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Cython API: fixed a bug where iteration on a NUC_SEQS view would not be

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done correctly (bug appeared with optimization modifications done
lately)
This commit is contained in:
Celine Mercier
2017-08-20 17:41:41 +02:00
parent 47cad285d6
commit c6d5436a58
1 changed files with 14 additions and 1 deletions
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15
python/obitools3/dms/view/typed_view/view_NUC_SEQS.pyx
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@ -58,7 +58,8 @@ cdef class View_NUC_SEQS(View):
return view return view
# TODO # TODO test time gain without
@OBIWrapper.checkIsActive
def __getitem__(self, object item) : def __getitem__(self, object item) :
if type(item) == int : if type(item) == int :
return Nuc_Seq_Stored(self, item) return Nuc_Seq_Stored(self, item)
@ -66,6 +67,18 @@ cdef class View_NUC_SEQS(View):
return self.get_column(item) # TODO hyper lent dans la pratique return self.get_column(item) # TODO hyper lent dans la pratique
@OBIWrapper.checkIsActive
def __iter__(self):
# Iteration on each line of all columns
# Declarations
cdef index_t line_nb
# Yield each line
for line_nb in range(self.line_count) :
yield Nuc_Seq_Stored(self, line_nb)
# TODO? test if efficiency gain # TODO? test if efficiency gain
# def __setitem__(self, index_t line_idx, Nuc_Seq sequence_obj) : # def __setitem__(self, index_t line_idx, Nuc_Seq sequence_obj) :
# for key in sequence_obj : # for key in sequence_obj :