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NCBI C++ ToolKit: include/objmgr/seq_map_switch.hpp Source File

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1 #ifndef OBJECTS_OBJMGR___SEQ_MAP_SWITCH__HPP 2 #define OBJECTS_OBJMGR___SEQ_MAP_SWITCH__HPP 98  return

diff.first - diff.second;

104  return

diff.first + diff.second;

108  TSeqPos

GetLeftInPlaceInsert(

void

)

const

;

109  TSeqPos

GetRightInPlaceInsert(

void

)

const

;

unsigned int TSeqPos

Type for sequence locations and lengths.

vector< CRef< CSeqMapSwitchPoint > > TSeqMapSwitchPoints

CRange< TSeqPos > m_MasterRange

pair< TSeqPos, TSeqPos > TInsertDelete

CConstRef< CSeq_align > m_FirstAlign

TSeqMapSwitchPoints GetAllSwitchPoints(const CBioseq_Handle &seq, const TSeqMapSwitchAligns &aligns)

TDifferences m_RightDifferences

list< CRef< CSeq_align > > TSeqMapSwitchAligns

bool operator<(const CSeqMapSwitchPoint &p) const

int GetSequenceDifference(TSeqPos new_pos, TSeqPos add=0) const

CRef< CSeqMapSwitchPoint > GetSwitchPoint(const CBioseq_Handle &seq, const CSeq_align &align)

CRange< TSeqPos > m_ExactMasterRange

int GetLengthDifference(TSeqPos new_pos, TSeqPos add=0) const

map< TSeqPos, TInsertDelete > TDifferences

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

#define NCBI_XOBJMGR_EXPORT


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