From 4e04370f1484238ff6e8af7982fb97e4a9634f97 Mon Sep 17 00:00:00 2001 From: aaron Date: Thu, 25 Jun 2009 17:56:17 +0000 Subject: [PATCH] forgot a file git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1096 348d0f76-0448-11de-a6fe-93d51630548a --- .../broadinstitute/sting/utils/sam/ArtificialSAMUtils.java | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java b/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java index 14512a300..d805aa4dd 100755 --- a/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java +++ b/java/src/org/broadinstitute/sting/utils/sam/ArtificialSAMUtils.java @@ -204,7 +204,7 @@ public class ArtificialSAMUtils { * * @return StingSAMIterator representing the specified amount of fake data */ - public static QueryIterator unmappedReadIterator( int startingChr, int endingChr, int readCount ) { + public static QueryIterator mappedReadIterator( int startingChr, int endingChr, int readCount ) { SAMFileHeader header = createArtificialSamHeader(( endingChr - startingChr ) + 1, startingChr, readCount + DEFAULT_READ_LENGTH); return new ArtificialSAMQueryIterator(startingChr, endingChr, readCount, 0, header); @@ -220,7 +220,7 @@ public class ArtificialSAMUtils { * * @return StingSAMIterator representing the specified amount of fake data */ - public static ArtificialSAMIterator unmappedReadIterator( int startingChr, int endingChr, int readCount, int unmappedReadCount ) { + public static ArtificialSAMIterator mappedAndUnmappedReadIterator( int startingChr, int endingChr, int readCount, int unmappedReadCount ) { SAMFileHeader header = createArtificialSamHeader(( endingChr - startingChr ) + 1, startingChr, readCount + DEFAULT_READ_LENGTH); return new ArtificialSAMQueryIterator(startingChr, endingChr, readCount, unmappedReadCount, header);