gtf.h

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#ifndef GTF_H
#define GTF_H
 
#include <Python.h>
#include <stdlib.h>
 
#include "../classes/GtfDict/GtfDict.h"
#include "../common.h"
 
#define DEFAULT_ATTR_SIZE                                                      \
    64 // well how often do you see a GTF line with more than 64 attributes?
 
GtfDict *createGTFdict(const occurrence_t *restrict token, PyObject *attr_tp,
                       hashmap_t *restrict attr_keys,
                       hashmap_t *restrict attr_vals);
 
bool validGTFLineToParse(const char *line, size_t len);
 
char *write_owned(char *restrict buf, size_t *restrict len, size_t *alloc,
                  const char *restrict in, size_t inLen);
 
char *GtfDict_dump(GtfDict *restrict const self, char *restrict in,
                   size_t *restrict len, size_t *restrict alloc);
 
int GtfDict_as_annotation(PyObject *restrict object, long *restrict start,
                          long *restrict end);
 
enum gtfFields {
    SEQNAME = 0,
    SOURCE = 1,
    FEATURE = 2,
    START = 3,
    END = 4,
    SCORE = 5,
    REVERSE = 6,
    FRAME = 7,
    ATTRIBUTES = 8
};
 
#define CORE_FIELD_COUNT 8
 
extern const char *keywords[CORE_FIELD_COUNT];
 
extern const uint8_t keyword_sizes[CORE_FIELD_COUNT];
 
extern const PyTypeObject *keyword_types[CORE_FIELD_COUNT];
 
#define GFF3_FASTA_HEADER "##FASTA"
 
#endif