From 692b1e206fb12e82f1d791714e58a32aa2602130 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Wed, 15 Jul 2009 20:34:01 +0000
Subject: [PATCH] stop throwing an exception here: we don't always have allele
 counts

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1259 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/utils/genotype/HardyWeinbergCalculation.java         | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/utils/genotype/HardyWeinbergCalculation.java b/java/src/org/broadinstitute/sting/utils/genotype/HardyWeinbergCalculation.java
index c99a85502..6fd0d7cee 100755
--- a/java/src/org/broadinstitute/sting/utils/genotype/HardyWeinbergCalculation.java
+++ b/java/src/org/broadinstitute/sting/utils/genotype/HardyWeinbergCalculation.java
@@ -72,8 +72,7 @@ public final class HardyWeinbergCalculation {
 
        //make sure numbers aren't screwy
        if (hets > rare) {
-           throw new IllegalArgumentException("HW test: " + hets + " heterozygotes but only " +
-               rare + " rare alleles.");
+           return -1;
        }
 
        double[] tailProbs = new double[rare + 1];