From 3b1e966b4c34ee35883b617f8d9f913065334ffb Mon Sep 17 00:00:00 2001
From: kiran <kiran@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Wed, 9 Sep 2009 17:35:45 +0000
Subject: [PATCH] Lowercases the sequencing platform so that a difference in
 case doesn't lead to the failure to look up an entry in the hash.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1565 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../genotyper/EmpiricalSubstitutionGenotypeLikelihoods.java  | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionGenotypeLikelihoods.java b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionGenotypeLikelihoods.java
index 548e57732..8eaf4e72a 100755
--- a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionGenotypeLikelihoods.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionGenotypeLikelihoods.java
@@ -43,8 +43,9 @@ public class EmpiricalSubstitutionGenotypeLikelihoods extends GenotypeLikelihood
     }
 
     public static SequencerPlatform standardizeSequencerPlatform( final String sequencerString ) {
-        if ( sequencerString != null && PLFieldToSequencerPlatform.containsKey(sequencerString) ) {
-            return PLFieldToSequencerPlatform.get(sequencerString);
+        String lcSequencerString = sequencerString.toLowerCase();
+        if ( sequencerString != null && PLFieldToSequencerPlatform.containsKey(lcSequencerString) ) {
+            return PLFieldToSequencerPlatform.get(lcSequencerString);
         } else {
             return SequencerPlatform.UNKNOWN;
         }