Update description-extractor to 2.3.2

Mutalyzer used the `reverse_complement` function from the description
extractor, which was a unicode string-only implementation.

With this update, that implementation was removed and the BioPython
reverse complement function used instead in the description
extractor. Unfortunately this cannot work with unicode strings, so we
now use our own `reverse_complement` which works on unicode strings.

mutalyzer/util.py

@@ -29,11 +29,23 @@ import operator
 import sys
 import time
 
+from Bio import Seq
 from Bio import SeqIO
 from Bio.SeqUtils import seq3
 
 # NOTE: This is a temporary fix.
-from extractor.describe import reverse_complement, palinsnoop, roll
+from extractor.describe import palinsnoop, roll
+
+
+def reverse_complement(sequence):
+    """
+    Reverse complement of a sequence represented as unicode string.
+
+    Unfortunately, BioPython's reverse_complement doesn't work on unicode
+    strings. We work almost exclusively with unicode strings, so this is a
+    convenience wrapper.
+    """
+    return unicode(Seq.reverse_complement(str(sequence)))
 
 
 def is_utf8_alias(encoding):

requirements.txt

@@ -11,7 +11,7 @@ backtranslate==0.0.5
 biopython==1.66
 chardet==2.3.0
 cssselect==0.9.1
-description-extractor==2.2.1
+description-extractor==2.3.2
 interval-binning==1.0.0
 lxml==3.4.4
 mock==1.3.0