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Merged bug fix from Stable into Unstable

This commit is contained in:
Guillermo del Angel 2012-08-01 10:56:45 -04:00
parent 459832ee16 84cd23f891
commit 9ac72dbd4d
1 changed files with 4 additions and 0 deletions
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4
protected/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/GeneralPloidyIndelGenotypeLikelihoodsCalculationModel.java
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@ -94,6 +94,10 @@ public class GeneralPloidyIndelGenotypeLikelihoodsCalculationModel extends Gener
haplotypeMap.clear();
}
IndelGenotypeLikelihoodsCalculationModel.getHaplotypeMapFromAlleles(alleles, ref, ref.getLocus(), haplotypeMap);
// sanity check: if haplotype map couldn't be created, clear allele list
if (haplotypeMap.isEmpty())
alleles.clear();
return alleles;
}