Commits for angie

26f1c3fc24fd6b4a1f5376cf609726d5c551c08f Fri Jun 17 12:06:21 2022 -0700

Added lineages BA.1.15.3, BD.1, BA.1.23, BA.1.24, BA.2.2.1, BA.2.3.{5-18}, BA.2.9.{3-4}, BG.1, BA.2.12.2, BA.2.{46-73}, BA.2.56.1, BA.4.1.{1-2}, BA.5.{1-3,5}, BA.5.2.1, BF.1, BA.5.3.{1-2}, BE.1, XZ, XA{A-H} -- pango-designation v1.10. Renamed 5 proposed labels that were designated, added 2 proposed labels, added BA.2.3.16_alt and BA.2.13_revs labels for split branches due to artefacts; labels will need to be tweaked when making lineageTree.pb.
- src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv - lines changed 81, context: html, text, full: html, text

986b0aedc124961eefdb62ae9af7b690591cdb60 Wed Jun 22 15:24:23 2022 -0700

Added labels BA.2.3.9_rev241 and BA.2.3.9_rev10198 to include branches split off by reversions. Added BG.2 - pango-designation v1.11.
- src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv - lines changed 3, context: html, text, full: html, text

4e346bd64d3157d7add9043b93ebf124cdbed1be Thu Jun 23 14:43:07 2022 -0700

Prevent SEGV caused by trying to convert components with no sequence, e.g. from 'e' lines with double-sided insertion. refs #29636
- src/hg/mouseStuff/mafToPsl/mafToPsl.c - lines changed 1, context: html, text, full: html, text