Commits for hiram

v489_base to v490_preview (2025-10-13 to 2025-10-20) v490

ebabdfea4d994cf7e35f5d46f8b60c61f9dd203d Wed Oct 15 09:23:08 2025 -0700

• checking these files from Heng Li refs #36494
  • src/hg/makeDb/doc/hs1/LCR.txt - lines changed 88, context: html, text, full: html, text

cd2ba925d41f6ed1749ac3e6a3f799b329fe9879 Wed Oct 15 09:32:10 2025 -0700

• checking these files from Heng Li refs #36494
  • src/hg/makeDb/doc/hs1/LCR.txt - lines changed 99, context: html, text, full: html, text

d46ff5f42bf47817b32ec4d2559074865b7f1a07 Wed Oct 15 11:38:50 2025 -0700

• checking these files from Heng Li refs #36494
  • src/hg/makeDb/doc/hg38/LCR.txt - lines changed 99, context: html, text, full: html, text

d6c4d299f0805e129af5485dd9c120da03c28677 Wed Oct 15 12:13:37 2025 -0700

• checking these LCR files from Heng Li refs #36494
  • src/hg/makeDb/trackDb/human/hg38/LCR.ra - lines changed 87, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/LCRs.html - lines changed 48, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hs1/LCR.ra - lines changed 67, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hs1/LCRs.html - lines changed 46, context: html, text, full: html, text

29105ad9a07d4e71224ea64df34208824fe58a5e Wed Oct 15 12:14:08 2025 -0700

• checking these LCR files from Heng Li refs #36494
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hs1/trackDb.ra - lines changed 2, context: html, text, full: html, text

9110d73a77da715fc6a5a708c4de6e3ecd381110 Fri Oct 17 10:23:07 2025 -0700

• fixup correct TMPDIR with new cluster environment refs #36483
  • src/hg/utils/automation/doSameSpeciesLiftOver.pl - lines changed 54, context: html, text, full: html, text

4eed15e27ec3d99dccc2872eab03a440acbbb3d6 Fri Oct 17 10:46:46 2025 -0700

• pushing the /gbdb/*/quickLift/ files refs #35575
  • src/hg/utils/otto/genArk/pushNewOnes.sh - lines changed 49, context: html, text, full: html, text
  • src/hg/utils/otto/genArk/quickLiftNew.sh - lines changed 41, context: html, text, full: html, text
  • src/hg/utils/otto/genArk/whatIsNew.sh - lines changed 43, context: html, text, full: html, text

8f3961a2c9707201232363ee38cbd1e74c147637 Fri Oct 17 12:09:55 2025 -0700

• there can be a quickLift file without the chainLiftOver tracks refs #35575
  • src/hg/utils/automation/asmHubChainNetTrackDb.pl - lines changed 15, context: html, text, full: html, text

d20e29ad88a98f2ee349187337549aa047dc8343 Fri Oct 17 12:41:00 2025 -0700

• more efficient featureBits measure and show featureBits result in output refs #35575
  • src/hg/makeDb/doc/asmHubs/quickLiftCatchUp.sh - lines changed 3, context: html, text, full: html, text