v408

Code changes:

• Finalizing FreeType font work, now settled on available fonts and sizes. Brian
• Added ability to have a default cart for mirrors. Brian
• Added isPcr support to assembly hubs. Brian
• Add 'barChartCategoryUrl' setting for barChart tracks, to specify a tab-separated file containing category (bar) labels and colors, as an alternative to using the 'barChartBars' and 'barChartColors' settings. Useful for datasets with numerous categories, such as single cell RNA-seq clusters (#22075). Kate
• Adding support for wig format to chromToUcsc. Max
• Work on the long way to all assembly-otto: more changes to the uniprot pipeline (#25784) (#26630) Max
• Fixing exon numbers not showing up on some genePred tracks (#25325). Max
• New CGI hgPhyloPlace uses UShER to place coronavirus sequences in phylogenetic tree (#26530). Angie
• BAM custom tracks now support RefSeq/GenBank accessions for coronavirus. Angie
• Amended javascript to handle asynchronous cart updates in IE better by just testing for the sendBeacon capability. Jonathan
• tdbQuery no longer loses track of release tags when doing nested file includes in trackDb (#26566). Jonathan
• Fixed autoscaling of lollipops in multi-region mode. Brian
• Fixing spurious cartDump empty hgsid messages generated by expanding/collapsing tables on hgc (#26619). Christopher
• Add user-defined tables to bigBed hgc via trackDb pointer to a url, used for gnomAD (#26449). Christopher
• Wiggle mouse over code adjusted to work with a single json data file instead of one file for each track, and prepare for future functions to allow different track types for mouse overs (#21980). Hiram
• Correcting assembly build scripts to correctly construct chromAlias file (#24396). Hiram

Data changes:

• Protein microarray track for wuhCor1 (#26564). Max
• Scripts for processing sarscov2phylo tree, GISAID & NCBI data into GISAID and public trees and metadata for hgPhyloPlace (#26530). Angie
• Added gnomAD v3.1 track QA ready (#26649). Christopher
• Added syntenicNet and reciprocalBest for ornAna1 monDom5 alignments per user request (#26540). Hiram
• Catching up RefSeq vertebrate assembly hub builds, and starting plants RefSeq assembly hubs (#23891). Hiram