Commits for gperez2

v501_preview2 to v501_base (2026-07-13 to 2026-07-20) v501

e2a5a8c488681cd9560fdd13d80f10390a39d549 Tue Jul 14 09:33:07 2026 -0700

• Restoring the g=g2p link on the DDG2P news entry which was undone by my previous commit. No RM. Reported by Daily Code Review.
  • src/hg/htdocs/goldenPath/newsarch.html - lines changed 2, context: html, text, full: html, text

6d16cb32b992cc88362788b99ffc0fcc4c56d028 Tue Jul 14 10:33:07 2026 -0700

• Hiding the ENCODE4 cCREs/Regulation news post until it's ready to announce, refs #37845
  • src/hg/htdocs/goldenPath/newsarch.html - lines changed 2, context: html, text, full: html, text

e6bafe04b348ec643f503c1600ab336c56870214 Tue Jul 14 18:01:27 2026 -0700

• Adding the mouseDevTimecourse bigWig signal composite for mm10, including its track description page, build scripts, and makedoc documentation, using Claude, refs #37001
  • src/hg/makeDb/doc/mm10.txt - lines changed 75, context: html, text, full: html, text
  • src/hg/makeDb/scripts/mouseDevTimecourse/downloadBigwigs.sh - lines changed 49, context: html, text, full: html, text
  • src/hg/makeDb/scripts/mouseDevTimecourse/generateBigwigTrackDb.py - lines changed 199, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/developmentTimecourseSignalMm10.html - lines changed 93, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/developmentTimecourseSignalMm10.ra - lines changed 2845, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/mouseDevTimecourse.html - lines changed 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra - lines changed 1, context: html, text, full: html, text

1f43db197e0e58c47901a1d9f00531ecb08cacf0 Wed Jul 15 23:40:36 2026 -0700

• Updating hg38 ENCODE4 cCREs description pages to match mm10 (max-Z threshold, ATAC caveat, Core Collection link, Low-DNase/CA-only classes), fixing a filterValues typo and a few broken links along the way, and restoring the mm10 ENCODE4 Regulation links since ENCODE4 is on the RR. refs #37845 refs #37131
  • src/hg/makeDb/trackDb/human/hg38/cCREregistry.html - lines changed 76, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/cCREsSuper.html - lines changed 9, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/coreCollection.html - lines changed 54, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/encode.cCREs.override.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/cCREregistry.html - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/coreCollection.html - lines changed 1, context: html, text, full: html, text

b539e4e9e97af625cc089cc79c1800d03f28e2a6 Fri Jul 17 09:55:46 2026 -0700

• Updating the hgPcr test to click the first PCR result link due to GENCODE transcript accessions and positions changing after a new version release, No RM
  • src/utils/qa/qaTestScript.py - lines changed 1, context: html, text, full: html, text