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// A. L. Delcher
//
// File: fasta.hh
//
// Last Modified: 23 October 2003
//
// Routines to manipulate FASTA format files
#ifndef __FASTA_H_INCLUDED
#define __FASTA_H_INCLUDED
#include "delcher.hh"
#include <string>
#include <vector>
const int DEFAULT_FASTA_WIDTH = 60;
// Max number of characters to print on a FASTA data line
const char QUALITY_OFFSET = '0';
// Value added to qualities to create a printable character
void Fasta_Print
(FILE * fp, const char * s, const char * hdr = NULL,
int fasta_width = DEFAULT_FASTA_WIDTH);
void Fasta_Print_N
(FILE * fp, const char * s, int n, const char * hdr = NULL,
int fasta_width = DEFAULT_FASTA_WIDTH);
void Fasta_Print_Skip
(FILE * fp, const char * s, const char * skip, const char * hdr = NULL,
int fasta_width = DEFAULT_FASTA_WIDTH);
bool Fasta_Qual_Read
(FILE * fp, string & q, string & hdr);
bool Fasta_Read
(FILE * fp, string & s, string & hdr);
#endif
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