Commits for braney

v426_preview to v426_preview2 (2022-01-18 to 2022-01-24) v426

21ec4227aa96abba7f519d50611164f41c1d2435 Tue Jan 18 10:50:31 2022 -0800

• add chainCleaner and pslSortAcc to utilities build
  • src/hg/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/makefile - lines changed 1, context: html, text, full: html, text

19de5d37d6012bd61b9c5a57fbc524581c7a1987 Tue Jan 18 15:25:13 2022 -0800

• adding support for speciesLabels to hgTrackUi
  • src/hg/lib/hui.c - lines changed 8, context: html, text, full: html, text

6123cee6c76c2cc2f143a385a1947a735f178e35 Tue Jan 18 15:26:53 2022 -0800

• Adding html for GENCODE V39
  • src/hg/makeDb/trackDb/human/hg38/knownGeneV39.html - lines changed 140, context: html, text, full: html, text

77205f9f98cea502c7a5e3a72a49829214f9bc8e Tue Jan 18 16:36:16 2022 -0800

• update knownGene.alpha.ra to use GENCODE V39
  • src/hg/makeDb/trackDb/human/hg38/knownGene.alpha.ra - lines changed 6, context: html, text, full: html, text

635ca2890b6308aec5bf2536060bd9c220dc5e25 Wed Jan 19 10:41:31 2022 -0800

• fix up V39 HTML, and (finally) remove all the *ToKg* rules in all.joiner
  • src/hg/makeDb/schema/all.joiner - lines changed 70, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/knownGeneV39.html - lines changed 10, context: html, text, full: html, text

3d92184650492b66c5ead4d4b2dbd63028b596cc Wed Jan 19 11:03:29 2022 -0800

• add V38 to knownGeneArchive
  • src/hg/makeDb/trackDb/human/hg38/knownGeneArchive.ra - lines changed 34, context: html, text, full: html, text

54406b80d5d435970989acff7b22dd6146c6b411 Sat Jan 22 15:24:59 2022 -0800

• adding chrom alias support to big files
  • src/hg/hgTables/bigBed.c - lines changed 8, context: html, text, full: html, text
  • src/hg/hgTables/bigWig.c - lines changed 5, context: html, text, full: html, text
  • src/hg/hgTables/hgTables.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/bigBedTrack.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/bigWigTrack.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/chainTrack.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/vcfTrack.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/wigMafTrack.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgc/barChartClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/bigBedClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/bigDbSnpClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/bigRmskClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/clinvarSubLolly.c - lines changed 3, context: html, text, full: html, text
  • src/hg/hgc/encodeClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/hgc.c - lines changed 8, context: html, text, full: html, text
  • src/hg/hgc/lrgClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/mafClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/transMapClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgc/wiggleClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/inc/chromAlias.h - lines changed 5, context: html, text, full: html, text
  • src/hg/lib/chainNetDbLoad.c - lines changed 3, context: html, text, full: html, text
  • src/hg/lib/chromAlias.c - lines changed 69, context: html, text, full: html, text
  • src/hg/lib/customFactory.c - lines changed 3, context: html, text, full: html, text
  • src/hg/lib/hgHgvs.c - lines changed 2, context: html, text, full: html, text
  • src/inc/bbiFile.h - lines changed 4, context: html, text, full: html, text
  • src/inc/bigBed.h - lines changed 3, context: html, text, full: html, text
  • src/inc/bigWig.h - lines changed 3, context: html, text, full: html, text
  • src/lib/bbiRead.c - lines changed 60, context: html, text, full: html, text
  • src/lib/bigBed.c - lines changed 7, context: html, text, full: html, text
  • src/lib/bwgQuery.c - lines changed 7, context: html, text, full: html, text