c8e8fc540646df02203db3233f927e10fc7630d2 mspeir Wed Sep 23 15:55:37 2026 -0700 Conservation track descriptions: stop wrapping the download list in a <p>, refs #34803 A <ul> is not allowed inside a <p>, so the </p> that followed each download list was parsed as an implicit empty paragraph and thrown away. Close the paragraph after the lead-in sentence instead, and leave the list at the same level as the other paragraphs. 113 pages, one moved </p> each. Nothing renders differently; HTML Tidy goes from 226 warnings on these sections to none. Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com> diff --git src/hg/makeDb/trackDb/lamprey/petMar1/multiz6way.html src/hg/makeDb/trackDb/lamprey/petMar1/multiz6way.html index e84bb6a3724..34279a6a7bd 100644 --- src/hg/makeDb/trackDb/lamprey/petMar1/multiz6way.html +++ src/hg/makeDb/trackDb/lamprey/petMar1/multiz6way.html @@ -243,37 +243,37 @@ of improving the handling of alignment gaps.</P> <h2>Data Access</h2> <p> The alignments and the conservation scores can be retrieved for a single region or for a list of regions with the <a href="hgTables?db=petMar1&hgta_group=compGeno&hgta_track=multiz6way">Table Browser</a>, which returns the alignments in MAF format and the scores as wiggle data. The scores and the conserved elements, though not the alignments, can also be joined with other annotations in the <a href="hgIntegrator?db=petMar1">Data Integrator</a>. For automated access, our <a href="../goldenPath/help/api.html">REST API</a> serves the alignment and conservation tracks individually, by name. </p> <p> The files behind this track can be downloaded from our download server: +</p> <ul> <li><a href="https://hgdownload.soe.ucsc.edu/goldenPath/petMar1/multiz6way/" target="_blank">Multiz alignments and phylogenetic trees</a></li> <li><a href="https://hgdownload.soe.ucsc.edu/goldenPath/petMar1/phastCons6way/" target="_blank">PhastCons conservation scores and conserved elements</a></li> </ul> -</p> <p> Genome-wide alignment files are large. Among our command-line programs, <tt>mafsInRegion</tt>, <tt>mafSpeciesSubset</tt> and <tt>mafFrags</tt> pull out a region, a subset of species, or the alignment underlying a gene. They can be downloaded from the <a href="https://hgdownload.soe.ucsc.edu/admin/exe/" target="_blank">utilities directory</a>, and each one prints its usage when run with no arguments. See our <a href="../FAQ/FAQdownloads.html">Data Access FAQ</a> for more information. </p> <H2>Credits</H2> <P> This track was created using the following programs: <UL> <LI> Alignment tools: blastz and multiz by Minmei Hou, Scott Schwartz and Webb Miller of the <A HREF="http://www.bx.psu.edu/miller_lab/" TARGET=_blank>Penn State Bioinformatics Group</A>