All File Changes

v467_preview2 to v467_base (2024-06-17 to 2024-06-24) v467

• confs/hgwdev.hg.conf
  • lines changed 6, context: html, text, full: html, text
    821669bc0e0ff01337793776a739b8161f36de4d Sun Jun 23 01:11:18 2024 -0700
    Installing updated hg.conf files from UCSC servers
• src/hg/cgilib/bedCart.c
  • lines changed 4, context: html, text, full: html, text
    0e3f1e78a218289ffcd5e876b1d707a8dd3f02b0 Thu Jun 20 06:01:39 2024 -0700
    found an easier way to always force itemRgb, refs #28498
  • lines changed 1, context: html, text, full: html, text
    5448842337ee8e2d779f2fe81533b1d43697672a Fri Jun 21 02:24:43 2024 -0700
    do not force itemRgb if track color was specified, refs #28498
  • lines changed 12, context: html, text, full: html, text
    f38908fcebb67da8bd31f624c77eda230d716185 Fri Jun 21 03:35:44 2024 -0700
    not doing itemRgb=on if itemRgb=off, refs #28498
  • lines changed 3, context: html, text, full: html, text
    f35394566b4a268b33f7db35edaae846fb59e400 Fri Jun 21 04:55:16 2024 -0700
    tdb can really be NULL, refs #28498
• src/hg/hgBlat/hgBlat.c
  • lines changed 1, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
• src/hg/hgConvert/hgConvert.c
  • lines changed 5, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
• src/hg/hgCustom/hgCustom.c
  • lines changed 3, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
  • lines changed 7, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
• src/hg/hgGateway/hgGateway.html
  • lines changed 1, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
• src/hg/hgLiftOver/hgLiftOver.c
  • lines changed 5, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
• src/hg/hgPcr/hgPcr.c
  • lines changed 1, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
  • lines changed 6, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
• src/hg/hgSession/backup.c
  • lines changed 1, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
  • lines changed 4, context: html, text, full: html, text
    453026e73d75f0e6057ff7c3ea67cc9b6b10c0e1 Fri Jun 21 14:35:47 2024 -0700
    Improving hgSession custom track download message regarding big* data formats not downloaded, refs #26118
• src/hg/hgSession/hgSession.c
  • lines changed 8, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
  • lines changed 17, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
• src/hg/hgTables/compositeTrack.c
  • lines changed 2, context: html, text, full: html, text
    55afd4142aa1ff4073e1794f58dbbcf06d7e5c67 Mon Jun 17 12:22:40 2024 -0700
    Switching more hgTables buttons/labels to sentence case, refs #25787
• src/hg/hgTables/intersect.c
  • lines changed 2, context: html, text, full: html, text
    55afd4142aa1ff4073e1794f58dbbcf06d7e5c67 Mon Jun 17 12:22:40 2024 -0700
    Switching more hgTables buttons/labels to sentence case, refs #25787
• src/hg/hgTracks/bedTrack.c
  • lines changed 2, context: html, text, full: html, text
    ffbb6c9d2c322f07e7e8d206af3fa984b636906d Thu Jun 20 04:43:25 2024 -0700
    always switch on itemRgb by default if alwaysItemRgb is on in hg.conf, refs #28498
  • lines changed 2, context: html, text, full: html, text
    0e3f1e78a218289ffcd5e876b1d707a8dd3f02b0 Thu Jun 20 06:01:39 2024 -0700
    found an easier way to always force itemRgb, refs #28498
• src/hg/hgTracks/config.c
  • lines changed 6, context: html, text, full: html, text
    d191a06ac8b6ff4318ca67c8e3947a0e9694e81f Fri Jun 21 05:07:05 2024 -0700
    removing the dink left right buttons under image, but adding a configuration option to get them back, refs #26325
• src/hg/hgTracks/hgTracks.c
  • lines changed 1, context: html, text, full: html, text
    374ee75c2d2235cab89d4842ec9c54797772c84f Tue Jun 18 13:14:27 2024 -0700
    Make the hgTracks tutorial javascript included by default, can be turned off via hg.conf, refs #33992
  • lines changed 1, context: html, text, full: html, text
    42a371c7799e10b3658ff4dd396545448cc457cf Wed Jun 19 02:30:35 2024 -0700
    uppercasing base zoom level string again, helping QA in the fight against the code, refs #25787
  • lines changed 2, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
  • lines changed 21, context: html, text, full: html, text
    d191a06ac8b6ff4318ca67c8e3947a0e9694e81f Fri Jun 21 05:07:05 2024 -0700
    removing the dink left right buttons under image, but adding a configuration option to get them back, refs #26325
  • lines changed 9, context: html, text, full: html, text
    62d71307f13d093ca22d7921681d72e6a037a718 Mon Jun 24 09:07:47 2024 -0700
    Moving the padding up to match the space on top of the GB image, refs #26325
• src/hg/hgTracks/searchTracks.c
  • lines changed 3, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
  • lines changed 3, context: html, text, full: html, text
    ff3dcac9269104df22c3b06fe44556f71bcae0c3 Thu Jun 20 17:30:01 2024 -0700
    Switching the Advanced track search page, View chromosomes page, hgConvert, hgCustom, hgGateway, hgLiftOver, hgPcr, hgSession, hgTracks, and hgCustom labels/buttons to sentence case, refs #25787
• src/hg/hgc/hgc.c
  • lines changed 2, context: html, text, full: html, text
    ae987dc53dd066b7f856b506bf1c933cc51c7046 Tue Jun 18 14:07:04 2024 -0700
    errAbort instead of SEGV when bigPsl alignment table is not found. Unsure why this happened, but at least this removes the white screen of death
  • lines changed 1, context: html, text, full: html, text
    2bc39b676231b854c1d9a9fa5836f0374385870d Tue Jun 18 23:34:23 2024 -0700
    include note about periods in track names can cause a failre
  • lines changed 3, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
• src/hg/htdocs/goldenPath/help/decorator.html
  • lines changed 66, context: html, text, full: html, text
    8f6c03ac1ec4d1c529951c25aaad56f1009c9d23 Mon Jun 24 08:14:59 2024 -0700
    Adding mouseOver, mouseOverField, blockMode setting and updating to the decorator.html, refs #32818
• src/hg/hubApi/getData.c
  • lines changed 6, context: html, text, full: html, text
    0969409c52a6e1f50cc34ede97ee87fcd897200e Mon Jun 17 13:18:27 2024 -0700
    allow the same trick for getData functions genArk genome name without URL will work no redmine
• src/hg/hubApi/list.c
  • lines changed 15, context: html, text, full: html, text
    afd7d0d912aa376f0f214448f3e83d5967f35d50 Mon Jun 17 12:55:03 2024 -0700
    allow list functions to work on a genark genome without hubUrl specified no redmine
  • lines changed 0, context: html, text, full: html, text
    0969409c52a6e1f50cc34ede97ee87fcd897200e Mon Jun 17 13:18:27 2024 -0700
    allow the same trick for getData functions genArk genome name without URL will work no redmine
• src/hg/hubApi/tests/expected/list28.gz
  • lines changed 0, context: html, text, full: html, text
    afd7d0d912aa376f0f214448f3e83d5967f35d50 Mon Jun 17 12:55:03 2024 -0700
    allow list functions to work on a genark genome without hubUrl specified no redmine
• src/hg/hubApi/tests/expected/list29.gz
  • lines changed 0, context: html, text, full: html, text
    afd7d0d912aa376f0f214448f3e83d5967f35d50 Mon Jun 17 12:55:03 2024 -0700
    allow list functions to work on a genark genome without hubUrl specified no redmine
• src/hg/hubApi/tests/expected/list30.gz
  • lines changed 0, context: html, text, full: html, text
    afd7d0d912aa376f0f214448f3e83d5967f35d50 Mon Jun 17 12:55:03 2024 -0700
    allow list functions to work on a genark genome without hubUrl specified no redmine
• src/hg/hubApi/tests/expected/list31.gz
  • lines changed 0, context: html, text, full: html, text
    afd7d0d912aa376f0f214448f3e83d5967f35d50 Mon Jun 17 12:55:03 2024 -0700
    allow list functions to work on a genark genome without hubUrl specified no redmine
• src/hg/hubApi/tests/expected/list32.gz
  • lines changed 0, context: html, text, full: html, text
    afd7d0d912aa376f0f214448f3e83d5967f35d50 Mon Jun 17 12:55:03 2024 -0700
    allow list functions to work on a genark genome without hubUrl specified no redmine
• src/hg/hubApi/tests/expected/test58.gz
  • lines changed 0, context: html, text, full: html, text
    0969409c52a6e1f50cc34ede97ee87fcd897200e Mon Jun 17 13:18:27 2024 -0700
    allow the same trick for getData functions genArk genome name without URL will work no redmine
• src/hg/hubApi/tests/expected/test59.gz
  • lines changed 0, context: html, text, full: html, text
    0969409c52a6e1f50cc34ede97ee87fcd897200e Mon Jun 17 13:18:27 2024 -0700
    allow the same trick for getData functions genArk genome name without URL will work no redmine
• src/hg/hubApi/tests/makefile
  • lines changed 32, context: html, text, full: html, text
    afd7d0d912aa376f0f214448f3e83d5967f35d50 Mon Jun 17 12:55:03 2024 -0700
    allow list functions to work on a genark genome without hubUrl specified no redmine
  • lines changed 15, context: html, text, full: html, text
    0969409c52a6e1f50cc34ede97ee87fcd897200e Mon Jun 17 13:18:27 2024 -0700
    allow the same trick for getData functions genArk genome name without URL will work no redmine
• src/hg/inc/customTrack.h
  • lines changed 1, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
• src/hg/inc/genark.h
  • lines changed 3, context: html, text, full: html, text
    c497641abbae591cc2dc13cf184c5e13fa58b6b1 Mon Jun 17 12:51:42 2024 -0700
    add genArkHubTxt() function to contruct the hub.txt URL from a GCx_ name no redmine
• src/hg/inc/hui.h
  • lines changed 1, context: html, text, full: html, text
    8970b2c5d5097ae907b142829f019c02e70e9ea1 Tue Jun 18 16:09:09 2024 -0700
    Changing the button back to 'base' due to breaking sessions, refs #25787
  • lines changed 1, context: html, text, full: html, text
    42a371c7799e10b3658ff4dd396545448cc457cf Wed Jun 19 02:30:35 2024 -0700
    uppercasing base zoom level string again, helping QA in the fight against the code, refs #25787
  • lines changed 1, context: html, text, full: html, text
    9cfa269e30bc186cd46a58e6d53f9faa61d3fb88 Thu Jun 20 14:20:02 2024 -0700
    Switching Track search page, Get DNA page, hgBlat, hgSession, hgPcr, and hgCustom buttons to sentence case, refs #25787
• src/hg/inc/versionInfo.h
  • lines changed 1, context: html, text, full: html, text
    59b7a06348394b4db4d0b7de1881a64a173b4042 Mon Jun 24 14:25:55 2024 -0700
    New version number v467
• src/hg/js/clinicalTutorial.js
  • lines changed 105, context: html, text, full: html, text
    734d714192c9fb3f669737bca4d981986f5c63ff Wed Jun 12 17:01:33 2024 -0700
    Moving the clinicalTutorial from the tutorials directory as the symlinks part of the makefile was not working. refs #33732
  • lines changed 36, context: html, text, full: html, text
    5d3235fdf62b23e2b11c95fa399ad8521d3e0dc3 Thu Jun 13 16:23:18 2024 -0700
    Have the tutorial selecting the RTS option from the Genome Browser menu, refs #33732
  • lines changed 104, context: html, text, full: html, text
    30596146711f7ffce3a66d1cea443b5a4dd8d3cf Thu Jun 13 17:45:26 2024 -0700
    Adding steps for each of the recommended track sets, refs #33732
  • lines changed 69, context: html, text, full: html, text
    997c21feccb62b291ca8db627b18578837dc902b Fri Jun 14 14:02:10 2024 -0700
    Moving commonly used functions outside of each step to clean up the code, refs #33732
  • lines changed 12, context: html, text, full: html, text
    6a591570d7524ff058dbef8c0569cb2ef2f4ee1d Fri Jun 14 14:51:50 2024 -0700
    Opening and closing the proper pop-up box for the Recommended track sets. Removing the hidePopup() function as it is no longer needed, refs #33732
  • lines changed 11, context: html, text, full: html, text
    1232f755d4aa14f66ee0efef07552fed021683ed Fri Jun 14 15:42:23 2024 -0700
    Adding a step to serve as the introduction to the tutorial, refs #33732
  • lines changed 88, context: html, text, full: html, text
    c13343ae060a5a43b93da434f39f29fe0ef75e56 Fri Jun 21 10:50:56 2024 -0700
    Adding a search step to the tutorial. Now pointing to the entire pop-up box instead of individual track sets. Adding a final step for conclusion/contact info. Commenting out the Clinical SNV adn CNV steps incase they are needed in the future while developing this tutorial (Can be removed later), refs #33732
  • lines changed 238, context: html, text, full: html, text
    042a715e5951d7455ce4e51bb96ebe9a03160bea Fri Jun 21 15:54:18 2024 -0700
    Adding the new tutorial to the makefile. Moving both tutorials to a new 'tutorials' subdirectory, refs #33732
• src/hg/js/makefile
  • lines changed 2, context: html, text, full: html, text
    042a715e5951d7455ce4e51bb96ebe9a03160bea Fri Jun 21 15:54:18 2024 -0700
    Adding the new tutorial to the makefile. Moving both tutorials to a new 'tutorials' subdirectory, refs #33732
  • lines changed 1, context: html, text, full: html, text
    a176609000f45e89bbf822be16a29ba08db19136 Mon Jun 24 12:44:17 2024 -0700
    Fixing up makefile for JS tutorials directory, no ticket
• src/hg/js/tutorial.js
  • lines changed 258, context: html, text, full: html, text
    042a715e5951d7455ce4e51bb96ebe9a03160bea Fri Jun 21 15:54:18 2024 -0700
    Adding the new tutorial to the makefile. Moving both tutorials to a new 'tutorials' subdirectory, refs #33732
• src/hg/js/tutorials/clinicalTutorial.js
  • lines changed 105, context: html, text, full: html, text
    db926c7d7e07f799d16bfe5a26a8b8d244033f0c Wed Jun 12 16:51:33 2024 -0700
    Initial commit of the new clinical tutorial, refs #33732
  • lines changed 105, context: html, text, full: html, text
    734d714192c9fb3f669737bca4d981986f5c63ff Wed Jun 12 17:01:33 2024 -0700
    Moving the clinicalTutorial from the tutorials directory as the symlinks part of the makefile was not working. refs #33732
  • lines changed 239, context: html, text, full: html, text
    042a715e5951d7455ce4e51bb96ebe9a03160bea Fri Jun 21 15:54:18 2024 -0700
    Adding the new tutorial to the makefile. Moving both tutorials to a new 'tutorials' subdirectory, refs #33732
  • lines changed 17, context: html, text, full: html, text
    6e5a3ecbd422b64e3f46980bbe47c1f9ba80fbea Fri Jun 21 16:36:16 2024 -0700
    Changing 'tour' variable to 'clinicalTour' as the javascript global namespace might be causing issues, refs #33732
• src/hg/js/tutorials/makefile
  • lines changed 5, context: html, text, full: html, text
    75d77d7e4476f6fb3b69d9f118167cf4fca2ae27 Mon Jun 24 09:05:09 2024 -0700
    Adding the makefile for the tutorial directory, refs #33732
  • lines changed 11, context: html, text, full: html, text
    a176609000f45e89bbf822be16a29ba08db19136 Mon Jun 24 12:44:17 2024 -0700
    Fixing up makefile for JS tutorials directory, no ticket
• src/hg/js/tutorials/tutorial.js
  • lines changed 258, context: html, text, full: html, text
    042a715e5951d7455ce4e51bb96ebe9a03160bea Fri Jun 21 15:54:18 2024 -0700
    Adding the new tutorial to the makefile. Moving both tutorials to a new 'tutorials' subdirectory, refs #33732
• src/hg/js/utils.js
  • lines changed 3, context: html, text, full: html, text
    30a588baa1797511dc22293cda8df6ca384071b6 Mon Jun 17 16:28:21 2024 -0700
    Don't show normal tooltips during wiggle mouseover, refs #33975
• src/hg/lib/genark.c
  • lines changed 24, context: html, text, full: html, text
    c497641abbae591cc2dc13cf184c5e13fa58b6b1 Mon Jun 17 12:51:42 2024 -0700
    add genArkHubTxt() function to contruct the hub.txt URL from a GCx_ name no redmine
• src/hg/lib/hui.c
  • lines changed 3, context: html, text, full: html, text
    b929a0e9258b441e65b187e3bec6c3509a9b90ae Sun Jun 23 08:22:48 2024 -0700
    include track name in some of the filter error message so once can have a clue what to fix
• src/hg/makeDb/doc/asmHubs/master.run.list
  • lines changed 2, context: html, text, full: html, text
    6d055cc18cac14a33c7de040a3d18d17d7a93c7c Thu Jun 20 23:26:03 2024 -0700
    adding GCA_963853865.1_ilHelHell1.1 Helleia_helle and GCA_963855885.1_ilCoeGlyc1.1 Coenonympha_glycerion per user request, refs #29545
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    a5900a426956aeb7826939703cc5e265330725cb Fri Jun 21 12:16:52 2024 -0700
    adding GCA_921999865.2_C57BL_6NJ_v3 per user request refs #33195
• src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv
  • lines changed 2, context: html, text, full: html, text
    adb56d245df8e5ea5052fb0b862199340d71513b Thu Jun 20 23:57:50 2024 -0700
    adding both butterfly C.glycerion (2023) and violet copper butterfly (2023) per users requests, refs #29545
• src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv
  • lines changed 2, context: html, text, full: html, text
    a5900a426956aeb7826939703cc5e265330725cb Fri Jun 21 12:16:52 2024 -0700
    adding GCA_921999865.2_C57BL_6NJ_v3 per user request refs #33195
• src/hg/makeDb/doc/spliceAI.txt
  • lines changed 7, context: html, text, full: html, text
    72924c5113cc9889caa9ec788cb1fff7ddcee17f Mon Jun 17 16:37:50 2024 -0700
    Staging updated/new SpliceAI data which is now QA Ready. Refs #27141
• src/hg/makeDb/scripts/enigma/BRCAclinDomains.py
  • lines changed 35, context: html, text, full: html, text
    7cef739b740764fdd246db8182072142c1a6c011 Mon Jun 17 15:23:09 2024 -0700
    Chaning up some of the colors for the ENIGMA hub tracks as advised by Anna.
• src/hg/makeDb/scripts/enigma/BRCAfunctionalAssays.py
  • lines changed 4, context: html, text, full: html, text
    7cef739b740764fdd246db8182072142c1a6c011 Mon Jun 17 15:23:09 2024 -0700
    Chaning up some of the colors for the ENIGMA hub tracks as advised by Anna.
• src/hg/makeDb/scripts/enigma/BRCAmla.py
  • lines changed 3, context: html, text, full: html, text
    7cef739b740764fdd246db8182072142c1a6c011 Mon Jun 17 15:23:09 2024 -0700
    Chaning up some of the colors for the ENIGMA hub tracks as advised by Anna.
• src/hg/makeDb/scripts/enigma/BRCAsplicing.py
  • lines changed 10, context: html, text, full: html, text
    c3e1d16778b3af004003425907b23ae7cdb94844 Tue Jun 18 10:33:15 2024 -0700
    Removing carrots from name, feedback from Anna.
• src/hg/makeDb/scripts/spliceAI/spliceAI.py
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    72924c5113cc9889caa9ec788cb1fff7ddcee17f Mon Jun 17 16:37:50 2024 -0700
    Staging updated/new SpliceAI data which is now QA Ready. Refs #27141
• src/hg/makeDb/trackDb/human/hg19/fantom5.ra
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    09e499f358a77f7b5376d52008ea38644b3a48aa Fri Jun 21 17:32:32 2024 -0700
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• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
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    8f08a5b3c0d67325263cbd77ae49c81213946997 Tue Jun 18 14:08:11 2024 -0700
    Staging the GENCODE knownGene track on beta, refs #32302
• src/hg/makeDb/trackDb/human/hg38/assemblyContainer.html
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    bec6d836cfb95960adc76c46e1a1640cb20b577a Thu Jun 20 16:24:09 2024 -0700
    Staging the changes nesting certain seldomly used assembly tracks into a new superTrack, refs #33474
• src/hg/makeDb/trackDb/human/hg38/assemblyTracks.alpha.ra
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    bec6d836cfb95960adc76c46e1a1640cb20b577a Thu Jun 20 16:24:09 2024 -0700
    Staging the changes nesting certain seldomly used assembly tracks into a new superTrack, refs #33474
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    fd016f52d1795d68684ede00d565bd900fa8b35c Fri Jun 21 11:18:57 2024 -0700
    Changing the name of this new superTrack from Max feedback, refs #33474
• src/hg/makeDb/trackDb/human/hg38/assemblyTracks.ra
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    bec6d836cfb95960adc76c46e1a1640cb20b577a Thu Jun 20 16:24:09 2024 -0700
    Staging the changes nesting certain seldomly used assembly tracks into a new superTrack, refs #33474
• src/hg/makeDb/trackDb/human/hg38/fantom5.ra
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• src/hg/makeDb/trackDb/human/hg38/gnomad.alpha.ra
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    341d45e28734d8273d9fbd795798f1432258e008 Thu Jun 20 14:56:52 2024 -0700
    Add hemizygosity and other mouseover information to gnomad v4.1 tracks, refs Ana email
• src/hg/makeDb/trackDb/human/hg38/singleCellMerged.alpha.ra
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    7b2e0a8c93a0fb8338f39bb3bab0eaf9c034e729 Thu Jun 20 16:49:42 2024 -0700
    Changing the name and pulling merged out of single-cell group to improve visibility. The other single cell tracks are being moved to the bottom and collapsed by default. Refs #33473
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
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    bec6d836cfb95960adc76c46e1a1640cb20b577a Thu Jun 20 16:24:09 2024 -0700
    Staging the changes nesting certain seldomly used assembly tracks into a new superTrack, refs #33474
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    7b2e0a8c93a0fb8338f39bb3bab0eaf9c034e729 Thu Jun 20 16:49:42 2024 -0700
    Changing the name and pulling merged out of single-cell group to improve visibility. The other single cell tracks are being moved to the bottom and collapsed by default. Refs #33473
• src/hg/makeDb/trackDb/human/spliceAI.html
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    72924c5113cc9889caa9ec788cb1fff7ddcee17f Mon Jun 17 16:37:50 2024 -0700
    Staging updated/new SpliceAI data which is now QA Ready. Refs #27141
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    72924c5113cc9889caa9ec788cb1fff7ddcee17f Mon Jun 17 16:37:50 2024 -0700
    Staging updated/new SpliceAI data which is now QA Ready. Refs #27141
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    72924c5113cc9889caa9ec788cb1fff7ddcee17f Mon Jun 17 16:37:50 2024 -0700
    Staging updated/new SpliceAI data which is now QA Ready. Refs #27141
• src/hg/makeDb/trackDb/mouse/mm10/fantom5.ra
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• src/hg/makeDb/trackDb/rmsk.html
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    rmsk docs change, refs #33994
• src/hg/utils/otto/malacards/update.sh
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    e0eafd3f09d381d9f2ccd04beada00f54c44b115 Thu Jun 20 04:18:03 2024 -0700
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• src/lib/vcf.c
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    fa85991b426e3a45db1cbfc03d832db1f4aead3c Tue Jun 18 13:27:25 2024 -0700
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• src/product/ex.hg.conf
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    af60ebe3356cd181c72985d49b9a682f9a5f24ec Tue Jun 18 13:17:12 2024 -0700
    Add showTutorial hg.conf parameter to ex.hg.conf, refs #33992
• src/utils/qa/weeklybld/buildEnv.csh
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    v467 final build, refs #33949

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