From df1161809276e2d0b66959189855328e1554fe62 Mon Sep 17 00:00:00 2001 From: asivache Date: Wed, 9 Sep 2009 15:09:09 +0000 Subject: [PATCH] Set default value of useLocusIteratorByHanger to FALSE. Otherwise the -LIBH flag is useless and there'd be no wayto "unset" the 'true' value. Old version was (always) using LocusIteratorByHanger. Now default iterator is indeed LocusIteratorByState, and -LIBH will switch back to the old one git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1556 348d0f76-0448-11de-a6fe-93d51630548a --- .../org/broadinstitute/sting/gatk/GATKArgumentCollection.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java b/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java index 44211ef97..954a254f1 100755 --- a/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java +++ b/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java @@ -136,7 +136,7 @@ public class GATKArgumentCollection { @Element(required = false) @Argument(fullName = "LocusIteratorByHanger", shortName = "LIBH", doc = "Should we use the new LocusIteratorByState or the old LocusIteratorByHanger?", required = false) - public Boolean useLocusIteratorByHanger = true; + public Boolean useLocusIteratorByHanger = false; /**