Error in Cef_tools.py

[dheerajbobbili]

Hi,

I'm trying to use your data for the pseudotime analysis and I'm getting the error below while running the cell # Load dataset with tine annotations (E-day)

The problem is below,

df, rows_annot, cols_annot, _ = cef2df('data/Mouse_Embryo_fulldataset.cef')

TypeError Traceback (most recent call last)
in ()
----> 1 df, rows_annot, cols_annot, _ = cef2df('data/Mouse_Embryo_fulldataset.cef')

/Users/dheeraj.bobbili/Work/single_cell_analysis/ipynb-lamanno2016_modified/Cef_tools.py in cef2df(filepath, index_ix, columns_ix)
186
187 cef = CEF_obj()
--> 188 cef.readCEF(filepath)
189 df = pd.DataFrame( data= cef.matrix, index=cef.row_attr_values[index_ix], columns=cef.col_attr_values[columns_ix])
190

/Users/dheeraj.bobbili/Work/single_cell_analysis/ipynb-lamanno2016_modified/Cef_tools.py in readCEF(self, filepath, matrix_dtype)
95 # Read cef file first line
96 self.header, self.row_attr, self.col_attr, self.rows,
---> 97 self.cols, self.flags = fin.readline().rstrip('\n').split('\t')[1:7]
98 self.header = int(self.header)
99 self.row_attr = int( self.row_attr )

TypeError: a bytes-like object is required, not 'str'

I had these problems earlier while switching from python2 to python3. Not sure what is happening in this case. Is there any fix for it??

I'm using python version 3.6.1