v313

Code changes:

• Added some finishing touches to hgBeacon (for GA4GH) (#14393). Max
• Added menu to HAL snake UI allowing users to select coalescent ancestor. Brian
• Changed UDC caching to use SHA1 hash instead of URL text if the number of characters in the URL is greater than 255 between slashes (#14863). Brian
• Fixed menu duplication bug if there is a custom track on a track hub (#14878). Brian
• Allow zero length blocks in browser and in bigBed's. Brian
• Allow use of both itemRBG and the ability to used codon coloring in bigGenePred’s. Brian
• Initial implementation of schema and display code for Genotype-Tissue Expression (GTEX) tracks. Includes new graphics lib routine (from JK oneshot code) to draw colored bars (for bar graphs) in main browser display (#13504). Kate
• Data loaders for GTEX data (#13504). Kate
• Added browser and details page support for vocabulary tables. Used by hg38 integrated regulation tracks (this replaces ENCODE cv.ra file) (#14353). Kate
• Add ability for various big*-writing utils to accept URLs as chrom.sizes files since they are now on hgdownload (#14857). Angie
• Added link to chromInfo page to $db.chrom.sizes files on hgdownload (#14870). Angie
• Added functionality to hgAi: instead of getting menu lists from CGI, get the whole trackDb tree and clade/org/db tree in order to offer a more flexible display of options (e.g. for composite tracks w/views, show menus for views and subtracks) (#14579). Angie

Data changes:

• New assembly browser for Proboscis monkey, nasLar1 (#14437). Hiram
• New assembly browser for Golden snub-nosed monkey, rhiRox1 (#14438). Hiram
• Added random string generator 'randString' to demonstrate /dev/random usage (#14863). Hiram
• 17-species primate conservation track for tarSyr2 and hg38 (#14560). HIram
• Updated master phylo tree to 191 species (#14560). Hiram
• Completed hg38 DNase tracks (3 total: Colored Signal, Hypersensitivity (both new in hg38), and Clusters (as in hg19). All 3 are in the ENCODE Regulation supertrack (other tracks in the supertrack are lifts by Chris E). (#14353). Kate
• Rebuilt snp142 on hg19 and hg38 with updated download file (missing validation info) (#14836, #14189). Angie