BioPython call for blosum is outdated

s175573 / GIANA

Ultrafast TCR clustering algorithm based on geometric isometry

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Open raphaeltrevizani opened 1 year ago

raphaeltrevizani commented 1 year 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 1 year ago

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