pickrepmodel.cpp File Reference

#include <mysql++.h>
#include <iostream>
#include "Match.h"
#include <fstream>
#include "Blmodel.h"

Functions
Blmodel *	nextGoodModel (ResUse &res, vector< Blmodel * > &bad)
int	pickrep (vector< Blmodel * > &mcl, set< Blmodel * > &del, int margin, float fraction)
void	dump (set< Blmodel * > &rm, ostream &ous)
bool	createTmpDelTable (Connection &conn, const string &tabname)
void	storeInDelTable (set< Blmodel * > &rm, Connection &conn, const string tabname)
void	finalOutput (Connection &conn, const string &intab, const string &deltab, const string &outtab)
bool	remove_nrjunk (Connection &conn, const string &fptab)
void	create_footprint_exon (Connection &conn, const string &fptab, const string &fpdutab)
int	main (int argc, char *argv[])
Variables
int	longModelCutoff = 50000

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Function Documentation

void create_footprint_exon	(	Connection &	conn,
		const string &	fptab,
		const string &	fpdutab
	)

build the exon table

bool createTmpDelTable	(	Connection &	conn,
		const string &	tabname
	)

Referenced by main().

void dump	(	set< Blmodel * > &	rm,
		ostream &	ous
	)

Referenced by main().

void finalOutput	(	Connection &	conn,
		const string &	intab,
		const string &	deltab,
		const string &	outtab
	)

Referenced by main().

int main	(	int	argc,
		char *	argv[]
	)

References create_footprint_exon(), createTmpDelTable(), dump(), finalOutput(), Blmodel::getTid(), longModelCutoff, Range::merge(), nextGoodModel(), Range::overlap(), pickrep(), remove_nrjunk(), storeInDelTable(), Match::targetRange(), and user.

Blmodel * nextGoodModel	(	ResUse &	res,
		vector< Blmodel * > &	bad
	)

References Range::length(), longModelCutoff, and Match::targetRange().

Referenced by main().

int pickrep	(	vector< Blmodel * > &	mcl,
		set< Blmodel * > &	del,
		int	margin,
		float	fraction
	)

Referenced by main().

bool remove_nrjunk	(	Connection &	conn,
		const string &	fptab
	)

procedures to do some clean up Remove models that are made from know junk protein from nr. This procesure should not be mingled here. In the futrue, this needs to be moved outside of this program.

Referenced by discardLowerFootprint(), and main().

void storeInDelTable	(	set< Blmodel * > &	rm,
		Connection &	conn,
		const string	tabname
	)

Referenced by filterCDS(), and main().

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Variable Documentation

int longModelCutoff = 50000

Referenced by main(), and nextGoodModel().