samtools/htsjdk — pull request #107 by bradtaylor (2014-09-12 19:29:53+00:00)
Title: Fixed a bug in VCFUtils.smartMergeHeaders

When merging VCFHeaders, this method was scrambling the order of the VCFHeaderLines

This ordering is depended upon elsewhere, such as the VCFHeader.getSequenceDictionary method.
As a result, merged headers would present scrambled sequence dictionaries.

Fixed this method to return VCFHeaderLines in order.