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/akbariIdmr.html src/hg/makeDb/trackDb/human/hg38/akbariIdmr.html index 6cda526d548..42a75d0d372 100644 --- src/hg/makeDb/trackDb/human/hg38/akbariIdmr.html +++ src/hg/makeDb/trackDb/human/hg38/akbariIdmr.html @@ -1,19 +1,19 @@
-Part of the Imprinting track collection, this track shows imprinted differentially methylated +Part of the Imprinting track collection, this track shows imprinted differentially methylated regions, or iDMRs. Because the methylated copy of an iDMR is always the one from the same parent, an iDMR is a fixed landmark that says which of a person's two chromosomes came from the mother and which from the father, without sequencing the parents.
This track shows 192 such regions on the autosomes, assembled by Akbari et al. (2023) from five earlier genome-wide surveys of imprinted methylation and used by their PatMat method to assign whole chromosomes to a parent of origin. Just under half of the regions were reported independently by two or more of the five studies. The rest come from a single study and were kept only after they showed the expected half-methylated signal in public methylomes from blood and from many tissues. The X chromosome was left out, since it is not generally thought to carry iDMRs.