Rewrite of findall.py to clean code. Configuration tested using

[erange.git] / geneLocusBins.py

diff --git a/geneLocusBins.py b/geneLocusBins.py
index 49745dc0c1361c2a8dbe4736c9c8630396fd93e4..03cade292225b55513b300a0fca2d8f2c4f5d50a 100755 (executable)
--- a/geneLocusBins.py
+++ b/geneLocusBins.py
@@ -138,7 +138,7 @@ def writeBins(gidList, geneinfoDict, gidBins, gidLen, outfilename, normalizeBins
             try:
                 geneinfo = geneinfoDict[gid]
                 symbol = geneinfo[0][0]
-            except KeyError:
+            except (KeyError, IndexError):
                 pass
         else:
             symbol = gid
@@ -154,6 +154,7 @@ def writeBins(gidList, geneinfoDict, gidBins, gidLen, outfilename, normalizeBins
                 try:
                     normalizedValue = 100. * binAmount / tagCount
                 except ZeroDivisionError:
+                    #TODO: QForALi - this is the right way to refactor the original code, but I don't think this is the right answer
                     normalizedValue = 100. * binAmount
 
                 binAmount = normalizedValue
@@ -167,4 +168,4 @@ def writeBins(gidList, geneinfoDict, gidBins, gidLen, outfilename, normalizeBins
 
 
 if __name__ == "__main__":
-    main(sys.argv)
+    main(sys.argv)
\ No newline at end of file