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Not sure why this didn't fail before, but bringing VE up to date with previous changes

This commit is contained in:
Eric Banks 2011-08-03 14:27:07 -04:00
parent 3de10b1ef8
commit f62f47d476
1 changed files with 1 additions and 1 deletions
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public/java/src/org/broadinstitute/sting/utils/variantcontext/VariantContext.java
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@ -440,7 +440,7 @@ public class VariantContext implements Feature { // to enable tribble intergrati
* @return vc subcontext * @return vc subcontext
*/ */
public VariantContext subContextFromGenotypes(Collection<Genotype> genotypes, Set<Allele> alleles) { public VariantContext subContextFromGenotypes(Collection<Genotype> genotypes, Set<Allele> alleles) {
return new VariantContext(getSource(), contig, start, stop, alleles, genotypes, getNegLog10PError(), filtersWereApplied() ? getFilters() : null, getAttributes()); return new VariantContext(getSource(), contig, start, stop, alleles, genotypes != null ? genotypeCollectionToMap(new TreeMap<String, Genotype>(), genotypes) : null, getNegLog10PError(), filtersWereApplied() ? getFilters() : null, getAttributes(), getReferenceBaseForIndel());
} }