Commits for jnavarr5

v484_preview2 to v484_base (2025-06-23 to 2025-06-30) v484

fa98a7f0f95ef4ae394e32db96e8ee14167dd9fd Tue Jun 24 14:06:35 2025 -0700

• Adding a gif for the assembly selction in the table Browser tutorial markdown, refs #35126
  • src/hg/htdocs/images/assemblySelection.gif - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

0f41b0e7a1ea6272a0ce5d86305314ec4be6a49c Tue Jun 24 14:40:14 2025 -0700

• Replacing the large gif with two smaller ones, refs #35126
  • src/hg/htdocs/images/tableSelection.gif - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/htdocs/images/trackSelection.gif - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

9c2e5fb2a65ece49ad485dcf552ac0bb2a63968a Tue Jun 24 16:32:22 2025 -0700

• Adding the table Browser screenshot for the markdown tutorial, refs #35126
  • src/hg/htdocs/images/tableBrowserAnnotated.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

3b69a19fd83cdcbace0acc21c321fd241f162b44 Tue Jun 24 16:37:34 2025 -0700

• Creating the Table Browser tutorial markdown, refs #35126
  • docs/index.md - lines changed 1, context: html, text, full: html, text
  • docs/makefile - lines changed 1, context: html, text, full: html, text
  • docs/tableBrowserTutorial.md - lines changed 203, context: html, text, full: html, text

ad1333c478eef8a5a7bd7ae921789febbdd00348 Tue Jun 24 16:50:32 2025 -0700

• Adding missing GIFs for the Table Browser markdown tutorial, refs #35126
  • src/hg/htdocs/images/defineRegions.gif - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/htdocs/images/downloadData.gif - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

9233f89064f6e7154715cd0c4c893a3208b88b45 Tue Jun 24 17:07:16 2025 -0700

• Making changes from code review. Adding missing commas and moving the 19 lifted icon, refs #35968
  • src/hg/makeDb/trackDb/human/revel.html - lines changed 5, context: html, text, full: html, text

75274af9813791ce17ac135fa70f1ab8bff9e6fd Wed Jun 25 10:57:30 2025 -0700

• Removing the 'coming soon' text from the Table Browser tutorial, refs #35126
  • docs/index.md - lines changed 4, context: html, text, full: html, text

a3b7988cbb4a1fa6c2bba2d3120fdff0889de05d Thu Jun 26 16:09:52 2025 -0700

• Fixing a typo reported by Bob, refs #35974
  • src/hg/htdocs/inc/recTrackSets.hg19.tab - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/inc/recTrackSets.hg38.tab - lines changed 1, context: html, text, full: html, text

c98e0e5941e8e94784c7b21d4246d67116c7e2a8 Fri Jun 27 11:56:37 2025 -0700

• Inversing the colors since the text is not readible with the current options, refs #35939
  • src/hg/htdocs/style/HGStyle.css - lines changed 2, context: html, text, full: html, text

ce643cc1161083650af9b97edc09d647a829b865 Fri Jun 27 15:13:25 2025 -0700

• Removing the ExonPrimer links from hgGene since the tool returns a 404 error (for hg19, hg38, mm10, mm39, mm9), refs #35989
  • src/hg/hgGene/hgGeneData/Human/hg19/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Human/hg38/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Mouse/mm10/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Mouse/mm39/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Mouse/mm9/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/primers.c - lines changed 2, context: html, text, full: html, text

dc22ea46e2f7c8783543c312cb9daa278af9c54a Mon Jun 30 12:37:04 2025 -0700

• Undoing the ExonPrimer tool removal from hgGene. Authors said they are hoping to bring it back up this week. Fixing a typo on the hg19 links.ra file too, refs #35989
  • src/hg/hgGene/hgGeneData/Human/hg19/links.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Human/hg38/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Mouse/mm10/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Mouse/mm39/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/hgGeneData/Mouse/mm9/links.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/hgGene/primers.c - lines changed 2, context: html, text, full: html, text

cf02fb681f98579e8cb6bc7f3caad698b1284ddf Mon Jun 30 14:25:40 2025 -0700

• Uncommenting the clinVar otto updates since it is running now, no Redmine
  • src/hg/utils/otto/otto.crontab - lines changed 2, context: html, text, full: html, text