e095dfb2c98560a92e59e9956c3a7ca215073378 jcasper Sun Oct 4 01:11:15 2026 -0700 Installing updated hg.conf files from UCSC servers diff --git confs/hgwbeta.hg.conf confs/hgwbeta.hg.conf index 0a24ad3401d..e0e5016673a 100644 --- confs/hgwbeta.hg.conf +++ confs/hgwbeta.hg.conf @@ -274,31 +274,57 @@ # The tusd endpoint files are uploaded to hubSpaceTusdEndpoint=https://hgwbeta-hubspace.gi.ucsc.edu/files # The web accessible location after tusd moves the files # when an upload is completed hubSpaceUrl=https://hgwbeta.soe.ucsc.edu/hubspace # let users create an api key on the hub development tab to use hubSpace from the command line showHubApiKey=true # Increases the number of items that can be queried from a BAM file BAMMaxItems=60000 # new flag for testing rm32751 turn on automatic creation of custom tracks from hgBlat results. autoBlatBigPsl=on # BLAT shows locus name of the match #35993 -blatShowLocus=off +blatShowLocus=on + +# refs #37996 (new hgBlat results page): show the invitation banner on the CLASSIC BLAT results +# page so users can opt in to the new interactive results table. The new page itself is reached +# via that banner or a blatNewPage=1 link and remembered per-user in the cart; this flag only +# controls whether the invite banner appears. +blatNewPageBanner=on + +# refs #36292: when hgBlat builds a new BLAT results custom track, decide what happens to the +# user's PREVIOUS BLAT results tracks. keep (default) / hide / delete. The opt-in +# "keep only my latest result" checkbox below is the user-facing control; keep this on "keep". +blatOldTracks=keep + +# refs #36292: show the "keep only my latest result" checkbox on the BLAT form +blatOnlyLatestCheckbox=on + +# refs #38086: put BLAT result custom tracks in their own "BLAT Results" track group (with a +# "Delete all" button) instead of Custom Tracks, and name headerless queries by size + top-hit +# gene (e.g. "360bp SOD1") instead of "blat YourSeq". +blatResultsGroup=on + +# refs #37996: new BLAT search form. Off = classic form stays the default; the dated banner +# below invites users to try the new one before the switch. +blatNewForm=off +blatNewFormBanner=on +blatNewFormSwitchDate=October 28 +blatNewFormNewsUrl=../goldenPath/newsarch.html#newBLAT # Enables genark hubs to appear in assembly dropdowns for hgConvert/hgLiftOver genarkLiftOver=on # Enables the QuickLift checkbox on hgConvert browser.quickLift=on # Lets QuickLift lift alignment tracks too: psl, bigPsl, chain, bigChain, maf, # bigMaf and wigMaf. Refs #38249. browser.quickLiftAlignments=on # Additional settings for QuickLift quickLift.lengthLimit=100000 quickLift.insColor=64,127,0,64 quickLift.delColor=0,0,127,64 quickLift.doubleColor=127,127,127,64 quickLift.mismatchColor=255,0,0,64 @@ -321,15 +347,30 @@ login.emailLink=on # Enables the password reveal button in hgLogin, refs #37921 login.pwdEyeIcon=on # Enables the redesigned hgc alignment viewer, refs #37893 modernAlignPage=on # Highlight the MANE Select/Plus Clinical transcript in its own section on # the hgSearch disambiguation page, refs #38285 showManeInSearch=on showTxCodonNumbers=on login.recovEmailChange=on + +# Measure how long the track image takes to reach the reader, on one page +# load in N. Left out, it is off. refs #38109 +pngTimingSampleRate=1 + +# Step over a CGI or cookie pair that has no =value, instead of losing the pair +# after it or aborting the request, refs #38340 +skipMalformedCgiPairs=on + +# Enables the bigNet track type, a net of pairwise alignments in a bigBed, and +# QuickLift support for it. Refs #20824. +bigNet=on + +# Filter the description pages that hubs and custom tracks supply, refs #38126 +hubHtmlSanitize=off