Commits for angie

v412_preview to v412_preview2 (2021-03-08 to 2021-03-15) v412

5ead5638fc691cfd443f7f01f5fd3524adcdf8dd Wed Mar 10 10:45:43 2021 -0800

• Add 'Early' to longLabel of B.1.1.7 in USA -- that track aged quickly\!
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra - lines changed 1, context: html, text, full: html, text

6da7bb9ec2e7692ab2f20e9a21d245d577f27206 Wed Mar 10 15:34:27 2021 -0800

• Adding Swift Primers track; also tweaking trackDb for RAPID/Midnight Primers and ARTIC (bigBed 6 + not 4). refs #27178
  • src/hg/makeDb/doc/wuhCor1/primers.txt - lines changed 45, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/virus/wuhCor1/rapid.html - lines changed 10, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/virus/wuhCor1/swift.html - lines changed 52, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra - lines changed 13, context: html, text, full: html, text

755cef4a9b33fdd390e9b1b2e7d957a2ddf70622 Fri Mar 12 12:35:22 2021 -0800

• Revert "As for wiggle, make bigWig's viewLimits min and max come from the data." -- again, since it was un-reverted in be4311c07e1. This reverts commit 9a1dd73f2df69278e2b5ab8c62d531205ab87845.
  • src/hg/lib/wiggleCart.c - lines changed 19, context: html, text, full: html, text

b53a3bcb70990aba36955d3c934cd25420330423 Fri Mar 12 15:18:28 2021 -0800

• Make subtree custom tracks dense by default (Russ request).
  • src/hg/hgPhyloPlace/writeCustomTracks.c - lines changed 1, context: html, text, full: html, text

89a4fdc0fec59184412fd55ae77183b7b2acb35f Fri Mar 12 15:21:33 2021 -0800

• Use the latest matUtils subcommand to get VCF; add subtracks by quarterly date ranges.
  • src/hg/utils/otto/sarscov2phylo/updatePublicTree.sh - lines changed 40, context: html, text, full: html, text