From 18f1d31a226cc21e7075bcfc9ecdff71cacfddad Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Fri, 7 May 2010 04:05:36 +0000
Subject: [PATCH] Moving to and organizing in core.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3320 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/gatk/walkers/{ => vcf}/LiftoverVCF.java              | 3 ++-
 .../gatk/walkers/vcftools => gatk/walkers/vcf}/VCFCombine.java | 2 +-
 2 files changed, 3 insertions(+), 2 deletions(-)
 rename java/src/org/broadinstitute/sting/gatk/walkers/{ => vcf}/LiftoverVCF.java (97%)
 rename java/src/org/broadinstitute/sting/{playground/gatk/walkers/vcftools => gatk/walkers/vcf}/VCFCombine.java (99%)

diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/LiftoverVCF.java b/java/src/org/broadinstitute/sting/gatk/walkers/vcf/LiftoverVCF.java
similarity index 97%
rename from java/src/org/broadinstitute/sting/gatk/walkers/LiftoverVCF.java
rename to java/src/org/broadinstitute/sting/gatk/walkers/vcf/LiftoverVCF.java
index aa22350d3..c3680dae7 100755
--- a/java/src/org/broadinstitute/sting/gatk/walkers/LiftoverVCF.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/vcf/LiftoverVCF.java
@@ -23,11 +23,12 @@
  * THE USE OR OTHER DEALINGS IN THE SOFTWARE.
  */
 
-package org.broadinstitute.sting.gatk.walkers;
+package org.broadinstitute.sting.gatk.walkers.vcf;
 
 import org.broadinstitute.sting.commandline.Argument;
 import org.broadinstitute.sting.utils.genotype.vcf.VCFWriter;
 import org.broadinstitute.sting.gatk.refdata.RefMetaDataTracker;
+import org.broadinstitute.sting.gatk.walkers.*;
 import org.broadinstitute.sting.gatk.contexts.ReferenceContext;
 import org.broadinstitute.sting.gatk.contexts.AlignmentContext;
 import org.broad.tribble.vcf.VCFRecord;
diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/vcftools/VCFCombine.java b/java/src/org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java
similarity index 99%
rename from java/src/org/broadinstitute/sting/playground/gatk/walkers/vcftools/VCFCombine.java
rename to java/src/org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java
index 21f9cbe5a..c4ae8688d 100755
--- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/vcftools/VCFCombine.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java
@@ -23,7 +23,7 @@
  * THE USE OR OTHER DEALINGS IN THE SOFTWARE.
  */
 
-package org.broadinstitute.sting.playground.gatk.walkers.vcftools;
+package org.broadinstitute.sting.gatk.walkers.vcf;
 
 import org.broad.tribble.vcf.VCFHeader;
 import org.broad.tribble.vcf.VCFHeaderLine;