From 4f7ed69242b2bbbde83355efce5e3e5af8fa7078 Mon Sep 17 00:00:00 2001 From: depristo Date: Fri, 28 Aug 2009 01:03:58 +0000 Subject: [PATCH] toString() implemented git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1472 348d0f76-0448-11de-a6fe-93d51630548a --- .../org/broadinstitute/sting/utils/ReadBackedPileup.java | 6 +++++- 1 file changed, 5 insertions(+), 1 deletion(-) diff --git a/java/src/org/broadinstitute/sting/utils/ReadBackedPileup.java b/java/src/org/broadinstitute/sting/utils/ReadBackedPileup.java index 5ae37eb46..3d5b8e320 100755 --- a/java/src/org/broadinstitute/sting/utils/ReadBackedPileup.java +++ b/java/src/org/broadinstitute/sting/utils/ReadBackedPileup.java @@ -58,7 +58,7 @@ public class ReadBackedPileup extends BasicPileup { } public String getQualsAsInts() { - System.out.printf("getQualsAsInts"); + //System.out.printf("getQualsAsInts"); return Utils.join(",", qualPileup(reads, offsets)); } @@ -99,6 +99,10 @@ public class ReadBackedPileup extends BasicPileup { return probDistPileupAsString(reads, offsets); } + public String toString() { + return getPileupString(true); + } + public String getPileupString(boolean qualsAsInts) { // In the pileup format, each line represents a genomic position, consisting of chromosome name,