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

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Detailed Description

Implementation of the C++ API for the PSI-BLAST PSSM generation engine.

Definition in file pssm_engine.cpp.

#include <ncbi_pch.hpp>
#include <sstream>
#include <algo/blast/api/blast_aux.hpp>
#include <algo/blast/api/pssm_engine.hpp>
#include "blast_setup.hpp"
#include <objects/scoremat/Pssm.hpp>
#include <objects/scoremat/PssmParameters.hpp>
#include <objects/scoremat/PssmFinalData.hpp>
#include <objects/scoremat/PssmIntermediateData.hpp>
#include <objects/scoremat/PssmWithParameters.hpp>
#include <objects/scoremat/FormatRpsDbParameters.hpp>
#include <objects/seqset/Seq_entry.hpp>
#include <algo/blast/core/blast_options.h>
#include <algo/blast/core/blast_stat.h>
#include <algo/blast/core/blast_setup.h>
#include "../core/blast_psi_priv.h"

Include dependency graph for pssm_engine.cpp:

Go to the source code of this file.

Classes
struct	SNcbiMatrix2DoubleMatrix
	Auxiliary class to convert from a CNcbiMatrix into a double** as required by the C API. More...
Functions
	USING_SCOPE (objects)
static void	s_CheckAgainstNullData (IPssmInputData *pssm_input_msa)
	This function makes sure that none of the required data is returned as NULL or "empty".
static void	s_CheckAgainstNullData (IPssmInputFreqRatios *pssm_input_freqratios)
	This function makes sure that none of the required data is returned as NULL or "empty".
static void	s_Validate (IPssmInputData *pssm_input_msa)
	Performs validation on data provided before invoking the CORE PSSM engine.
static void	s_Validate (IPssmInputFreqRatios *pssm_input_fr)
	Performs validation on data provided before invoking the CORE PSSM engine.
Variables
static char const	rcsid []

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Variable Documentation

char const rcsid[] [static]

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

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