c6b4a4bd0e3024efed0f59f21dc01b5aa3c351f1 braney Sat Sep 5 09:22:30 2026 -0700 docent: pin two Closed tickets whose symptom is still live, as xfail Both were measured on genome-test (v503) on 2026-09-05, both are Closed and out on the RR, and both are pinned rather than deleted so the suite reports it when they start passing. Same treatment as rm36540. rm38272 is NOT a second copy of rm37388. That script covers hgc, where the fix landed and works. This one follows the same lifted track's own settings link, and hgTrackUi still does what #37388 described: Couldn't set connection database to GCA_018466835.2 mySQL error 1049: Unknown database 'GCA_018466835.2' #37388's fix was per-CGI. 921a40c472e guarded the one call in hgc (hgc.c:4984, !trackHubDatabase(liftDb) && !isGenArk(liftDb) before hAllocConnTrack) and the branch in getTrackHtml. hgTrackUi has a path of its own that was never guarded: specificUi() (hgTrackUi.c:3432) reassigns db to the quickLiftDb setting and hands it to cfgByCfgType(), labelCfgUi() and extraUiLinks(), which connect to it. Where the page stops fits -- specificUi() is called at :4202, after the "Remove from QuickLift" link at :4118, and that link is the last thing the 451-character page contains. It reproduces from scratch with no saved session and no hub of ours, and it is live on genome.ucsc.edu, hgwbeta and genome-test alike: open GenArk GCA_018466835.2 at CM089257.1:80,200,000-80,360,000, leave the default tracks alone, QuickLift to hg38, click the gear on RefSeq mRNAs. Filed as #38272. The script uses braney/crash1 instead because that is the cheap way to the same state and rm37388 already depends on that session. rm37389 asserts the track description block that is still absent from a quickLifted hgc page whose source is a GenArk. Four things were checked rather than assumed and none of them explains it away: GCA_018466835.2 is in the genark table, the hub declares its xenoRefGene html file, that file is served 200 from hgdownload, and the fix (5aed2d465f1) is still in hg/lib/hui.c. hgc prints no warning of its own, which points at getHtmlFromSelfOrParent (hgc.c:3715) never calling getTrackHtml, since it only does so `if (liftDb && ...)`. Not chased further. This is a different path from the hgTrackUi one above, not the same bug seen twice. The verification session on the ticket does not settle it either: the only lifted track with clickable items at its position is a bigWig, whose hgc page has no description section in any build. refs #38252 diff --git src/hg/utils/docent/tests/regress/rm38272.xfail.docent.yaml src/hg/utils/docent/tests/regress/rm38272.xfail.docent.yaml new file mode 100644 index 00000000000..8bdf545e80e --- /dev/null +++ src/hg/utils/docent/tests/regress/rm38272.xfail.docent.yaml @@ -0,0 +1,59 @@ +# #38272 -- hgTrackUi tries a MySQL connect to a quickLifted GenArk source assembly. +# +# THIS IS AN XFAIL, and it is NOT a copy of rm37388. That script covers hgc, where the fix +# landed and works. This one drives the OTHER page reached from the same lifted track, its +# track-settings page, which still does what #37388 described: +# +# Warning/Error(s): +# Couldn't set connection database to GCA_018466835.2 +# mySQL error 1049: Unknown database 'GCA_018466835.2' +# +# Measured 2026-09-05 on genome-test, v503, from session braney/crash1: follow the lifted +# RefSeq mRNAs track's own settings link and the page comes back 451 characters long, with +# that warning box, the track name, a display-mode row, "Remove from QuickLift" -- and +# nothing else. Same error string as #37388, different CGI. +# +# #37388 is Closed and out on the RR, so nobody is watching this. Its fix was per-CGI: +# 921a40c472e guarded the one call in hgc (hgc.c:4984, `!trackHubDatabase(liftDb) && +# !isGenArk(liftDb)` before hAllocConnTrack) and the branch in getTrackHtml. hgTrackUi has +# a path of its own that was never guarded -- specificUi() (hgTrackUi.c:3432) reassigns +# +# char *liftDb = cloneString(trackDbSetting(tdb, "quickLiftDb")); +# if (liftDb != NULL) +# db = liftDb; +# +# and hands that db to cfgByCfgType(), labelCfgUi() and extraUiLinks(), which connect to it. +# Where the page stops fits: specificUi() is called at :4202, after the "Remove from +# QuickLift" link at :4118, and that is the last thing the 451 characters contain. +# +# This is NOT the reason rm37389.xfail's description is missing. That is hgc, a separate +# CGI on a separate path, and its page renders in full with no warning at all. +# +# Filed as #38272 on 2026-09-05, Medium, In Progress. It reproduces from scratch with no +# session at all -- open GenArk GCA_018466835.2 at CM089257.1:80,200,000-80,360,000, leave +# the default tracks alone, QuickLift to hg38, click the gear on RefSeq mRNAs -- and it is +# live on genome.ucsc.edu, hgwbeta and genome-test alike. The script that checks any of the +# three is at /hive/groups/browser/redmineNotes/38252/claude/repro_37388_hgTrackUi.js. +# +# This script uses the braney/crash1 session instead, because that is the cheap way to the +# same state and rm37388 already depends on it, so preflight covers it either way. +# +# The script asserts the fixed behavior -- no MySQL warning, and the settings page really +# rendered -- so it passes as soon as this is fixed, and `make test` then reports the xfail +# as a failure, which is the signal to rename it and drop the .xfail. +target: genome-test +db: hg38 +reset: true +fast: true +steps: + - loadSession: {user: braney, name: crash1} + - expect: {noText: "Could not find session", rows: [xenoRefGene]} + + # The track's own settings link, which is the gesture a user makes to configure a lifted + # track. hgTrackUi has no track image, so there is no row to assert on: the checks are on + # the page text. + - click: 'a[href*="hgTrackUi"][href*="xenoRefGene"]' + + - expect: + text: "RefSeq mRNAs Track Settings" + noText: "Couldn't set connection database"