e5759993329b6e609e9ab825991a90283e714088 mspeir Wed Sep 9 11:17:57 2026 -0700 Help pages: fix broken internal links and restore anchors people still cite, refs #38062 Three groups of anchor problems on the help and FAQ pages. Broken internal links, five pages: posters.html listed a 2022 section that does not exist (no 2022 posters), api.html listed REST and JSON separately after the two sections were merged, docker.html pointed at a #UsrAcct section that is not on that page, FAQgenes.html had a capitalized #ncbiRefSeq where the anchor is #ncbiRefseq, and the genomes.txt settings rows in trackDbHub.v3.html carried no anchors so its own "genome" link missed. Retired anchors that are still cited in twenty years of answers on the genome list. Content moved to its own page and the old anchor was deleted rather than left behind, so the citations land at the top of the page. Reattached seven numeric FAQformat anchors to the Topics entry linking to each format's page. BED, PSL, GFF and GTF were removed from the custom track page in 2012 and never added back to its list of supported formats; added them with the old anchors, which fixes customTrack.html and hgTracksHelp.html together since both include customTrackText.html. Also restored #lines there, and #Session on hgTrackHubHelp.html and #link4 on FAQlink.html. Section anchors on six pages that had none, so a support answer can link to one part of them: bam.html, hic.html, bedgraph.html, ftp.html, net.html and trackDbIndexBb.html. Skipped quickLiftChain.html, oligoMatch.html and cutters.html, which are track description fragments included into the details page rather than standalone pages. Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com> diff --git src/hg/htdocs/goldenPath/help/api.html src/hg/htdocs/goldenPath/help/api.html index 9b67e31c258..b7b19985920 100755 --- src/hg/htdocs/goldenPath/help/api.html +++ src/hg/htdocs/goldenPath/help/api.html @@ -1,29 +1,28 @@ <!DOCTYPE html> <!--#set var="TITLE" value="REST API data interface" --> <!--#set var="ROOT" value="../.." --> <!-- Relative paths to support mirror sites with non-standard GB docs install --> <!--#include virtual="$ROOT/inc/gbPageStart.html" --> <h1>REST API data interface</h1> <h2>Contents</h2> <h6><a href="#alternatives">Why you may not want to use this API</a></h6> -<h6><a href="#REST">What is REST?</a></h6> -<h6><a href="#Intro">What is JSON output data?</a></h6> +<h6><a href="#REST">What are REST and JSON?</a></h6> <h6><a href="#Access">What is the access URL?</a></h6> <h6><a href="#Return">What type of data can be accessed?</a></h6> <h6><a href="#Endpoint">Endpoint functions</a></h6> <h6><a href="#Parameters">Parameters to endpoint functions</a></h6> <h6><a href="#Parameter_use">Required and optional parameters</a></h6> <h6><a href="#Track_types">Supported track types</a></h6> <h6><a href="#Mirrors">Using the API on mirrors and local installations</a></h6> <h6><a href="#list_examples">Example data access, list functions</a></h6> <h6><a href="#getData_examples">Example data access, getData functions</a></h6> <h6><a href="#Search_examples">Example data access, Search functions</a></h6> <h6><a href="#Error_examples">Error return examples</a></h6> <h6><a href="#Practical_examples">Practical examples</a></h6> <!-- ========== Do not use this API ============================== --> <h2 id='alternatives'>Why you may not want to use this API</h2>