d033cea2063e9362949baf5b4d8b837597173a0d max Thu Sep 10 05:16:05 2026 -0700 Address the code review of the Sep 9 commits Faceted composite: text that comes from a hub - a metadata column's description, the name and title of a data type, and the values quoted back in the "could not load the metadata" row - is put on the page as text rather than as markup. The three places built their markup from template strings, so a value carrying angle brackets or a quote was read as HTML: the column description now goes through the shared htmlEncode() once where the header is parsed, and the other two build their elements as nodes. The error row reads better for it as well, since a value with brackets in it used to disappear from the message that was meant to show it. The saved UI state keys on the assembly as well as the metadata id. localStorage is per-origin, so two assemblies whose tracks share a name were sharing one entry, and a row order dragged on one came back on the other over a different set of samples. hgTrackUi passes the database down for it. State saved under the old key is dropped, which costs a facet selection or a page length. Imprinting: the five subtrack description pages link back to the container as hgTrackUi?db=$db&g=$parentTrack, without the hgsid. Native trackDb html is substituted by hgTrackDb as it loads the table, where there is no cart, so ${hgsid} came out empty and the link read 'hgsid=&g=...'. Matches what the Fiber-seq pages already do. The makeDoc note that described the old form is updated with the reason. UniProt otto: README.txt lists all eight things that reach runLog.txt. It had four, and was missing LOCKED, along with PREFLIGHT-FAIL, END and INTERRUPTED. refs #36210 refs #37599 refs #38300 diff --git src/hg/makeDb/trackDb/human/hg38/kaplanImprint.html src/hg/makeDb/trackDb/human/hg38/kaplanImprint.html index a0e45de6341..5d0ae5d2800 100644 --- src/hg/makeDb/trackDb/human/hg38/kaplanImprint.html +++ src/hg/makeDb/trackDb/human/hg38/kaplanImprint.html @@ -1,19 +1,19 @@
-Part of the Imprinting track collection, these tracks show an atlas of allele-specific +Part of the Imprinting track collection, these tracks show an atlas of allele-specific methylation built from deep whole-genome bisulfite sequencing of 202 purified samples covering about 40 human cell types from 135 donors. Because the sequencing was deep and the reads long enough to cover several CpG sites at once, the authors could look at one DNA fragment at a time and ask whether a region carried two distinct methylation states rather than one intermediate average. Regions that do are called bimodal here. Where a nearby heterozygous SNP is available, the two states can be assigned to the two copies of the chromosome, which separates the cases where methylation follows the DNA sequence from the much rarer cases where it follows the parent the copy came from.
The collection has three annotation sets: