Commits for hiram

v493_preview2 to v493_base (2026-01-19 to 2026-01-26) v493

a7702c08f9fc16dfb900a5efecb8b5f73a9acdd7 Mon Jan 19 13:29:37 2026 -0800

• restore the default hidden already exists window and eliminate the jQuery ajax calls with the standard jScript fetch() function refs #31811
  • src/hg/htdocs/liftRequest.html - lines changed 1, context: html, text, full: html, text
  • src/hg/js/liftRequest.js - lines changed 63, context: html, text, full: html, text

c9604780dd0b68875f447e935e4e89eac57f183d Mon Jan 19 13:30:56 2026 -0800

• write liftRequest entry into the hgcentral.ottoRequest table refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 16, context: html, text, full: html, text

73df4b22477525c05614cff79595806231dd64ed Mon Jan 19 14:03:15 2026 -0800

• starting the hgcentral table ottoRequest to record lift over request refs #31811
  • src/hg/inc/ottoRequest.h - lines changed 86, context: html, text, full: html, text
  • src/hg/lib/ottoRequest.as - lines changed 11, context: html, text, full: html, text
  • src/hg/lib/ottoRequest.c - lines changed 243, context: html, text, full: html, text
  • src/hg/lib/ottoRequest.sql - lines changed 16, context: html, text, full: html, text

b6c8b1286c213a0dabca4a0728d647b8b505ee30 Mon Jan 19 14:03:54 2026 -0800

• improved ottoRequest table structure refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 1, context: html, text, full: html, text

dbfd9531e33085b16b29ad64e16b6fe0becb6c8b Mon Jan 19 14:09:18 2026 -0800

• show the du -hsc measurement of the kent source code checked out
  • src/userApps/fetchKentSource.sh - lines changed 1, context: html, text, full: html, text

a4984ed4a91768bac66cecaf7593bc0b7fca453f Mon Jan 19 14:12:05 2026 -0800

• correctly recognize files in a blat directory refs #35575
  • src/hg/makeDb/doc/asmHubs/quickLiftCatchUp.sh - lines changed 14, context: html, text, full: html, text

033456bc068a20c98d73f74ec366dbdf8a01000e Mon Jan 19 14:13:07 2026 -0800

• NCBI name change for GCA_018852605.2 refs #29545
  • src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt - lines changed 1, context: html, text, full: html, text

d397ac8c2ee2defbdcf2c148f0dd5d45a5a189ac Mon Jan 19 16:38:22 2026 -0800

• add a date stamp to the email refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 6, context: html, text, full: html, text

df57ecff435188eeafe1d9505fb7a49c5941f764 Tue Jan 20 11:50:25 2026 -0800

• correctly appear and dismiss the liftExisting box and clean up the text documentation refs #31811
  • src/hg/htdocs/liftRequest.html - lines changed 32, context: html, text, full: html, text
  • src/hg/htdocs/style/liftRequest.css - lines changed 12, context: html, text, full: html, text
  • src/hg/js/liftRequest.js - lines changed 21, context: html, text, full: html, text

094c4d429df5c052a59dc6414e948f31e3f8d9ee Tue Jan 20 12:00:18 2026 -0800

• grammar correction from code review refs #36974
  • src/hg/htdocs/liftRequest.html - lines changed 1, context: html, text, full: html, text

01dcc7388be432075103008e61f99892db4230d0 Tue Jan 20 12:08:04 2026 -0800

• correction from code review refs #36974
  • src/hg/hubApi/liftOver.c - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

c25cbdabc6bf946780a6e3c8ab5efb4f8838232b Tue Jan 20 14:14:01 2026 -0800

• only needs jquery-ui does not need jquery or jquery.plugins refs #36974
  • src/hg/htdocs/liftRequest.html - lines changed 4, context: html, text, full: html, text

cf91694df806cf52913c294e6d2cf0452373f8fc Wed Jan 21 21:45:19 2026 -0800

• add a doneStatus and a completeTime elements to the table definition refs #31811
  • src/hg/inc/ottoRequest.h - lines changed 3, context: html, text, full: html, text
  • src/hg/lib/ottoRequest.as - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/ottoRequest.c - lines changed 32, context: html, text, full: html, text
  • src/hg/lib/ottoRequest.sql - lines changed 2, context: html, text, full: html, text

390353c4fea824e8431fd1e6b4a5fa660ed9e14f Wed Jan 21 21:53:13 2026 -0800

• completeTime should be default null and add indexes on doneStatus and requestTime change comment to longtext from longblob refs #31811
  • src/hg/lib/ottoRequest.sql - lines changed 5, context: html, text, full: html, text

9661cdfa5b5385b5e1e31b2ad691f54c7795e962 Wed Jan 21 21:55:51 2026 -0800

• adding the doneStatus to the row insert into the ottoTable refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 1, context: html, text, full: html, text

c40b817e7eb787c9242a7d0ecacc99663ee8ee31 Thu Jan 22 18:18:10 2026 -0800

• adding some per user requests refs #29545
  • src/hg/makeDb/doc/bacteriaAsmHub/bacteria.orderList.tsv - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/doc/vertebrateAsmHub/vertebrate.orderList.tsv - lines changed 1, context: html, text, full: html, text

984d172a4eb5f434baa386930496e6af3289c4c8 Sat Jan 24 08:17:32 2026 -0800

• better detection of busy/idle nodes
  • src/hg/utils/automation/HgAutomate.pm - lines changed 8, context: html, text, full: html, text