gb2ace.cpp File Reference

#include "gbseq.h"
#include <fstream>

Enumerations
enum	inftype { dna, protein }
Functions
void	processOneFile (string &infile, bool show, gbseq *seq)
void	getInputFiles (const char nameFile[], vector< string > &files)
void	usage ()
int	main (int argc, char *argv[])

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Enumeration Type Documentation

enum inftype

Enumerator:

dna
protein

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Function Documentation

void getInputFiles	(	const char	nameFile[],
		vector< string > &	files
	)

References ifstream().

Referenced by main().

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

References dna, feature::dumpGeneName(), Ref::dumpKey(), gbseq::dumpOrgmap(), feature::dumpSubseq(), getInputFiles(), gbseq::init(), inputFileType, feature::loadGeneName(), Ref::loadKey(), gbseq::loadOrgmap(), feature::loadSubseq(), processOneFile(), protein, feature::PRTOUT, gbdate::setup(), and usage.

void processOneFile	(	string &	infile,
		bool	show,
		gbseq *	seq
	)

References gbseq::getKey(), ifstream(), gbseq::read(), and gbseq::writeAce().

Referenced by main().

void usage

(

)

Input file: ngiden.tab format +----------+----------+------------+ | db1 | db2 | avgngiden | +----------+----------+------------+ | Aspni1 | Aspni1 | 0.42651027 | | Aspni1 | Batde5 | 0.37095312 | | Aspni1 | Lacbi1 | 0.38920021 | ...

I will generate file format suitable for bionj

The input file must have header.

The input could be a full matrix or one half of (triangle) if the matrix is symmetric.