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--- biopython-1.44/Bio/SeqUtils/__init__.py.old 2007-09-14 09:38:35.000000000 -0400
+++ biopython-1.44/Bio/SeqUtils/__init__.py 2007-12-17 11:07:27.000000000 -0500
@@ -7,8 +7,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-import os, sys, getopt, re, time
-from string import maketrans
+import re, time
from Bio import SeqIO
from Bio import Translate
from Bio.Seq import Seq
@@ -277,8 +276,9 @@
nice looking 6 frame translation with GC content - code from xbbtools
similar to DNA Striders six-frame translation
"""
- comp = complement(seq)
- anti = reverse(comp)
+ from Bio.Seq import reverse_complement
+ anti = reverse_complement(seq)
+ comp = anti[::-1]
length = len(seq)
frames = {}
for i in range(0,3):
@@ -399,6 +399,7 @@
# {{{
if __name__ == '__main__':
+ import sys, getopt
# crude command line options to use most functions directly on a FASTA file
options = {'apply_on_multi_fasta':0,
'quick':0,
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