gtf.h File Reference

Header file for the GTF module. More...

#include <Python.h>
#include <stdlib.h>
#include "../classes/GtfDict.h"
#include "../common.h"

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Macros
#define	DEFAULT_ATTR_SIZE    64
	How many attributes should be allocated by default.
#define	CORE_FIELD_COUNT   8
	The number of core fields in a GTF line.
#define	GFF3_FASTA_HEADER   "##FASTA"

Enumerations
enum	gtfFields {   SEQNAME = 0 , SOURCE = 1 , FEATURE = 2 , START = 3 ,   END = 4 , SCORE = 5 , REVERSE = 6 , FRAME = 7 ,   ATTRIBUTES = 8 }
	Enum containing the fields that a GTF line can contain. More...

Functions
GtfDict *	createGTFdict (const occurrence_t *restrict token, PyObject *attr_tp, hashmap_t *restrict attr_keys, hashmap_t *restrict attr_vals)
	Parses a singular GTF line into a Python dict.
bool	validGTFLineToParse (const char *line, size_t len)
	Determines if the provided line is a valid GTF line that can be parsed safely.
char *	gtf_percent_encode (const char *restrict str, size_t len, size_t *restrict outLen)
	Percent encodes restricted GTF characters.

Variables
const char *	keywords [CORE_FIELD_COUNT]
	Array containing the keywords of the GTF fields.
const uint8_t	keyword_sizes [CORE_FIELD_COUNT]
	Array containing the sizes of the keywords.

Detailed Description

Header file for the GTF module.

Macro Definition Documentation

GFF3_FASTA_HEADER

#define GFF3_FASTA_HEADER   "##FASTA"

Function Documentation

gtf_percent_encode()

char * gtf_percent_encode	(	const char *restrict	str,
		size_t	len,
		size_t *restrict	outLen
	)

Percent encodes restricted GTF characters.

Parameters

str	the string to percent encode
len	the length of the string
outLen	the length of the output string

Returns

a newly allocated string with percent encoded characters

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