Searched refs:_bamAlignment (Results 1 – 4 of 4) sorted by relevance
27 _bamAlignment = other._bamAlignment; in operator =()94 _bamAlignment.Name.clear(); in clear()95 _bamAlignment.Length = 0; in clear()99 _bamAlignment.TagData.clear(); in clear()100 _bamAlignment.RefID = -1; in clear()101 _bamAlignment.Position = -1; in clear()102 _bamAlignment.Bin = 0; in clear()103 _bamAlignment.MapQuality = 0; in clear()106 _bamAlignment.MateRefID = -1; in clear()108 _bamAlignment.InsertSize = -1; in clear()[all …]
54 const vector<BamTools::CigarOp> &getCigarData() const { return _bamAlignment.CigarData; } in getCigarData()56 const BamTools::BamAlignment &getAlignment() const { return _bamAlignment; } in getAlignment()66 BamTools::BamAlignment _bamAlignment;
37 if (_bamReader->GetNextAlignment(_bamAlignment)) { in readEntry()52 int refId = _bamAlignment.RefID; in getChrName()61 return _bamAlignment.RefID; in getBamChrId()66 return _bamAlignment.Position; in getStartPos()71 return _bamAlignment.GetEndPosition(false, false); in getEndPos()79 str = _bamAlignment.Name; in getName()81 if (_bamAlignment.IsFirstMate()) { in getName()84 else if (_bamAlignment.IsSecondMate()) { in getName()91 int2str((int)_bamAlignment.MapQuality, str); in getScore()96 if (_bamAlignment.IsReverseStrand()) { in getStrand()[all …]
39 const BamTools::BamAlignment &getAlignment() const { return _bamAlignment; } in getAlignment()57 BamTools::BamAlignment _bamAlignment; variable