Commits for lrnassar

v444_base to v445_preview (2023-02-20 to 2023-02-27) v445

7278b9e0a4d428d54eb563f25ccf65170aab9943 Mon Feb 20 17:09:26 2023 -0800

• Clarifying the bb as file, refs #30588
  • src/hg/lib/hgncBig62.as - lines changed 1, context: html, text, full: html, text

594e3295e115d96e05b3f5b67150704cc30ded0e Thu Feb 23 14:36:50 2023 -0800

• Updating docs since changing the table schema button to be more general data format description, refs #30491
  • src/hg/htdocs/ENCODE/FAQ/index.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/FAQ/FAQdownloads.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/gbdDescriptions.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgGeneGraph.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgTracksHelp.html - lines changed 4, context: html, text, full: html, text

81291d83afc22635047c8178c46d28aa7271d26b Thu Feb 23 14:47:50 2023 -0800

• Updating table schema references to the new data format description name, refs #30491
  • src/hg/hgTables/identifiers.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgTables/usage.c - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/automation/makeDownloads.pl - lines changed 2, context: html, text, full: html, text

14292c6bc896a3768a781cf348b14208c5e172a9 Thu Feb 23 15:13:54 2023 -0800

• Tweaking the statement Max added after re-enabling BED output for signal tracks, refs #30585
  • src/hg/hgTables/mainPage.c - lines changed 6, context: html, text, full: html, text

bc6d8c0971e27f2c535c7e9cb6c103d5ee9c15d0 Thu Feb 23 15:27:55 2023 -0800

• Squashing old pennantIcons and updating some GENCODE ones, refs #30657
  • src/hg/makeDb/trackDb/human/hg19/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV42lift37.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/gnomad.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV42.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/panelApp.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/ukbDepletion.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/wgEncodeGencodeVM31.ra - lines changed 1, context: html, text, full: html, text

a4eee74618864ae995fb372bff6d5558351b9583 Thu Feb 23 16:45:55 2023 -0800

• Staging 5 new GENCODE tracks, refs #30657
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV42lift37.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV43lift37.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/knownGene.alpha.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/knownGeneV43.html - lines changed 10, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV42.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV43.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGene.alpha.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGeneVM32.html - lines changed 11, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/wgEncodeGencodeVM31.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/wgEncodeGencodeVM32.ra - lines changed 1, context: html, text, full: html, text

4b901eb0f53a8003cce7dcd598815f58066f73f2 Fri Feb 24 13:47:22 2023 -0800

• Staging and releasing the 5 new GENCODE tracks corresponding to V43 and VM32. Refs #30657
  • src/hg/makeDb/trackDb/human/hg38/knownGene.alpha.ra - lines changed 54, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/knownGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGene.alpha.ra - lines changed 40, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.ra - lines changed 2, context: html, text, full: html, text

a7048503eb6fd7bf8c87ff628cd9ff10a1d88ffd Fri Feb 24 14:53:31 2023 -0800

• Fixing a small remaining old GENCODE number from the desc page.
  • src/hg/makeDb/trackDb/human/hg38/knownGeneV43.html - lines changed 1, context: html, text, full: html, text

f59f95929aa7cf2b8ec43fa12aa362aa2cc8142a Fri Feb 24 15:01:02 2023 -0800

• News release for new GENCODE tracks. Refs #30657
  • src/hg/htdocs/goldenPath/newsarch.html - lines changed 86, context: html, text, full: html, text
  • src/hg/htdocs/indexNews.html - lines changed 12, context: html, text, full: html, text

c988c01554db9f17455ca55e5bc42d3a94eeac9d Fri Feb 24 15:04:20 2023 -0800

• Fixing bonehead mistake of anchoring to next year.
  • src/hg/htdocs/goldenPath/newsarch.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/indexNews.html - lines changed 1, context: html, text, full: html, text

849b83ab5df299bef66be9e3c545667e0cf49028 Fri Feb 24 17:17:09 2023 -0800

• Fixing wording of new wig box in hgTables, refs #30585
  • src/hg/hgTables/mainPage.c - lines changed 1, context: html, text, full: html, text

91e37818e704b0bf01b3da3db49c07c4e60ab865 Fri Feb 24 17:30:57 2023 -0800

• Clarifying the track labels/desc based on user feedback, refs #30649
  • src/hg/makeDb/trackDb/human/hg38/recombRate.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/recombRate2.html - lines changed 1, context: html, text, full: html, text