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/*
* =============================================================================
*
* Filename: SeqIO.h
*
* Description:
*
* Revision: none
* Compiler: gcc 4.3.2 or above
*
* Author: Chang Yu (yc), yuchang@genomics.org.cn
* Company: BGI Shenzhen
* CopyRight: Copyright (c) 2009, BGI Shenzhen
*
* =============================================================================
*/
#ifndef __SEQIO_H__
#define __SEQIO_H__ /* */
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <unistd.h>
#include <fcntl.h>
#include "HSP.h"
#define MAX_NAME_LEN 256
#define QUERY_LEN 256
#define FASTA 0
#define FASTQ 1
typedef struct _SEQ_T_{
int max, l, ns;
char name[MAX_NAME_LEN];
char *seq, *rc, *qual;
}seq_t;
int CheckFast(int fd);
int fasta(FILE *fp, seq_t *seq, const int CONV);
int fastq(FILE *fp, seq_t *seq, const int CONV);
#endif /* ----- __SEQIO_H__ ----- */
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