From 2c3f56cb8d59b430b77302900e41e19b0195704c Mon Sep 17 00:00:00 2001 From: ebanks Date: Tue, 11 Aug 2009 20:28:24 +0000 Subject: [PATCH] fix length calculation (it was including +/- char when it shouldn't) git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1410 348d0f76-0448-11de-a6fe-93d51630548a --- .../org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java b/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java index 3195dd6c6..acfd505d9 100755 --- a/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java +++ b/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java @@ -22,7 +22,7 @@ public class SimpleIndelROD extends TabularROD implements Genotype, AllelicVaria return Arrays.asList(this.get("4")); String str = this.get("3"); - return Arrays.asList(str.substring(0, str.indexOf(":"))); + return Arrays.asList(str.substring(1, str.indexOf(":"))); } public String getFWDRefBases() { return ""; }