Fix for parsing MEME files with 100+ motifs (Leighton Pritchard, Bug …

…3161)
biopython · Dec 22, 2010 · 350cb6b · 350cb6b
1 parent 5abe970
commit 350cb6b
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Showing 2 changed files with 6 additions and 5 deletions.
diff --git a/Bio/Motif/Parsers/MEME.py b/Bio/Motif/Parsers/MEME.py
@@ -256,12 +256,12 @@ def __read_command(record, handle):
 
 
 def __create_motif(line):
-    line = line.strip()
+    line = line[5:].strip()
     ls = line.split()
     motif = MEMEMotif()
-    motif.length = int(ls[4])
-    motif._numoccurrences(ls[7])
-    motif._evalue(ls[13])
+    motif.length = int(ls[3])
+    motif._numoccurrences(ls[6])
+    motif._evalue(ls[12])
     return motif
 
 

diff --git a/NEWS b/NEWS
@@ -18,13 +18,14 @@ ability to run the BLAST tools and save the output as ASN.1 format, and then
 convert this to any other supported BLAST ouput format (plain text, tabular,
 XML, or HTML) with the blast_formatter tool.
 
-(At least) 8 people have contributed to this release, including 1 new person:
+(At least) 9 people have contributed to this release, including 1 new person:
 
 Brad Chapman
 Eric Talevich
 Erick Matsen (first contribution)
 Joao Rodrigues
 Kristian Rother
+Leighton Pritchard
 Michiel de Hoon
 Peter Cock
 Phillip Garland