29 lines
941 B
Cython
Executable File
29 lines
941 B
Cython
Executable File
#cython: language_level=3
|
|
|
|
from obitools3.dms.capi.apat cimport SeqPtr
|
|
|
|
|
|
cdef class One_primer_search_result:
|
|
cdef SeqPtr _pointer
|
|
cdef int pattern_ref
|
|
cdef int hit_count
|
|
cdef inline SeqPtr pointer(self)
|
|
@staticmethod
|
|
cdef new(SeqPtr apat_seq_p, int pattern_ref, int hit_count)
|
|
cpdef first_encountered(self)
|
|
|
|
|
|
cdef class Primer_search:
|
|
cdef SeqPtr apat_seq_p
|
|
cdef list direct_primers
|
|
cdef list revcomp_primers
|
|
cpdef One_primer_search_result search_one_primer(self, bytes sequence,
|
|
int primer_pair_index, int primer_index,
|
|
bint reverse_comp=*,
|
|
bint same_sequence=*,
|
|
int pattern_ref=*,
|
|
int begin=*)
|
|
cpdef free(self)
|
|
|
|
|