From 9f7cf73411335c4fa26cb0dda88d54f8bf64b9f4 Mon Sep 17 00:00:00 2001
From: hanna <hanna@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 15 Sep 2009 21:06:45 +0000
Subject: [PATCH] Output stream management fixes.  I completely screwed up the
 output stream management system, but cleverly masked this fact by breaking
 some other stream management functionality that masked the problem.

Sigh.


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1630 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/gatk/io/DirectOutputTracker.java         | 14 +++-----------
 1 file changed, 3 insertions(+), 11 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/io/DirectOutputTracker.java b/java/src/org/broadinstitute/sting/gatk/io/DirectOutputTracker.java
index 5fcf296b6..865528688 100644
--- a/java/src/org/broadinstitute/sting/gatk/io/DirectOutputTracker.java
+++ b/java/src/org/broadinstitute/sting/gatk/io/DirectOutputTracker.java
@@ -29,26 +29,18 @@ import org.broadinstitute.sting.gatk.io.stubs.Stub;
 import org.broadinstitute.sting.gatk.io.storage.StorageFactory;
 import org.broadinstitute.sting.gatk.io.storage.Storage;
 
-import java.util.Map;
-import java.util.HashMap;
-
 /**
- * Javadoc goes here.
+ * Maps creation of storage directly to output streams in parent.
  *
  * @author mhanna
  * @version 0.1
  */
 public class DirectOutputTracker extends OutputTracker {
-    /**
-     * Direct storage for output streams.
-     */
-    private final Map<Stub, Storage> storage = new HashMap<Stub,Storage>();
-
     public <T> T getStorage( Stub<T> stub ) {
-        Storage target = storage.get(stub);
+        Storage target = outputs.get(stub);
         if( target == null ) {
             target = StorageFactory.createStorage(stub);
-            storage.put(stub, target);
+            outputs.put(stub, target);
         }
         return (T)target;
     }