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FPGA null pointer bug fix

This commit is contained in:
Scott Thibault 2013-06-28 08:52:09 -05:00
parent 3db8908ae8
commit e691fa3e19
1 changed files with 2 additions and 2 deletions
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4
protected/java/src/org/broadinstitute/sting/gatk/walkers/haplotypecaller/LikelihoodCalculationEngine.java
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@ -180,7 +180,7 @@ public class LikelihoodCalculationEngine {
private PerReadAlleleLikelihoodMap computeReadLikelihoods( final List<Haplotype> haplotypes, final List<GATKSAMRecord> reads) {
// first, a little set up to get copies of the Haplotypes that are Alleles (more efficient than creating them each time)
final BatchPairHMM batchPairHMM = (pairHMM instanceof BatchPairHMM) ? (BatchPairHMM)pairHMM : null;
final BatchPairHMM batchPairHMM = (pairHMM.get() instanceof BatchPairHMM) ? (BatchPairHMM)pairHMM.get() : null;
final Vector<GATKSAMRecord> batchedReads = new Vector<GATKSAMRecord>(reads.size());
final int numHaplotypes = haplotypes.size();
final Map<Haplotype, Allele> alleleVersions = new LinkedHashMap<>(numHaplotypes);
@ -456,4 +456,4 @@ public class LikelihoodCalculationEngine {
}
throw new ReviewedStingException( "No reference haplotype found in the list of haplotypes!" );
}
}
}