226cd00ff731dccba8b7a5a75be4a823f0d4a39a dschmelt Wed Feb 19 15:13:16 2020 -0800 Documenting validate hub feature, edit3 #24429 diff --git src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html index 87567ee..c4e019d 100755 --- src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html +++ src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html @@ -648,31 +648,31 @@ settings with the Validate Hub tool. This tool can be accessed from the Track Hub page under <a href="../../cgi-bin/hgHubConnect?#validateHub">the Validate Hub tab</a>. After entering your URL in the search box, the tool runs hubCheck like so:</p> <pre>hubCheck -noTracks http://url.to.hub.txt</pre> <p> The noTracks setting speeds up the validation process but does not check for the presence of your remotely hosted data track files. This tool checks your hub.txt, genome.txt, and trackDb.txt settings and displays errors in bright red font, such as "<font color="red">Missing required setting...</font>" and "<font color="red">Cannot open...</font>". The following picture shows <a href="examples/hubExamples/hubGroupings/hub.txt">the example track grouping hub</a> with no configuration errors:</p> <p class='text-center'> <img class='text-center' src="../../images/validateHub.png" alt="Validate hub tool checks config setting" width="749" height="249"> - <p class='gbsCaption text-center'>The validate hub tool checks for proper configuration files and track hub settings.</p> + <p class='gbsCaption text-center'>The Validate Hub tool checks for proper configuration files and track hub settings.</p> </p> <h3>Check hub settings using hubCheck utility</h3> <p> It is a good practice to run the command-line utility <em>hubCheck</em> on your track hub when you first bring it online and whenever you make significant changes. This utility by default checks that the files in the hub are correctly formatted, but it can also be configured to check a few other things including that various trackDb settings are correctly spelled and that they are supported by the UCSC Genome Browser. You can read more about using hubCheck to check the compatibility of your hub with other genome browsers <a href="#Compatibility"</a>below</a>. <p> Here is the usage statement for the hubCheck utility: <pre><code>hubCheck - Check a track data hub for integrity. usage: