cdef extern from "Python.h":
ctypedef struct FILE
- FILE* PyFile_AsFile(object)
char *fgets(char *str, int size, FILE *ifile)
int feof(FILE *stream)
size_t strlen(char *s)
char *strstr(char *, char *)
char *strchr(char *string, int c)
int fileno(FILE *stream)
+ FILE *fdopen(int fd, char *mode)
cdef extern from "bgzf.h":
# char *ti_iter_read(BGZF *fp, ti_iter_t iter, int *len)
cdef class Tabixfile:
- cdef char * _filename
# pointer to tabixfile
cdef tabix_t * tabixfile
+ # flag indicating whether file is remote
+ cdef int isremote
+
+ cdef char * _filename
+
+cdef class TabixIterator:
+ cdef ti_iter_t iterator
+ cdef tabix_t * tabixfile
+
+cdef class TabixHeaderIterator:
+ cdef ti_iter_t iterator
+ cdef tabix_t * tabixfile
+
cdef class Parser:
pass
+
+cdef class asTuple(Parser):
+ pass
+
+cdef class asGTF(Parser):
+ pass
+
+cdef class asBed(Parser):
+ pass
+
+cdef class asVCF(Parser):
+ pass
+
+cdef class TabixIteratorParsed:
+ cdef ti_iter_t iterator
+ cdef tabix_t * tabixfile
+ cdef Parser parser
+
+ctypedef class tabix_inplace_iterator:
+ cdef FILE * infile
+ cdef char * buffer
+ cdef size_t size
+ cdef Parser parser
+
+ cdef __cnext__(self)
+
+ctypedef class tabix_copy_iterator:
+ cdef FILE * infile
+ cdef Parser parser
+ cdef __cnext__(self)
+