Commits for chmalee

v409_preview to v409_preview2 (2021-01-04 to 2021-01-11) v409

9420f6640ef03c6a505ac5b67a892198bd3268be Wed Jan 6 09:45:20 2021 -0800

• Adding MAF filters to updated gnomad tracks, refs #25010,#26449
  • src/hg/makeDb/trackDb/human/hg19/trackDb.gnomad.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/gnomad.ra - lines changed 2, context: html, text, full: html, text

aeef1250267d3f03c35abbc1df8be1ffa6be13c2 Thu Jan 7 08:48:25 2021 -0800

• Update gnomad constraint build script to color by loeuf score instead of pli score, refs #26399
  • src/hg/makeDb/gnomad/combine.awk - lines changed 20, context: html, text, full: html, text

e2acc858c490cbe1d1d8e51a6c704c96d30d032c Thu Jan 7 10:20:01 2021 -0800

• Fix up gnomad constraint legend to match new colors, refs #26399
  • src/hg/hgTracks/hgTracks.c - lines changed 12, context: html, text, full: html, text

3942c5287c1795c87d6cb0136a46b0e40b7fdc62 Fri Jan 8 09:17:12 2021 -0800

• Add missense constraint by transcript and gene tracks and some other small changes requested by Anne O'Donnell-Luria
  • src/hg/makeDb/trackDb/human/hg19/trackDb.gnomad.ra - lines changed 75, context: html, text, full: html, text

e101dc0e743a44ea8c8813ffcc29e8cc51697f40 Fri Jan 8 13:05:26 2021 -0800

• LRG track otto updating for hg19 and hg38, refs #17877 #24672
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/parseLrgXml.pl - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/lrg/bigPsl+6.as - lines changed 39, context: html, text, full: html, text
  • src/hg/utils/otto/lrg/buildLrg.sh - lines changed 76, context: html, text, full: html, text
  • src/hg/utils/otto/lrg/checkLrg.sh - lines changed 11, context: html, text, full: html, text
  • src/hg/utils/otto/lrg/lrgWrapper.sh - lines changed 8, context: html, text, full: html, text

03045b074b65d33e4893d9b4b2b464271f659a69 Fri Jan 8 14:43:10 2021 -0800

• Forgot the cds and fa arguments to pslToBigPsl for lrg otto build, refs #24672
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/otto/lrg/buildLrg.sh - lines changed 2, context: html, text, full: html, text

59a7dc6d8bac59e32e1b1841217febe0a4c7426b Mon Jan 11 09:14:12 2021 -0800

• Fix duplicate table descriptions complaint from lrgBigPsl track, refs cronjob email
  • src/hg/utils/otto/lrg/bigPsl+6.as - lines changed 2, context: html, text, full: html, text