obitools/obitools3
2
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases 66 Wiki Activity

Fixed the OBI_Nuc_Seq_Stored cython class not being up to date with the

Browse Source 
new properties of its parent class
This commit is contained in:
Celine Mercier
2016-11-08 11:26:37 +01:00
parent 36ac315125
commit b5b889c4a2
1 changed files with 3 additions and 3 deletions
Download Patch File Download Diff File Expand all files Collapse all files

6
python/obitools3/obidms/_obiseq.pyx
View File

@ -56,7 +56,7 @@ cdef class OBI_Nuc_Seq(OBI_Seq) :
cdef class OBI_Nuc_Seq_Stored(OBIView_line) : cdef class OBI_Nuc_Seq_Stored(OBIView_line) :
# TODO store the str version of column name macros # TODO store the str version of column name macros?
cpdef set_id(self, object id) : cpdef set_id(self, object id) :
self[bytes2str(ID_COLUMN)] = id self[bytes2str(ID_COLUMN)] = id
@ -80,13 +80,13 @@ cdef class OBI_Nuc_Seq_Stored(OBIView_line) :
if (type(quality) == list) or (quality is None) : if (type(quality) == list) or (quality is None) :
self[bytes2str(QUALITY_COLUMN)] = quality self[bytes2str(QUALITY_COLUMN)] = quality
else : # Quality is in str form else : # Quality is in str form
(((self.view).columns)[bytes2str(QUALITY_COLUMN)]).set_str_line(self.index, quality) (((self._view).columns)[bytes2str(QUALITY_COLUMN)]).set_str_line(self._index, quality)
cpdef object get_quality(self) : cpdef object get_quality(self) :
return self[bytes2str(QUALITY_COLUMN)] return self[bytes2str(QUALITY_COLUMN)]
cpdef object get_str_quality(self) : cpdef object get_str_quality(self) :
return ((self.view).columns)[bytes2str(QUALITY_COLUMN)].get_str_line(self.index) return ((self._view).columns)[bytes2str(QUALITY_COLUMN)].get_str_line(self._index)
# def __str__(self) : # def __str__(self) :
# return self[bytes2str(NUC_SEQUENCE_COLUMN)] # or not # return self[bytes2str(NUC_SEQUENCE_COLUMN)] # or not