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NCBI C++ ToolKit: src/gui/widgets/aln_multiple/alnvec_row_handle.cpp Source File

try_reverse_dir)

->GetAlnPosFromSeqPos(

, seq_pos, av_dir, try_reverse_dir);

try_reverse_dir)

->GetSeqPosFromAlnPos(

, aln_pos, av_dir, try_reverse_dir);

base_width =

->GetWidth(0);

CAlnVecIterator - IAlnSegmentIterator implementation for CAlnMap::CAlnChunkVec.

const string & GetText() const

virtual TSignedSeqPos GetAlnPosFromSeqPos(TSeqPos seq_pos, IAlnExplorer::ESearchDirection dir=IAlnExplorer::eNone, bool try_reverse_dir=true) const

virtual IAlnSegmentIterator * CreateSegmentIterator(const IAlnExplorer::TSignedRange &range, IAlnSegmentIterator::EFlags flags) const

virtual const objects::CBioseq_Handle & GetBioseqHandle() const

virtual TSignedSeqPos GetSeqStop() const

virtual string & GetAlnSeqString(string &buffer, const IAlnExplorer::TSignedRange &aln_rng) const

virtual string & GetSeqString(string &buffer, const IAlnExplorer::TRange &seq_rng) const

virtual TSignedSeqPos GetSeqPosFromAlnPos(TSeqPos aln_pos, IAlnExplorer::ESearchDirection dir=IAlnExplorer::eNone, bool try_reverse_dir=true) const

virtual TSignedSeqPos GetSeqAlnStart() const

virtual IAlnExplorer::TSignedRange GetSeqAlnRange() const

virtual bool UsesAATranslation() const

virtual bool CanGetSeqString() const

objects::CAlnVec * m_AlnVec

virtual int GetGenCode() const

virtual bool CanGetBioseqHandle() const

virtual const objects::CSeq_id & GetSeq_id() const

virtual TSignedSeqPos GetSeqStart() const

virtual bool IsNucProtAlignment() const

virtual TNumrow GetRowNum() const

CAlnVecRowHandle.

virtual bool IsNegativeStrand() const

virtual TSignedSeqPos GetSeqAlnStop() const

virtual objects::CScope & GetScope() const

virtual bool IsAnchor() const

virtual size_t GetBaseWidth() const

IAlnExplorer::TNumrow TNumrow

ESearchDirection

Position search options.

@ eRight

Towards higher aln coord (always to the right)

@ eLeft

Towards lower aln coord (always to the left)

Alignment segment iterator interface.

@ eSkipInserts

Iterate segments where at least some rows are aligned (including gap segments)

@ eInsertsOnly

Iterate only ranges not participating in the alignment (unaligned segments)

@ eAllSegments

Iterate all segments.

@ eSkipGaps

Skip gap segments (show only aligned ranges)

Include a standard set of the NCBI C++ Toolkit most basic headers.

unsigned int TSeqPos

Type for sequence locations and lengths.

int TSignedSeqPos

Type for signed sequence position.

static bool IsVDBAccession(const string &acc)

Check if string starts with ("SRA", "SRR", "DRR", "ERR")

static int GetGenCode(const objects::CBioseq_Handle &handle)

Returns Bioseq's Genetic Code.

static void GetLabel(const CObject &obj, string *label, ELabelType type=eDefault)

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define row(bind, expected)

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