BioPython call for blosum is outdated

s175573 / GIANA

Ultrafast TCR clustering algorithm based on geometric isometry

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Open raphaeltrevizani opened 12 months ago

raphaeltrevizani commented 12 months ago

The following has been deprecated from the BioPython repo from Bio.SubsMat.MatrixInfo import blosum62 One way to fix it is to replace with

# from Bio.SubsMat.MatrixInfo import blosum62
from Bio.Align import substitution_matrices
blosum62 = substitution_matrices.load("BLOSUM62")

Is this correct?

s175573 commented 11 months ago

I haven't tried it but it looks correct. Thanks!