Commits for angie

v397_preview2 to v397_base (2020-04-13 to 2020-04-20) v397

188f092007924642ae2e37ea29492d88dc4a52b1 Wed Apr 15 10:23:30 2020 -0700

• Nextstrain changed the live-data URL; http://data.nextstrain.org/ncov.json has had the same data since April 8, now there's a dynamic query. refs #25188
  • src/hg/utils/otto/nextstrainNcov/doUpdate.sh - lines changed 5, context: html, text, full: html, text

6c6d58a7b4191872e89e195cb0c60893f7883ce4 Wed Apr 15 10:25:46 2020 -0700

• When comparing column names (e.g. to determine if a data source is genePred or bigGenePred, ignore '_' prefix because that is sometimes prepended to bigBed field names in order to suppress hgc display. Needed for VAI to support wuhCor1 with custom ncbiGene.bb.
  • src/lib/asParse.c - lines changed 8, context: html, text, full: html, text

6ab8ef45856166ed4ddeeae442baa346f11dcd5a Thu Apr 16 10:20:18 2020 -0700

• Added missing backslash that caused make to fail with a 'recipe commences before first target' error.
  • src/utils/makefile - lines changed 1, context: html, text, full: html, text

87118719061f4c115e5f214f8f8699428a12ad20 Thu Apr 16 10:23:12 2020 -0700

• Ana pointed out that the link should highlight a few words and not a long description. refs #24695
  • src/hg/hgc/hgc.c - lines changed 3, context: html, text, full: html, text

d6a1bdcf39d68664da29cf6eeb9cd3c66a1b4eed Thu Apr 16 14:25:57 2020 -0700

• Ana pointed out that the normalized score applies to the whole chain, so the 'Fields above refer to entire chain' note should go below it. Also, it's aligned bases (including mismatches) that count towards normScore, not just matching bases. refs #24695
  • src/hg/hgc/hgc.c - lines changed 8, context: html, text, full: html, text