regidx.h File Reference

#include <stdio.h>
#include <inttypes.h>

Go to the source code of this file.

Classes
struct	reg_t
struct	regitr_t

Macros
#define	REGITR_START(itr)   (itr).reg[(itr).i].start
#define	REGITR_END(itr)   (itr).reg[(itr).i].end
#define	REGITR_PAYLOAD(itr, type_t)   ((type_t*)(itr).payload)[(itr).i]
#define	REGITR_OVERLAP(itr, from, to)   (itr.i < itr.n && REGITR_START(itr)<=to && REGITR_END(itr)>=from )

Typedefs
typedef struct _regidx_t	regidx_t
typedef int(*	regidx_parse_f )(const char *line, char **chr_beg, char **chr_end, reg_t *reg, void *payload, void *usr)
typedef void(*	regidx_free_f )(void *payload)

Functions
int	regidx_parse_bed (const char *, char **, char **, reg_t *, void *, void *)
int	regidx_parse_tab (const char *, char **, char **, reg_t *, void *, void *)
regidx_t *	regidx_init (const char *fname, regidx_parse_f parsef, regidx_free_f freef, size_t payload_size, void *usr)
void	regidx_destroy (regidx_t *idx)
int	regidx_overlap (regidx_t *idx, char *chr, uint32_t start, uint32_t end, regitr_t *itr)
int	regidx_insert (regidx_t *idx, char *line)
char **	regidx_seq_names (regidx_t *idx, int *n)

Macro Definition Documentation

#define REGITR_END

(

itr

)

(itr).reg[(itr).i].end

#define REGITR_OVERLAP	(		itr,
			from,
			to
	)		(itr.i < itr.n && REGITR_START(itr)<=to && REGITR_END(itr)>=from )

#define REGITR_PAYLOAD	(		itr,
			type_t
	)		((type_t*)(itr).payload)[(itr).i]

#define REGITR_START

(

itr

)

(itr).reg[(itr).i].start

Typedef Documentation

typedef void(* regidx_free_f)(void *payload)

typedef int(* regidx_parse_f)(const char *line, char **chr_beg, char **chr_end, reg_t *reg, void *payload, void *usr)

typedef struct _regidx_t regidx_t

Function Documentation

void regidx_destroy

(

regidx_t *

idx

)

regidx_t* regidx_init	(	const char *	fname,
		regidx_parse_f	parsef,
		regidx_free_f	freef,
		size_t	payload_size,
		void *	usr
	)

int regidx_insert	(	regidx_t *	idx,
		char *	line
	)

int regidx_overlap	(	regidx_t *	idx,
		char *	chr,
		uint32_t	start,
		uint32_t	end,
		regitr_t *	itr
	)

int regidx_parse_bed	(	const char *	,
		char **	,
		char **	,
		reg_t *	,
		void *	,
		void *
	)

int regidx_parse_tab	(	const char *	,
		char **	,
		char **	,
		reg_t *	,
		void *	,
		void *
	)

char** regidx_seq_names	(	regidx_t *	idx,
		int *	n
	)