44 lines
1.2 KiB
Cython
Executable File
44 lines
1.2 KiB
Cython
Executable File
#cython: language_level=3
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from .view.view cimport Line
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cdef class Seq(dict) :
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cdef int _index
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cpdef object clone(self)
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cpdef str get_str(self)
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cpdef get_symbol_at(self, int pos)
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cpdef get_slice(self, slice slice_to_get)
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cdef class Nuc_Seq(Seq) :
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cdef Nuc_Seq _reverse_complement
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cdef object _quality_array
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cdef bint _is_revcomp
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cpdef set_quality(self, object new_quality, int offset=*)
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cpdef object build_quality_array(self, list quality)
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cpdef bytes build_reverse_complement(self)
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cdef class Seq_Stored(Line) :
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cpdef get_symbol_at(self, int pos)
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cpdef get_slice(self, slice slice_to_get)
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cdef class Nuc_Seq_Stored(Seq_Stored) :
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cdef Nuc_Seq _reverse_complement
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cdef object _quality_array
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cdef bytes _seq
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cpdef set(self, object id, object seq, object definition=*, object quality=*, int offset=*, object tags=*)
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cpdef set_quality_int(self, list new_qual)
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cpdef set_quality_char(self, object new_qual, int offset=*)
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cpdef object build_quality_array(self, list quality)
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cpdef bytes build_reverse_complement(self)
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cpdef str get_str(self)
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cpdef repr_bytes(self)
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