Commits for hiram

v470_preview2 to v470_base (2024-08-19 to 2024-08-26) v470

7d62fef94fc8e61b8c4f2b66229d81596e19a44d Mon Aug 19 13:50:38 2024 -0700

• augment the description on GenArk assemblies to include the year and the assembly status refs #33720
  • src/hg/hubApi/assemblyList.py - lines changed 57, context: html, text, full: html, text

9f3887a28c44e1170456a5e782da504a49ac3b88 Mon Aug 19 15:26:08 2024 -0700

• rearrangements following input suggestions refs #32596
  • src/hg/htdocs/assemblySearch.html - lines changed 42, context: html, text, full: html, text
  • src/hg/htdocs/style/assemblySearch.css - lines changed 8, context: html, text, full: html, text
  • src/hg/js/assemblySearch.js - lines changed 22, context: html, text, full: html, text

7b8b81e0a4869b24cdd8d7d31eaad33aacb87c0a Wed Aug 21 09:03:50 2024 -0700

• will now perform the request email properly and the html page can take arguments refs #32596
  • src/hg/gar/asr.cgi.pl - lines changed 132, context: html, text, full: html, text
  • src/hg/gar/makefile - lines changed 6, context: html, text, full: html, text
  • src/hg/htdocs/assemblySearch.html - lines changed 37, context: html, text, full: html, text
  • src/hg/js/assemblySearch.js - lines changed 311, context: html, text, full: html, text

80531ff78f330d4bfa53e57cb744cea5cc771bfc Wed Aug 21 09:06:16 2024 -0700

• correct name asr.cgi.pl refs #29327
  • src/hg/gar/makefile - lines changed 6, context: html, text, full: html, text

7ccfb0fbba82001e6a00209371320e016b75ded2 Wed Aug 21 09:09:20 2024 -0700

• add assemblySearch.css to the send list refs #29327
  • src/hg/htdocs/style/makefile - lines changed 1, context: html, text, full: html, text

101cc7763481532964c3d20de72539527c0cbf18 Wed Aug 21 09:18:30 2024 -0700

• now jshint clean refs #32596
  • src/hg/js/assemblySearch.js - lines changed 15, context: html, text, full: html, text

dfafb4ab96ce0d94f4ba85397ce40af2f191eabd Wed Aug 21 09:19:20 2024 -0700

• adding assemblySearch.js to the send list refs #32596
  • src/hg/js/makefile - lines changed 2, context: html, text, full: html, text

55372fae7778bb8a83ddceb3e3f942b45e9000ce Wed Aug 21 09:23:10 2024 -0700

• remove debug alerts refs #32596
  • src/hg/js/assemblySearch.js - lines changed 2, context: html, text, full: html, text

a425e0d7b7d3dd637125baae3735bf1e9044c09d Wed Aug 21 09:39:14 2024 -0700

• correct tooltip class definitions for column headers tips refs #32596
  • src/hg/htdocs/style/assemblySearch.css - lines changed 63, context: html, text, full: html, text

770ad3df528f3d6590370e95d4b0663554816bee Wed Aug 21 09:53:14 2024 -0700

• do not send email twice when debugging refs #32596
  • src/hg/gar/asr.cgi.pl - lines changed 3, context: html, text, full: html, text

a9f92e1f57d906e8c985d8d1894057d00878a782 Wed Aug 21 10:10:10 2024 -0700

• record requests made so can avoid repeating request refs #32596
  • src/hg/js/assemblySearch.js - lines changed 15, context: html, text, full: html, text

138466997afeed868f4265c70bd950ef75a643c6 Wed Aug 21 12:04:23 2024 -0700

• advanced search hoptions now hidden by default and allow debug flag to turn on API url reference refs #32596
  • src/hg/htdocs/assemblySearch.html - lines changed 20, context: html, text, full: html, text
  • src/hg/htdocs/style/assemblySearch.css - lines changed 2, context: html, text, full: html, text
  • src/hg/js/assemblySearch.js - lines changed 47, context: html, text, full: html, text

fd6a2cf70e84116158bf945e95e4c16e63a4f536 Wed Aug 21 14:27:31 2024 -0700

• correct order of output columns refs #32596
  • src/hg/js/assemblySearch.js - lines changed 3, context: html, text, full: html, text

ca201ae430ddeaed6662e68fc880e8206036d7a0 Wed Aug 21 22:20:35 2024 -0700

• running up a number of assemblies for the BRC project refs #29545
  • src/hg/makeDb/doc/asmHubs/master.run.list - lines changed 313, context: html, text, full: html, text
  • src/hg/makeDb/doc/fungiAsmHub/fungi.orderList.tsv - lines changed 227, context: html, text, full: html, text
  • src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv - lines changed 146, context: html, text, full: html, text

44013090e321bd7a0bba1a2c6ab57239672bda0a Wed Aug 21 23:30:34 2024 -0700

• temporarily remove broken assembly GCA_000180835.1_ASM18083v1 refs #29545
  • src/hg/makeDb/doc/fungiAsmHub/fungi.orderList.tsv - lines changed 1, context: html, text, full: html, text

c045fda9b21ce94c38c7e89005288797ee7c4c08 Thu Aug 22 11:29:41 2024 -0700

• BRC project updated added a bit of cruft refs #29545
  • src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt - lines changed 49, context: html, text, full: html, text
  • src/hg/makeDb/doc/legacyAsmHub/legacy.orderList.tsv - lines changed 48, context: html, text, full: html, text

8e165b8a4b9f8da973d7c34b42be008fd90323d9 Thu Aug 22 15:14:12 2024 -0700

• another attempt fix for mouseOver wiggle changing when track type changes refs #34222
  • src/hg/js/hgTracks.js - lines changed 7, context: html, text, full: html, text

590f874f373b90a8c1cb333fab60f8721a03b9da Thu Aug 22 22:49:10 2024 -0700

• one moved to legacy refs #29545
  • src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv - lines changed 1, context: html, text, full: html, text

03850baecdbf748ed88469a946b34613a0c9ab23 Fri Aug 23 12:04:12 2024 -0700

• initial list needs to be cleaned up refs #34337
  • src/hg/makeDb/doc/brcAsmHub/brc.orderList.tsv - lines changed 525, context: html, text, full: html, text

7c044144fd5afe62432ebdc3a4b61f42d56a5ed9 Fri Aug 23 12:04:51 2024 -0700

• starting the BRC project set of GenArk hubs refs #34337
  • src/hg/makeDb/doc/brcAsmHub/hub.txt - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/doc/brcAsmHub/makefile - lines changed 26, context: html, text, full: html, text

5fdd97e7a641bfb8fa9e408a32c1980a4ddcb861 Fri Aug 23 12:35:21 2024 -0700

• with correct GCF equivalents for first list of GCAs refs #34337
  • src/hg/makeDb/doc/brcAsmHub/brc.orderList.tsv - lines changed 41, context: html, text, full: html, text

28bdadf237c69b5f8bd7ff2128210c82dddbd653 Mon Aug 26 08:25:37 2024 -0700

• coordinate the findGenome arguments with the assemblySearch javaScript refs #32596
  • src/hg/hubApi/dataApi.h - lines changed 2, context: html, text, full: html, text
  • src/hg/hubApi/findGenome.c - lines changed 6, context: html, text, full: html, text
  • src/hg/hubApi/hubApi.c - lines changed 1, context: html, text, full: html, text
  • src/hg/js/assemblySearch.js - lines changed 32, context: html, text, full: html, text

c4f69a770921ab7abea2f19ffab65abdbff8d916 Mon Aug 26 10:02:06 2024 -0700

• preparing to save history state, get all the URL arguments back into the web browser URL display refs #32596
  • src/hg/js/assemblySearch.js - lines changed 11, context: html, text, full: html, text