v420

Code changes:

• Added small folder icons to composite and superTracks on hgTracks (#25035). Max
• Added a "help about search" link next to the go button on hgTracks (#15554). Max
• Fixed GBiC installation for centos7, centos8, and Fedora 34 (#27795). Max
• Review of custom track bottleneck penalty policy. Added variable in hg.conf, customTracks.botCheckMult which is an integer to set the penalty for custom track submissions (#28049). Hiram
• Added sequence logos to JASPAR track (#27061). Brian
• HGVS search: prevent protein search terms from landing outside of transcript CDS (#28107). Angie
• Fixed knownGene searches on GBiB by enabling gbdbAltLoc in hg.conf. Brian
• Fixed hubPublicEmail script, which complains to public hubs by email if they are down more than 24 hours (#27779). Max
• Fixed hubPublicCheck to update dbCount when changing dbList. Brian
• Fixed confusing behavior when something is typed in position box and then one of the zoom buttons (i.e. replace watermark on redraw) (#27728). Brian
• Added RedMine help widget to contact.html (#28034). Brian
• Fixed bug affecting G analytics tracking on old FireFox versions which was not allowing button click handlers to send events (#27283). Max
• Checked in Angie's original version of bed5SourceVals.sql for human and mouse genome patch make process (#250910. Galt
• Changed forked() pipeline() process to call _exit instead to exit() to prevent calls to atExit() routines that only apply to the parent (#28085). Brian
• Ongoing work to automate the knownGene build. Brian
• hgPhyloPlace. Angie
  • Now handles updates to Problematic Sites track more gracefully.
  • Updated to new internal node name format in usher outputs.
  • Bugfix: Now expands condensed nodes in big tree when making VCF custom tracks (was missing alts).

Data changes:

• (New) VM27 Gencode (knownGene) release for mm39 (#27186). Brian
• (New) V38 Gencode (knownGene) release for hg38 (#27182). Brian
• (New) V36 Gencode (knownGene) archive for hg38 (#28110). Brian
• (New) LRG track ready for QA (#24672). Chris
• Ongoing improvements to big tree build process. Angie