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/* align.h - Generic alignment functions */
#ifndef __ALIGN_H_
#define __ALIGN_H_
#include <stdio.h>
#include "sequence.h"
/* Types definitions */
typedef struct {
sequence_t **cur;
sequence_t **seq;
char *_tmp;
} align_t;
typedef enum {
ALIFMT_UNKWN, ALIFMT_CLUSTAL, ALIFMT_PHYLIPI, ALIFMT_PHYLIPS,
ALIFMT_FASTA, ALIFMT_MEGA, ALIFMT_MSF, ALIFMT_NEXUSI, ALIFMT_STOCK,
ALIFMT_NONE } alifmt_t;
/* Functions prototypes */
align_t *align_new(void);
void align_free(align_t *);
int align_check(FILE *, alifmt_t);
align_t *align_parse(FILE *, alifmt_t);
int align_strict(align_t *);
void align_print(FILE *, align_t *, alifmt_t);
alifmt_t align_format(FILE *);
#endif /* __ALIGN_H_ */
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