v417

Code changes:

• Added the hogExit function to CGIs hgGene, hgTrackUi, hgBlat, hgc, hgPcr, cartDump (#23217). Hiram
• Fixed clicking on squished item tracks (#27715). Brian
• Changed barChartClick to use the pipeline library instead of system() (#22854). Brian
• Fixed bug in bigBed filtering UI where singleList was showing checkboxes in the pull-down (#27713). Brian
• Made the default bigBed filter by multiple (#27713). Brian
• Fixed alpha compositing so that anti-aliased items properly mix with Javascript graphics (#27723). Brian
• Recovered sequence logo code do draw sequence logos in hgTracks. Brian
• Label width now preserved when a Recommended Track Set is selected (#27682). Kate
• Changed udcTimeout warning text to a notification “bar” over the position box but under the menu bar (#27677). Max
• Track Database Definition Document defining hub settings has been updated from version two to version three (#26598). Brian Lee
• Added cartVersion table to public trackDb build. Brian
• faFrag: support multi-fasta alignment format. Angie
• faToVcf: added -includeNoAltN option (for pangolin). Angie
• hgPhyloPlace. Angie
  • Added link out to outbreak.info lineage reports.
  • Added Auspice config colorings contributed by @babarlelephant via github.

Data changes:

• Added chromAlias table and file to gorGor5. Hiram
• Ongoing work on daily update scripts for big SARS-CoV-2 tree. Angie