From bdf017b3fab7d476b64348478d7107437de28ade Mon Sep 17 00:00:00 2001 From: Chris Moth Date: Wed, 28 Jun 2023 17:05:29 -0500 Subject: [PATCH] pairwise2 not used - so get rid of it #47 --- lib/PDBMapData.py | 3 +-- lib/PDBMapSIFTSdb.py | 2 -- 2 files changed, 1 insertion(+), 4 deletions(-) diff --git a/lib/PDBMapData.py b/lib/PDBMapData.py index bd0dee8..95d9cb7 100644 --- a/lib/PDBMapData.py +++ b/lib/PDBMapData.py @@ -18,8 +18,7 @@ import sys,os,csv,re,gzip import numpy as np import subprocess as sp -from Bio import pairwise2 -from Bio.SubsMat import MatrixInfo as matlist +# from Bio.SubsMat import MatrixInfo as matlist import vcf # PyVCF from lib import bed # PyVCF emulator for BED files diff --git a/lib/PDBMapSIFTSdb.py b/lib/PDBMapSIFTSdb.py index 9ae8788..d4e5d33 100644 --- a/lib/PDBMapSIFTSdb.py +++ b/lib/PDBMapSIFTSdb.py @@ -13,8 +13,6 @@ import sys,os,csv from collections import OrderedDict import logging -from Bio import pairwise2 -# unused and deprecated: from Bio.SubsMat import MatrixInfo as matlist from Bio.PDB import Structure from Bio.SeqUtils import seq1 from lib import PDBMapSQLdb