MSAWriter Class Reference

#include <msaWriter.h>

Inheritance diagram for MSAWriter:

Public Member Functions
	MSAWriter (std::vector< Sequence > sequences, std::string file)
	Constructor.
void	write ()
	Write sequences in the MSA file, based on the format of the output file.

Protected Member Functions
virtual void	writeFile (std::ofstream &file)=0
void	generateIdForSequences ()
	Generate IDs for sequences that do not have any ID.

Protected Attributes
std::string	file
std::string	fileName
std::string	format
std::vector< Sequence >	Sequences
int	IDspace

Constructor & Destructor Documentation

MSAWriter()

MSAWriter::MSAWriter	(	std::vector< Sequence >	sequences,
		std::string	file )

Constructor.

Parameters

sequences
file

Member Function Documentation

generateIdForSequences()

void MSAWriter::generateIdForSequences ( )

protected

Generate IDs for sequences that do not have any ID.

write()

void MSAWriter::write

(

)

Write sequences in the MSA file, based on the format of the output file.

Parameters

file	The output file path to write to.

writeFile()

virtual void MSAWriter::writeFile ( std::ofstream & file )

protectedpure virtual

Implemented in MSAWriter_a2m, MSAWriter_a3m, MSAWriter_aln, MSAWriter_clustal, MSAWriter_fasta, MSAWriter_pfam, and MSAWriter_sto.

Member Data Documentation

file

std::string MSAWriter::file

protected

fileName

std::string MSAWriter::fileName

protected

format

std::string MSAWriter::format

protected

IDspace

int MSAWriter::IDspace

protected

Sequences

std::vector<Sequence> MSAWriter::Sequences

protected

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The documentation for this class was generated from the following files:

• code/msaWriter.h
• code/msaWriter.cpp