CProSplignText Class Reference

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Text representation of ProSplign alignment. More...

#include <algo/align/prosplign/prosplign.hpp>

Static Public Member Functions
static void	Output (const objects::CSeq_align &seqalign, objects::CScope &scope, ostream &out, int width, const string &matrix_name="BLOSUM62")
	Outputs formatted text. More...

Detailed Description

Text representation of ProSplign alignment.

Definition at line 390 of file prosplign.hpp.

Member Function Documentation

Output()

void CProSplignText::Output ( const objects::CSeq_align &  seqalign, objects::CScope &  scope, ostream &  out, int  width, const string &  matrix_name = "BLOSUM62"  )

static

Outputs formatted text.

Definition at line 596 of file Info.cpp.

References BAD_PIECE_CHAR, bounds, count, eNa_strand_plus, GAP_CHAR, CSpliced_seg_Base::GetGenomic_id(), CSpliced_seg_Base::GetGenomic_strand(), CProteinAlignText::GetGenomicBounds(), CSpliced_seg_Base::GetProduct_id(), CSeq_align_Base::GetSegs(), CSeq_id::GetSeqIdString(), CSeq_align_Base::C_Segs::GetSpliced(), i, int, match(), and out().

Referenced by CProSplignApp::Run().

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

• include/algo/align/prosplign/prosplign.hpp
• src/algo/align/prosplign/Info.cpp