From 525cf331f4e6568479582c44f7c7b8912cdf7773 Mon Sep 17 00:00:00 2001
From: Eric Banks <ebanks@broadinstitute.org>
Date: Tue, 13 Nov 2012 11:52:47 -0500
Subject: [PATCH] Don't catch a User Error and re-throw as a Reviewed
 Exception.  That makes Eric unhappy.

---
 .../sting/gatk/io/storage/VariantContextWriterStorage.java      | 2 --
 1 file changed, 2 deletions(-)

diff --git a/public/java/src/org/broadinstitute/sting/gatk/io/storage/VariantContextWriterStorage.java b/public/java/src/org/broadinstitute/sting/gatk/io/storage/VariantContextWriterStorage.java
index 31f6d5954..8e4633869 100644
--- a/public/java/src/org/broadinstitute/sting/gatk/io/storage/VariantContextWriterStorage.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/io/storage/VariantContextWriterStorage.java
@@ -198,8 +198,6 @@ public class VariantContextWriterStorage implements Storage<VariantContextWriter
 
             source.close();
             file.delete(); // this should be last to aid in debugging when the process fails
-        } catch (UserException e) {
-            throw new ReviewedStingException("BUG: intermediate file " + file + " is malformed, got error while reading", e);
         } catch (IOException e) {
             throw new UserException.CouldNotReadInputFile(file, "Error reading file in VCFWriterStorage: ", e);
         }