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One quick fix to previous commit

This commit is contained in:
Eric Banks 2011-11-14 14:42:12 -05:00
parent b3313e1445
commit 4dc9dbe890
1 changed files with 7 additions and 3 deletions
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10
public/java/src/org/broadinstitute/sting/gatk/walkers/annotator/VariantAnnotator.java
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@ -240,10 +240,14 @@ public class VariantAnnotator extends RodWalker<Integer, Integer> implements Ann
}
}
if ( targetHeaderLine != null )
hInfo.add(new VCFInfoHeaderLine(expression.fullName, targetHeaderLine.getCountType(), targetHeaderLine.getType(), targetHeaderLine.getDescription()));
else
if ( targetHeaderLine != null ) {
if ( targetHeaderLine.getCountType() == VCFHeaderLineCount.INTEGER )
hInfo.add(new VCFInfoHeaderLine(expression.fullName, targetHeaderLine.getCount(), targetHeaderLine.getType(), targetHeaderLine.getDescription()));
else
hInfo.add(new VCFInfoHeaderLine(expression.fullName, targetHeaderLine.getCountType(), targetHeaderLine.getType(), targetHeaderLine.getDescription()));
} else {
hInfo.add(new VCFInfoHeaderLine(expression.fullName, VCFHeaderLineCount.UNBOUNDED, VCFHeaderLineType.String, "Value transferred from another external VCF resource"));
}
}
engine.invokeAnnotationInitializationMethods(hInfo);