAlnPos_CI & CAlnPos_CI::operator-- ( void  )

inline

Definition at line 110 of file alnpos_ci.hpp.

References _ASSERT, CAlnMap::GetAnchor(), CAlnMap::GetLen(), m_AlnMap, m_AlnPos, m_AlnSeg, m_AlnStart, m_Anchor, m_LDelta, m_RDelta, m_SeqStartsCache, m_Valid, and NON_CONST_ITERATE.

operator=()

CAlnPos_CI& CAlnPos_CI::operator=

(

const CAlnPos_CI &

iter

)

Member Data Documentation

m_AlnMap

const CAlnMap& CAlnPos_CI::m_AlnMap

private

Definition at line 59 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), GetSeqPos(), operator++(), and operator--().

m_AlnPos

TSeqPos CAlnPos_CI::m_AlnPos

private

Definition at line 60 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), GetAlnPos(), operator++(), and operator--().

m_AlnSeg

CAlnMap::TNumseg CAlnPos_CI::m_AlnSeg

private

Definition at line 64 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), GetSeqPos(), operator++(), and operator--().

m_AlnStart

TSeqPos CAlnPos_CI::m_AlnStart

private

Definition at line 61 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), and operator--().

m_AlnStop

TSeqPos CAlnPos_CI::m_AlnStop

private

Definition at line 62 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), and operator++().

m_Anchor

CAlnMap::TNumrow CAlnPos_CI::m_Anchor

private

Definition at line 68 of file alnpos_ci.hpp.

Referenced by operator++(), and operator--().

m_LDelta

TSeqPos CAlnPos_CI::m_LDelta

private

Definition at line 65 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), GetSeqPos(), operator++(), and operator--().

m_RDelta

TSeqPos CAlnPos_CI::m_RDelta

private

Definition at line 66 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), GetSeqPos(), operator++(), and operator--().

m_SeqStartsCache

TSeqStartsCache CAlnPos_CI::m_SeqStartsCache

mutableprivate

Definition at line 63 of file alnpos_ci.hpp.

Referenced by CAlnPos_CI(), GetSeqPos(), operator++(), and operator--().

m_Valid

bool CAlnPos_CI::m_Valid

private

Definition at line 67 of file alnpos_ci.hpp.

Referenced by GetAlnPos(), GetSeqPos(), operator++(), and operator--().

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

• include/objtools/alnmgr/alnpos_ci.hpp
• src/objtools/alnmgr/alnpos_ci.cpp