Always add header

Author: bbimber

SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/PindelAnalysis.java

@@ -458,6 +458,7 @@ public static File createVcf(File pindelOutput, File vcfOutput, ReferenceGenome
             VCFHeader header = new VCFHeader();
             header.setSequenceDictionary(dict);
             LofreqAnalysis.addMetaLines(header);
+            writer.writeHeader(header);
 
             String[] line;
             while ((line = reader.readNext()) != null)