From ff66023d8328c03f9ad0ec7fd3c9ca3e05d19415 Mon Sep 17 00:00:00 2001
From: depristo <depristo@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 19 Jan 2010 22:56:22 +0000
Subject: [PATCH] Trivial change to support filter field in VCF

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2636 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../playground/gatk/walkers/varianteval/VariantDBCoverage.java  | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantDBCoverage.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantDBCoverage.java
index b292ce0b7..5ce0f5339 100755
--- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantDBCoverage.java
+++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantDBCoverage.java
@@ -64,7 +64,7 @@ public class VariantDBCoverage extends BasicVariantAnalysis implements GenotypeA
 
         Variation dbsnp = null;
         for (ReferenceOrderedDatum d : dbsnpList) {
-            if (((Variation) d).isSNP()) {
+            if (((Variation) d).isSNP() && (! (d instanceof RodVCF) || ! ((RodVCF)d).isFiltered())) {
                 dbsnp = (Variation)d;
                 break;
             }