Release log update
Encode release log update
fixup a couple of broken names refs #11675
Merge branch 'master' of hgwdev.cse.ucsc.edu:/data/git/kent
snp135 got some new rows when it was rebuilt (#11544), so we get some new rows of output.
In order to detect the overlap of two 0-length (insertion) items, we need
to expand at least one of their ranges to the two surrounding bases.
VCF annoRows need to have corrected coords for indels, otherwise it messes
up coord comparison in annoGrator.  Also, that lets us get rid of the
ugly skippedFirstBase hack in annoFormatVep and annoGratorGpVar.
While hgFind exhaustive search may cause a CGI timeout (#11626), at least one app (hgGetAnn) requires an exhaustive search (#11665).  So I have enforced a results limit for mRNA searches only, and have allowed hgGetAnn to override the limit.  Will not be surprised if some other obscure case pops up where an hgFind call needs to be exhaustive, but have yet to code-browse discover one.
Corrected spelling of 'Commercial'
Merge remote-tracking branch: upstream/master