Commits for jcasper

v478_base to v479_preview (2025-02-24 to 2025-03-03) v479

e82710c932466ad56434e0a33dcfcd415606795a Sat Feb 22 11:59:05 2025 -0800

• Minor change to get txGeneExplainUpdate2 compiling again, refs #35189
  • src/hg/txGene/txGeneExplainUpdate2/txGeneExplainUpdate2.c - lines changed 2, context: html, text, full: html, text

228daed3dded390f7a2b7895702097b0b71794f1 Sun Mar 2 01:11:13 2025 -0800

• Installing updated hg.conf files from UCSC servers
  • confs/hgwdev.hg.conf - lines changed 1, context: html, text, full: html, text

9bc30cde15b1468305a46960bc2c715c5e8942e7 Sun Mar 2 09:28:44 2025 -0800

• VM37 knownGene trackDb for mm39
  • src/hg/makeDb/trackDb/mouse/mm39/knownGene.alpha.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGene.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGeneArchive.ra - lines changed 24, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGeneVM37.html - lines changed 124, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.ra - lines changed 2, context: html, text, full: html, text

1cfcd358bab5bee746cb33e15fc861f6206835b6 Sun Mar 2 09:35:30 2025 -0800

• Gotta run cluster jobs on hgwdev instead of ku for a bit, and s-nail wants spaces instead of commas in the recipients list, refs #35189
  • src/hg/utils/otto/knownGene/buildBlast.sh - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/knownGene/genIspcrMail.sh - lines changed 1, context: html, text, full: html, text

1c36c9c04ec6dd169e4ae9ec0d4f2934e829aca5 Sun Mar 2 12:14:17 2025 -0800

• Pushing getTrackReferences to python3, refs #35314
  • src/hg/encode/getTrackReferences/getTrackReferences - lines changed 29, context: html, text, full: html, text

d11734eb8be118418ae02fe26799870807b43685 Mon Mar 3 07:41:09 2025 -0800

• Needed a function to split up CSV without losing empty records, refs #31812
  • src/inc/common.h - lines changed 4, context: html, text, full: html, text
  • src/lib/common.c - lines changed 47, context: html, text, full: html, text

ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800

• Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
  • src/hg/hgTracks/bigBedTrack.c - lines changed 26, context: html, text, full: html, text
  • src/hg/hgTracks/bigRmskTrack.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/heatmap.c - lines changed 782, context: html, text, full: html, text
  • src/hg/hgTracks/heatmap.h - lines changed 73, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 11, context: html, text, full: html, text
  • src/hg/hgTracks/lollyTrack.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/simpleTracks.c - lines changed 16, context: html, text, full: html, text
  • src/hg/lib/heatmap.as - lines changed 21, context: html, text, full: html, text

cc84507a07203d9cf4aeec4b6335e4f0d9b93216 Mon Mar 3 10:45:32 2025 -0800

• Makedoc for Gencode VM37 on mm39, refs #35819
  • src/hg/makeDb/doc/ucscGenes/mm39.gencodeVM37.sh - lines changed 52, context: html, text, full: html, text

93dfae59f60f1be200da01a1e24a01a10f254cac Mon Mar 3 11:05:51 2025 -0800

• v479 preview1, refs #35217
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text