diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/indels/IndelRealigner.java b/java/src/org/broadinstitute/sting/gatk/walkers/indels/IndelRealigner.java index 797af9ff3..484981e44 100755 --- a/java/src/org/broadinstitute/sting/gatk/walkers/indels/IndelRealigner.java +++ b/java/src/org/broadinstitute/sting/gatk/walkers/indels/IndelRealigner.java @@ -1567,14 +1567,6 @@ public class IndelRealigner extends ReadWalker { loc = getToolkit().getGenomeLocParser().createGenomeLoc(loc.getContig(), padLeft, padRight); reference = referenceReader.getSubsequenceAt(loc.getContig(), loc.getStart(), loc.getStop()).getBases(); StringUtil.toUpperCase(reference); - - // TODO -- REMOVE ME WHEN WE FIND THE NON-DETERMINISM - if ( OUT_STATS != null ) { - logger.warn("ERIC: padLeft = " + padLeft); - logger.warn("ERIC: padRight = " + padRight); - logger.warn("ERIC: loc = " + loc); - logger.warn("ERIC: reference = " + new String(reference)); - } } return reference;