Commits for lrnassar

v496_preview to v496_preview2 (2026-03-16 to 2026-03-23) v496

d33f10692e329f5f6a10508ed1c4d1123bf7a0e0 Mon Mar 16 10:54:29 2026 -0700

• Tweaking the sentence based on feedback from Jonathan, refs #36176
  • src/hg/htdocs/goldenPath/help/heatmap.html - lines changed 7, context: html, text, full: html, text

ade21ee4e0109c70e29860d5393306e48e6a44d3 Mon Mar 16 16:38:58 2026 -0700

• Adding keyboard navigation accessibility to the Genome Browser menu bar and all main CGI pages. Converts non-focusable menu bar span elements to keyboard-accessible buttons using the W3C disclosure navigation pattern, adds aria-expanded state for screen readers, skip navigation link, and main content landmark. Also adds a Keyboard Navigation section to the accessibility page with screenshots. refs #37252
  • src/hg/hgTracks/menu.c - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/accessibility.html - lines changed 37, context: html, text, full: html, text
  • src/hg/htdocs/images/keyboardMenuNav.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/htdocs/images/skipNavLink.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/htdocs/inc/globalNavBar.inc - lines changed 12, context: html, text, full: html, text
  • src/hg/htdocs/style/nice_menu.css - lines changed 44, context: html, text, full: html, text
  • src/hg/js/jquery.plugins.js - lines changed 99, context: html, text, full: html, text
  • src/hg/lib/cart.c - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/web.c - lines changed 5, context: html, text, full: html, text

651f959d7553ee0256b1e0b37ffa83d64709511d Mon Mar 16 17:57:16 2026 -0700

• Adding accessible labels to form controls across main CGI pages. Extends cheapcgi and hui libraries with aria-label support for track visibility dropdowns, and adds <label> elements to hgBlat, hgTables, hgPcr, and hgGateway form controls. Also adds Form Control Labels section to accessibility page. refs #37253
  • src/hg/hgBlat/hgBlat.c - lines changed 22, context: html, text, full: html, text
  • src/hg/hgGateway/hgGateway.html - lines changed 4, context: html, text, full: html, text
  • src/hg/hgPcr/hgPcr.c - lines changed 14, context: html, text, full: html, text
  • src/hg/hgTables/mainPage.c - lines changed 18, context: html, text, full: html, text
  • src/hg/hgTracks/config.c - lines changed 3, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.c - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/accessibility.html - lines changed 17, context: html, text, full: html, text
  • src/hg/inc/hui.h - lines changed 8, context: html, text, full: html, text
  • src/hg/lib/hui.c - lines changed 13, context: html, text, full: html, text
  • src/inc/cheapcgi.h - lines changed 5, context: html, text, full: html, text
  • src/lib/cheapcgi.c - lines changed 13, context: html, text, full: html, text

5709a7858d5c197721be66d5218a79124abadb70 Tue Mar 17 08:46:31 2026 -0700

• Adding alt text to images across static documentation pages, CGI headers, markdown docs, and Pandoc templates. Content images receive AI-generated descriptive alt text; decorative images (icons, spacers, toggles) receive alt="" per WCAG best practice. Also adds Image Descriptions section to the accessibility page, and fixes Pandoc Lua writers to output alt attributes. 67 files, covering help docs, news archive, ENCODE pages, portal pages, and session examples. refs #37254
  • docs/GBpandocHTMLrules.lua - lines changed 1, context: html, text, full: html, text
  • docs/hubs/hubBasics.md - lines changed 6, context: html, text, full: html, text
  • docs/staticPage.lua - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebBrowse/cdwWebBrowse.c - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdwPageHeader.h - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGateway/hgGateway.html - lines changed 1, context: html, text, full: html, text
  • src/hg/hgVai/hgVai.c - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/aboutScaleup.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/analysis.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/dataMatrix/encodeDataMatrixInclude.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/dataPlansMouse.html - lines changed 4, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/fileFormats.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/index.html - lines changed 4, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/newsarch.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/ENCODE/usageResources.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/FAQ/FAQgenes.html - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/htdocs/accessibility.html - lines changed 9, context: html, text, full: html, text
  • src/hg/htdocs/april1.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/contacts.html - lines changed 6, context: html, text, full: html, text
  • src/hg/htdocs/covid19.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/ebolaPortal/index.html - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/GBsurvey507.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/bedMethyl.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/bigLolly.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/bigRmsk.html - lines changed 8, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/covidBrowser.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/cram.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/decorator.html - lines changed 4, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/docker.html - lines changed 4, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/fileSearch.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/geneSearchBox.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/genomeEuro.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/heatmap.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgConvert.html - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgGeneGraph.html - lines changed 12, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgIntegratorHelp.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgSessionHelp.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgTablesHelp.html - lines changed 4, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html - lines changed 13, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgTracksHelp.html - lines changed 10, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgWiggleTrackHelp.html - lines changed 10, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hubBasics.html - lines changed 6, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hubQuickStart.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hubQuickStartFilter.html - lines changed 19, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hubQuickStartSearch.html - lines changed 4, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/interact.html - lines changed 5, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/liftOver.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/metadata.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/multiRegionHelp.html - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/quickLiftChain.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/sessions.html - lines changed 23, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html - lines changed 58, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v2.html - lines changed 21, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v3.html - lines changed 51, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/trackSearch.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/newsarch.html - lines changed 67, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/pubs.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/trackDescriptions/bigRmskTrackDesc.html - lines changed 8, context: html, text, full: html, text
  • src/hg/htdocs/gtex.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/inc/hgCollectionHelpInclude.html - lines changed 11, context: html, text, full: html, text
  • src/hg/htdocs/inc/hgMyData.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/index.html - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/indexIntro.html - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/singlecell.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/staff.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/template.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/training/openHouse.html - lines changed 1, context: html, text, full: html, text

a0b1ff8293644fb7d8cf5fa860312c29f31c2c67 Tue Mar 17 08:52:21 2026 -0700

• Merge branch 'lrnassar-accessibility-form-labels'
  • src/hg/hgGateway/hgGateway.html - lines changed 2, context: html, text, full: html, text

17cda45b082befcc4b38faa51661b519e5669752 Tue Mar 17 10:53:48 2026 -0700

• Feedback from CR, refs #37247
  • src/hg/htdocs/goldenPath/help/heatmap.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hic.html - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/encodeEgaspUpdate.html - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/cactus447way.html - lines changed 2, context: html, text, full: html, text

ff554a205dc0deb351a94778bda372ccd2ae3554 Wed Mar 18 13:50:21 2026 -0700

• Fix hgGateway label layout: add display:block to labels that replaced div elements, restoring the original block layout where Assembly dropdown and Position input appear below their labels. refs #37253
  • src/hg/hgGateway/hgGateway.html - lines changed 2, context: html, text, full: html, text

687677c1289ec87a034edf59effe5323c572ad41 Wed Mar 18 13:59:09 2026 -0700

• Fix skip nav link appearing in hgc popups: change :focus to :focus-visible so the skip link only appears on keyboard Tab navigation, not on programmatic/auto-focus when a popup window opens. refs #37252
  • src/hg/htdocs/style/nice_menu.css - lines changed 1, context: html, text, full: html, text

353da0efd7a5e331086b109f5ea4a14c30854269 Wed Mar 18 14:04:15 2026 -0700

• Fix skip nav link appearing in hgc popups: use tabindex=-1 to prevent auto-focus, with JS in jquery.plugins.js to enable the link on first Tab keypress. Reverts :focus-visible approach which didn't work due to browser auto-focus being treated as keyboard focus. refs #37252
  • src/hg/htdocs/inc/globalNavBar.inc - lines changed 1, context: html, text, full: html, text
  • src/hg/js/jquery.plugins.js - lines changed 9, context: html, text, full: html, text

89d1d7fce810632e8b2b1bc221a3af8924bd2226 Wed Mar 18 14:15:31 2026 -0700

• Feedback from CR: fix icon-only links with alt="" in contacts.html and pubs.html to have descriptive alt text (WCAG 1.1.1 requires alt when image is sole link content), and fix version number badges in liftOver.html to have alt="17" and alt="18" instead of empty alt. refs #37254
  • src/hg/htdocs/contacts.html - lines changed 5, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/liftOver.html - lines changed 2, context: html, text, full: html, text

019256d07c6f791954ecb76e3e40a4da960098ef Wed Mar 18 16:43:19 2026 -0700

• Fixing small issues I noticed in commits, refs #37243
  • src/hg/htdocs/goldenPath/help/hgConvert.html - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/methylationAtlasSignals.html - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

e91e5efa506da2397a272d2b3c6e4dbe64508052 Thu Mar 19 12:31:13 2026 -0700

• Feedback from CR.
  • src/hg/htdocs/goldenPath/pubs.html - lines changed 1, context: html, text, full: html, text

52069d415878530954cc12f10810612ab4011856 Fri Mar 20 14:27:55 2026 -0700

• Fix Tab to Tools dropdown not opening after Escape on Genomes/Genome Browser links. The suppressFocus flag was not being reset when focus moved to an <a> parent item, causing the next button focus handler to skip. refs #37252
  • src/hg/js/jquery.plugins.js - lines changed 1, context: html, text, full: html, text

5be4aee1392162b38bbd1318ea87d40f2ec63eb3 Fri Mar 20 14:29:52 2026 -0700

• Minor punctuation fix on accessibility page per QA feedback. refs #37254
  • src/hg/htdocs/accessibility.html - lines changed 1, context: html, text, full: html, text

67f17c611fd3f1f8852cbdfcb706f099951b73cf Fri Mar 20 14:41:32 2026 -0700

• Remove visible label above hgBlat textarea per QA feedback. Replace with aria-label on the textarea element - the instructional text below already describes the field visually. refs #37253
  • src/hg/hgBlat/hgBlat.c - lines changed 2, context: html, text, full: html, text

c97646fc4092a0111ad9725d6da3334cb5cc64bc Mon Mar 23 08:51:13 2026 -0700

• retiring the redmine widget from all htdocs pages, refs #37279
  • src/hg/htdocs/FAQ/FAQformat.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/FAQ/index.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/contacts.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/hgTracksHelp.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/newsarch.html - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/index.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/redmineWidget.html - lines changed 32, context: html, text, full: html, text
  • src/hg/htdocs/staff.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/store.html - lines changed 2, context: html, text, full: html, text
  • src/hg/htdocs/training/index.html - lines changed 1, context: html, text, full: html, text