checkchimera.cpp File Reference

#include "Interval.h"
#include <mysql++.h>
#include <dbinfo.h>
#include <vector>

Classes
struct	InputColumn
Functions
void	usage (const InputColumn &icol)
void	findChimera (Connection &conn, const string &intab, const string &outf, vector< string > &result, const InputColumn &icol)
void	storeInTable (Connection &conn, const vector< string > &res, const string &tab, const InputColumn &icol)
int	main (int argc, char *argv[])
ostream &	operator<< (ostream &ous, const InputColumn &ic)
Variables
string	columns = "seq seqlen alnbegin alnend numaln avgidentity avgcoverage"

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Function Documentation

void findChimera	(	Connection &	conn,
		const string &	intab,
		const string &	outf,
		vector< string > &	result,
		const InputColumn &	icol
	)

References InputColumn::alnb, InputColumn::alne, InputColumn::alnlen, columns, InputColumn::cov, InputColumn::identical, InputColumn::seqid, InputColumn::seqlen, and string().

Referenced by main().

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

References findChimera(), MysqlDBInfo::getAuthenInfo(), MysqlDBInfo::getPassword(), MysqlDBInfo::getUser(), storeInTable(), and usage.

ostream& operator<<	(	ostream &	ous,
		const InputColumn &	ic
	)

References InputColumn::alnb, InputColumn::alne, InputColumn::alnlen, InputColumn::cov, InputColumn::identical, sep, InputColumn::seqid, and InputColumn::seqlen.

void storeInTable	(	Connection &	conn,
		const vector< string > &	res,
		const string &	tab,
		const InputColumn &	icol
	)

References InputColumn::alnb, InputColumn::alne, InputColumn::seqid, and InputColumn::seqlen.

Referenced by main().

void usage

(

const InputColumn &

icol

)

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Variable Documentation

string columns = "seq seqlen alnbegin alnend numaln avgidentity avgcoverage"

Referenced by findChimera().