InstData GATK: realloc allocation
InstData Gatk: add known sites snv vcfs to base with knowns; use only known sites indel vcf in indel realigner
InstData GATK: was getting indel result twice in known sites
InstData GATK: add status msgs to show inputs
bless build diffs for indels

the previously blessed results were very wrong.
M:T:Anno:TranscriptVar:V3 make temporary parameter variable optional
fixed typos in new DV2 BreakdancerMax module
Merge remote-tracking branch 'upstream/master'