src/algo/blast/api/psi_pssm_input.cpp File Reference

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Detailed Description

Implementation of the concrete strategy to obtain PSSM input data for PSI-BLAST.

Definition in file psi_pssm_input.cpp.

#include <ncbi_pch.hpp>
#include <iomanip>
#include <algo/blast/api/psi_pssm_input.hpp>
#include <algo/blast/api/blast_exception.hpp>
#include "../core/blast_psi_priv.h"
#include <objects/seqalign/Seq_align.hpp>
#include <objects/seqalign/Seq_align_set.hpp>
#include <objects/seqalign/Dense_seg.hpp>
#include <objects/seqalign/Score.hpp>
#include <objects/general/Object_id.hpp>
#include <objects/seqloc/Seq_loc.hpp>
#include <objects/seqloc/Seq_interval.hpp>
#include <objmgr/scope.hpp>
#include <objmgr/seq_vector.hpp>
#include <objects/seq/Seq_data.hpp>
#include <objects/seq/seqport_util.hpp>
#include "psiblast_aux_priv.hpp"

Include dependency graph for psi_pssm_input.cpp:

Go to the source code of this file.

Defines
#define	GAP_IN_ALIGNMENT   ((Uint4)-1)
	Representation of GAP in Seq-align.
Functions
	USING_SCOPE (objects)
Variables
static char const	rcsid []

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Variable Documentation

char const rcsid[] [static]

Initial value: "$Id: psi_pssm_input.cpp 161402 2009-05-27 17:35:47Z camacho $" Definition at line 2 of file psi_pssm_input.cpp.

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