Commits for chmalee

v494_preview2 to v494_base (2026-02-09 to 2026-02-16) v494

03d6935afd1f21e64a308f28fe738cd22c0c5b25 Mon Feb 9 14:05:16 2026 -0800

• hgGateway: rename category labels in the 'recents' section. external hub clicks on cards no longer remain selected after clicking. GenArk and native dbs are handled the same for UI purposes, refs #34078
  • src/hg/js/hgGateway.js - lines changed 28, context: html, text, full: html, text

ab5d95f27e2cfc363db9840c0514a7170b8547b1 Mon Feb 9 14:24:34 2026 -0800

• Add info icons to hgGateway, refs #34078
  • src/hg/hgGateway/hgGateway.html - lines changed 21, context: html, text, full: html, text
  • src/hg/js/hgGateway.js - lines changed 31, context: html, text, full: html, text

051f9d387aa2531eaae06445f1d4df13fed9f390 Mon Feb 9 15:43:06 2026 -0800

• Oops, when I switched most area elements created by hgTracks to stick the tooltips into the data-tooltip attribute, I forgot to update the javascript mapItem code to use that as the title instead of what I set as the default, refs #37081
  • src/hg/js/utils.js - lines changed 4, context: html, text, full: html, text

afcbfbdf1e2c8cb1a76a08ca90f1e16833296e28 Tue Feb 10 15:25:32 2026 -0800

• Fix hgGateway bugs found in #34078 note 39: fix show species tree link, when disconnecting a hub on hgHubConnect, remove the hub from localStorage, fix handling of native databases that don't follow canFam4, hg38, etc format (example GRCm38B), store public hub name in the item storage so we correctly detect clicks on public hubs in recents list, call draw species tree by default on page load even if it's hidden so we don't need to render it each time we call back to the server because connecting to hubs no longer go into the tree. refs #34078
  • src/hg/js/hgGateway.js - lines changed 82, context: html, text, full: html, text
  • src/hg/js/utils.js - lines changed 19, context: html, text, full: html, text

06a403144f20a2aa46ff4ee5f810f06e27869ef5 Tue Feb 10 16:05:26 2026 -0800

• Fix visual bug in hubSpaceUI, sometimes when adding new rows to the DataTable, we get confused and show the directory row and table headers twice, refs #36830
  • src/hg/js/hgMyData.js - lines changed 23, context: html, text, full: html, text

b19189b90927a74b3a8c4de416d0e926e8430f02 Wed Feb 11 11:32:14 2026 -0800

• changing assembly name text in the recent genomes cards to be blue like the link text in the 'Genomes' dropdown, refs #34078
  • src/hg/htdocs/style/jWest.css - lines changed 1, context: html, text, full: html, text

ef13cc5d0f62179ede50ce59516f2c2b821cb7d7 Thu Feb 12 11:13:29 2026 -0800

• Oops forgot to update hgSearch when I cleaned up the species search bar changes and collated some functions together. Fix a separate bug where hgSearch was not properly setting the db= on the backend when a genark genome was selected from the auto-complete, refs #36232
  • src/hg/hgSearch/hgSearch.c - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/inc/hgSearch.html - lines changed 2, context: html, text, full: html, text
  • src/hg/js/hgSearch.js - lines changed 40, context: html, text, full: html, text

ab2163a1bcc671f938eee484695ad77df98b4d79 Fri Feb 13 11:15:47 2026 -0800

• Add special item search descriptions to MANE and HGNC tracks, refs #34483
  • src/hg/lib/bigBedFind.c - lines changed 51, context: html, text, full: html, text

ada8fc4366a49a14ff6678bee0919b64a05e4f62 Fri Feb 13 13:20:51 2026 -0800

• Make right click titles correct, refs #37096
  • src/hg/js/hgTracks.js - lines changed 3, context: html, text, full: html, text

3fb0b5d2a3d9d8b4429ab8ce25cdb8e00ddccf4a Fri Feb 13 13:56:04 2026 -0800

• Fix links to genark or public hubs to attach hub id onto links in the menu bar. The problem arises because when using hgGateway to connect to an assembly hub, it returns the 'genome' as the organism name which is not a valid value for the 'genome' field when used by hgTracks, refs #36535
  • src/hg/js/utils.js - lines changed 4, context: html, text, full: html, text

98f3f818e3a65d19b24f701aba31b425783b0034 Fri Feb 13 16:31:44 2026 -0800

• Oops hfs can be null for assembly hub searches, refs #37114
  • src/hg/lib/bigBedFind.c - lines changed 1, context: html, text, full: html, text

8fcdc8d74c55bc1ea951d03cfe374491b87285b4 Fri Feb 13 16:40:26 2026 -0800

• When disconnecting an assembly hub on hgHubConnect, remove any of those assembly hub genomes from the recents list in localStorage. If the last connected db was one of those hubs, clear the db, org and genome cart variables and reset the db variable back to the default hg38, otherwise the first row of defaultDb is chosen as the current genome, refs #36535
  • src/hg/hgHubConnect/hgHubConnect.c - lines changed 4, context: html, text, full: html, text
  • src/hg/lib/cart.c - lines changed 10, context: html, text, full: html, text