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Fixing the Haplotype Resolver so that it doesn't complain about missing header lines. 

The code comments very clearly state that INFO fields shouldn't be propagated into the output,
but someone must have accidentally changed it afterwards.  This is just a simple one-line fix
to make sure the code adhered to the comments.

Delivers #63333488.
This commit is contained in:
Eric Banks 2014-01-13 22:47:43 -05:00
parent 347fab4717
commit fd511d12a2
1 changed files with 1 additions and 1 deletions
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2
protected/java/src/org/broadinstitute/sting/gatk/walkers/haplotypecaller/HaplotypeResolver.java
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@ -258,7 +258,7 @@ public class HaplotypeResolver extends RodWalker<Integer, Integer> {
}
private void writeOne(final VariantContext vc, final String set, final String status) {
final Map<String, Object> attrs = new HashMap<String, Object>(vc.getAttributes());
final Map<String, Object> attrs = new HashMap<>();
if ( SET_KEY != null && set != null )
attrs.put(SET_KEY, set);
if ( STATUS_KEY != null && status != null )