From 38563bbc2d46f8f9214e5d6fcee457e0206c846e Mon Sep 17 00:00:00 2001 From: chartl Date: Fri, 18 Dec 2009 15:05:14 +0000 Subject: [PATCH] The values used to be integers (-1 for unpaired, 0 for unmapped, 1 for first, 2 for second); but i switched to strings before commit so it was more clear. Forgot to update the OTHER getValue method. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2402 348d0f76-0448-11de-a6fe-93d51630548a --- .../gatk/walkers/recalibration/PairedReadOrderCovariate.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/PairedReadOrderCovariate.java b/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/PairedReadOrderCovariate.java index 0a39d4384..798f91399 100644 --- a/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/PairedReadOrderCovariate.java +++ b/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/PairedReadOrderCovariate.java @@ -18,7 +18,7 @@ public class PairedReadOrderCovariate implements ExperimentalCovariate{ } public final Comparable getValue( final String str ) { - return Integer.parseInt( str ); + return str.hashCode(); } // Used to estimate the amount space required for the full data HashMap