bias_test try except: Exception is AttributeError not KeyError when i…

…nput is GATK
jamescasbon · Jul 17, 2012 · 119f19d · 119f19d
1 parent 6e91990
commit 119f19d
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/vcf/filters.py b/vcf/filters.py
@@ -138,11 +138,12 @@ def __call__(self, record):
     def bias_test(self, calls):
         calls = [x for x in calls if x.called]
         #TODO: single genotype assumption
+        print calls
         try:
             # freebayes
             ra = robjects.IntVector([x['RO'][0] for x in calls])
             aa = robjects.IntVector([x['AO'][0] for x in calls])
-        except KeyError:
+        except AttributeError:
             # GATK
             ra = robjects.IntVector([x['AD'][0] for x in calls])
             aa = robjects.IntVector([x['AD'][1] for x in calls])