jpayne@69: # cython: language_level=3
jpayne@69: 
jpayne@69: from libc.stdint cimport uint8_t, int32_t, uint32_t, int64_t, uint64_t
jpayne@69: 
jpayne@69: cdef class TupleProxy:
jpayne@69: 
jpayne@69:     cdef:
jpayne@69:         char * data
jpayne@69:         char ** fields
jpayne@69:         int nfields
jpayne@69:         int nbytes
jpayne@69:         int offset
jpayne@69:         bint is_modified
jpayne@69: 
jpayne@69:     cdef encoding
jpayne@69: 
jpayne@69:     cpdef int getMaxFields(self)
jpayne@69:     cpdef int getMinFields(self)
jpayne@69: #    cdef char * _getindex(self, int idx)
jpayne@69: 
jpayne@69:     cdef take(self, char * buffer, size_t nbytes)
jpayne@69:     cdef present(self, char * buffer, size_t nbytes)
jpayne@69:     cdef copy(self, char * buffer, size_t nbytes, bint reset=*)
jpayne@69:     cdef update(self, char * buffer, size_t nbytes)
jpayne@69: 
jpayne@69: 
jpayne@69: cdef class TupleProxyIterator:
jpayne@69:     cdef TupleProxy proxy
jpayne@69:     cdef int index
jpayne@69: 
jpayne@69: 
jpayne@69: cdef class NamedTupleProxy(TupleProxy):
jpayne@69:     pass
jpayne@69: 
jpayne@69: 
jpayne@69: cdef class GTFProxy(NamedTupleProxy):
jpayne@69:     cdef object attribute_dict
jpayne@69:     cpdef int getMaxFields(self)
jpayne@69:     cpdef int getMinFields(self)
jpayne@69: 
jpayne@69: 
jpayne@69: cdef class GFF3Proxy(GTFProxy):
jpayne@69:     pass
jpayne@69: 
jpayne@69: 
jpayne@69: cdef class BedProxy(NamedTupleProxy):
jpayne@69: 
jpayne@69:     cdef:
jpayne@69:         char * contig
jpayne@69:         uint32_t start
jpayne@69:         uint32_t end
jpayne@69:         int bedfields
jpayne@69: 
jpayne@69:     cpdef int getMaxFields(self)
jpayne@69:     cpdef int getMinFields(self)
jpayne@69:     cdef update(self, char * buffer, size_t nbytes)
jpayne@69: 
jpayne@69: cdef class VCFProxy(NamedTupleProxy) :
jpayne@69: 
jpayne@69:     cdef:
jpayne@69:         char * contig
jpayne@69:         uint32_t pos
jpayne@69: 
jpayne@69:     cdef update(self, char * buffer, size_t nbytes)