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""" | |
%prog some.fasta wanted-list.txt | |
""" | |
from Bio import SeqIO | |
import sys | |
wanted = [line.strip() for line in open(sys.argv[2])] | |
seqiter = SeqIO.parse(open(sys.argv[1]), 'fasta') | |
SeqIO.write((seq for seq in seqiter if seq.id in wanted), sys.stdout, "fasta") |