From 2c0f073ab14e0b7c44d4e901431209b3ca3da75d Mon Sep 17 00:00:00 2001
From: Eric Banks <ebanks@broadinstitute.org>
Date: Wed, 18 Jul 2012 15:43:25 -0400
Subject: [PATCH] Make -qq arg hidden for now since it's still very
 experimental

---
 .../sting/gatk/arguments/GATKArgumentCollection.java             | 1 +
 1 file changed, 1 insertion(+)

diff --git a/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java b/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java
index 45499817e..3fd3857c5 100755
--- a/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java
@@ -211,6 +211,7 @@ public class GATKArgumentCollection {
      * Any value greater than zero will be used to recalculate the quantization using that many levels.
      * Negative values mean that we should quantize using the recalibration report's quantization level.
      */
+    @Hidden
     @Argument(fullName="quantize_quals", shortName = "qq", doc = "Quantize quality scores to a given number of levels (with -BQSR)", required=false)
     public int quantizationLevels = 0;