Commits for hiram

v501_base to v502_preview (2026-07-20 to 2026-07-27) v502

5aae6c38efd34ca5c4a0c5332bf6b180dfabb295 Mon Jul 20 15:59:58 2026 -0700

• add the writing of alpha.hub.txt for *any* contrib track refs #34917
  • src/hg/makeDb/doc/asmHubs/mkGenomes.pl - lines changed 59, context: html, text, full: html, text

685641f93eec33b44e4b83f887f2aa75db1a887c Tue Jul 21 07:16:33 2026 -0700

• NCBI name change freom GCA_010909765.1_sAmbRad1.pri to GCA_010909765.1_sAmbRad1 refs #29545
  • src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/legacyAsmHub/legacy.orderList.tsv - lines changed 1, context: html, text, full: html, text

bf2ec86e676e6806bf3f531e11b14da6312afdb6 Tue Jul 21 15:48:29 2026 -0700

• eliminate the unnecessary HGStyle.css and fix the ending close page correctly refs #31811
  • src/hg/htdocs/liftRequest.html - lines changed 5, context: html, text, full: html, text
  • src/hg/htdocs/style/liftRequest.css - lines changed 14, context: html, text, full: html, text

e8eff86dfac3b23f35eeb4cb6a0ec23e6f4d9a8c Tue Jul 21 19:52:32 2026 -0700

• eliminate the redundant duplicate inclusion of utils.js refs #31811
  • src/hg/htdocs/liftRequest.html - lines changed 1, context: html, text, full: html, text

755541f8af03c4956b3fe167dddc9f27d8ad9b62 Wed Jul 22 15:34:31 2026 -0700

• improve the login/logout function refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 75, context: html, text, full: html, text

0441be0515c7b1988115a3161659563dc13cdbb6 Thu Jul 23 08:02:54 2026 -0700

• fixup the problem of using getenv() for the host name to correctly use gethostname() refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 25, context: html, text, full: html, text

e4187a3e3f5f47339190d1daead5dfaa6644c0d8 Thu Jul 23 09:00:57 2026 -0700

• use hg.conf to determine .ucsc.edu domain - does not work with gethostname() refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 10, context: html, text, full: html, text

a2f0dc37bc0088b880ce3efed8ba68352a849707 Thu Jul 23 11:40:46 2026 -0700

• turns out hgwbeta is NOT privateHost refs #31811
  • src/hg/hubApi/liftOver.c - lines changed 5, context: html, text, full: html, text

e2c9cfc1bb6a71ba957b8f2b674491595a232353 Fri Jul 24 09:51:39 2026 -0700

• refactor the ottoRequest table access with relay requests from Euro/Asia nodes to the RR system refs #31811
  • src/hg/hubApi/apiUtils.c - lines changed 208, context: html, text, full: html, text
  • src/hg/hubApi/dataApi.h - lines changed 29, context: html, text, full: html, text
  • src/hg/hubApi/findGenome.c - lines changed 30, context: html, text, full: html, text
  • src/hg/hubApi/hubApi.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hubApi/liftOver.c - lines changed 142, context: html, text, full: html, text

a9b3f6390b742c276dd6df49e581d5a26b987168 Fri Jul 24 10:09:59 2026 -0700

• avoiding an existing situation with sqlUpdateRows() function refs #31811
  • src/hg/hubApi/apiUtils.c - lines changed 2, context: html, text, full: html, text

80bedbcf180ec262a2b7b9b941f2f80d71c1551b Fri Jul 24 11:34:48 2026 -0700

• add password reveal button to hgLogin form refs ##37921
  • src/hg/hgLogin/hgLogin.c - lines changed 103, context: html, text, full: html, text
  • src/hg/hgLogin/hgLogin.h - lines changed 1, context: html, text, full: html, text

47f71e9a0be0d7fd2bbca54c7e85c6b22d622fe4 Fri Jul 24 11:35:35 2026 -0700

• remove DBG printfs refs ##37921
  • src/hg/hgLogin/hgLogin.c - lines changed 8, context: html, text, full: html, text

bd6f21753bfc7843721e5722e3a9cb5e556914f9 Fri Jul 24 12:45:17 2026 -0700

• default on for the password reveal function refs #37921
  • src/hg/hgLogin/hgLogin.c - lines changed 2, context: html, text, full: html, text

8cd2af3f5f15571eb78ae62c1a470e492aecf22d Fri Jul 24 14:13:13 2026 -0700

• temporary field count error in assembly_summary_refseq.txt ignore bad records refs #31811
  • src/hg/hubApi/assemblyList.py - lines changed 2, context: html, text, full: html, text

07f22d708cefc4bc9f6d4147bc011fbc5147c5e5 Fri Jul 24 14:24:28 2026 -0700

• always write the alpha.hub.txt file refs #31811
  • src/hg/makeDb/doc/asmHubs/mkGenomes.pl - lines changed 10, context: html, text, full: html, text

75122c6bdd333cd0f84eaf989617de7de18b279e Fri Jul 24 14:29:44 2026 -0700

• NCBI name change GCA_010909765.1_sAmbRad1.pri becomes GCA_010909765.1_sAmbRad1 refs #34370
  • src/hg/makeDb/doc/vgpAsmHub/vgp.legacy.orderList.tsv - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/vgpAsmHub/vgp.userTracks.tsv - lines changed 1, context: html, text, full: html, text

2bbb002f33905f1299a571c386ce94312e141ce7 Sat Jul 25 09:49:33 2026 -0700

• can gzip the list archive and eliminate the obsolete load of the table from olden times only do the new update refs #31811
  • src/hg/utils/otto/genArk/updateHgcentral.sh - lines changed 8, context: html, text, full: html, text

f6c4dccbcda02c911b3e832fd9668b3b3f5dee4f Sat Jul 25 09:56:02 2026 -0700

• an informational printout refs #31811
  • src/hg/utils/otto/genArk/updateHgcentral.sh - lines changed 3, context: html, text, full: html, text