All File Changes

v482_preview to v482_preview2 (2025-05-05 to 2025-05-13) v482

• confs/hgwdev.hg.conf
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    5673cdd504226417fe540ee8813aa39bfc4b85a0 Sun May 11 01:11:13 2025 -0700
    Installing updated hg.conf files from UCSC servers
• src/hg/cgilib/bedCart.c
  • lines changed 21, context: html, text, full: html, text
    88d620e6c8269c77b8c4c646e974c74872fc089d Fri May 9 12:22:38 2025 -0700
    make allwaysItemRgb hg.conf variable to be on by default
• src/hg/cirm/gateway/htdocs/sspsygeneTimeline.html
  • lines changed 34, context: html, text, full: html, text
    c545c9e19e779833f77cac8832136f95e4f3390b Wed May 7 14:11:28 2025 -0700
    Updates to MiNND SSPsyGene AIM1 & AIM2 milestones per 2025 NIMH docs
  • lines changed 7, context: html, text, full: html, text
    352ff7b16b4fcbf8951f6ca1b5209b26d58596bf Wed May 7 16:06:40 2025 -0700
    Shifting MiNND SSPsyGene AIM3 & AIM4 milestones per 2025 NIMH docs
  • lines changed 8, context: html, text, full: html, text
    42c038468d87480b5cc16894cf147850c3680e6e Tue May 13 09:52:35 2025 -0700
    Aim 3 Yale Timeline updates added
• src/hg/featureBits/featureBits.c
  • lines changed 1, context: html, text, full: html, text
    22c95cee39a45335bacc10906cd9f6447c2d078b Fri May 9 02:26:49 2025 -0700
    allowing .bigBed extension in featureBits, easier than renaming /gbdb files, no redmine, also changing the unusualcons tracks a little.
• src/hg/hgBlat/hgBlat.c
  • lines changed 151, context: html, text, full: html, text
    a5a45be7e379b64278e667f80c75cc0cc41d9ea4 Thu May 8 14:43:19 2025 -0700
    Simplify use of BLAT results by always creating a custom track. fixes #32751
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    483878d23907da9695facf9610aa986208f0a1d7 Fri May 9 11:26:36 2025 -0700
    Revert "Simplify use of BLAT results by always creating a custom track. fixes #32751" This reverts commit a5a45be7e379b64278e667f80c75cc0cc41d9ea4.
• src/hg/hgHubConnect/hgHubConnect.c
  • lines changed 30, context: html, text, full: html, text
    9e1a9c369a05df82c4d92a7ead7d97e00ac08be4 Wed May 7 08:09:31 2025 -0700
    changing hubConnect to remove the redirect, refs #29899
• src/hg/hgTracks/simpleTracks.c
  • lines changed 12, context: html, text, full: html, text
    bd5ebb2dc0b10ad589ed54c3319da1fac28d2b26 Wed May 7 06:38:51 2025 -0700
    adding html to genePred exon mouseover, refs #33749
• src/hg/hgc/hgc.c
  • lines changed 183, context: html, text, full: html, text
    a5a45be7e379b64278e667f80c75cc0cc41d9ea4 Thu May 8 14:43:19 2025 -0700
    Simplify use of BLAT results by always creating a custom track. fixes #32751
  • lines changed 4, context: html, text, full: html, text
    1a6dc4cfbc1d4e6f7bd449c3affe34e1aadd7741 Fri May 9 00:17:09 2025 -0700
    making blat input seqences textarea readonly so users do not pointlessly edit it. fixed case of button title to match between remove and rename. removed a stray comment. refs #32751
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    534abdcf44364f4f4a6a0b7ddb5e31823c74558e Fri May 9 11:26:00 2025 -0700
    Revert "making blat input seqences textarea readonly so users do not pointlessly edit it. fixed case of button title to match between remove and rename. removed a stray comment. refs #32751" This reverts commit 1a6dc4cfbc1d4e6f7bd449c3affe34e1aadd7741.
  • lines changed 183, context: html, text, full: html, text
    483878d23907da9695facf9610aa986208f0a1d7 Fri May 9 11:26:36 2025 -0700
    Revert "Simplify use of BLAT results by always creating a custom track. fixes #32751" This reverts commit a5a45be7e379b64278e667f80c75cc0cc41d9ea4.
• src/hg/htdocs/goldenPath/help/codonPhase.html
  • lines changed 38, context: html, text, full: html, text
    bd5ebb2dc0b10ad589ed54c3319da1fac28d2b26 Wed May 7 06:38:51 2025 -0700
    adding html to genePred exon mouseover, refs #33749
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 1, context: html, text, full: html, text
    1cebd995bd91d7f7291d9b70939413ad653b6153 Mon May 12 10:30:34 2025 -0700
    Feedback from CR, refs #35698
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 26, context: html, text, full: html, text
    22169c59d3ce88d6006f36adeb18a9418a5bd6ef Thu May 8 14:50:26 2025 -0700
    Announcing the release of the VISTA Enhancers track update, refs #35531
• src/hg/htdocs/images/tutorialImages/tableBrowserOutputDropDown.png
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    0a27d459787312c2add3b279e0fc46c94423e0d6 Mon May 12 16:09:33 2025 -0700
    Adding an image for the Table Browser tutorial, refs #35126
• src/hg/htdocs/indexNews.html
  • lines changed 12, context: html, text, full: html, text
    22169c59d3ce88d6006f36adeb18a9418a5bd6ef Thu May 8 14:50:26 2025 -0700
    Announcing the release of the VISTA Enhancers track update, refs #35531
• src/hg/inc/trackDb.h
  • lines changed 3, context: html, text, full: html, text
    88d620e6c8269c77b8c4c646e974c74872fc089d Fri May 9 12:22:38 2025 -0700
    make allwaysItemRgb hg.conf variable to be on by default
• src/hg/inc/web.h
  • lines changed 1, context: html, text, full: html, text
    07e88d43994dd561d2834443864d09b6098d13e6 Fri May 9 16:39:52 2025 -0700
    Adding an HTML ID for context-specific help links, refs #35724
• src/hg/js/autocompleteCat.js
  • lines changed 1, context: html, text, full: html, text
    7a94f7836d114a24524e5eec896e6973a538d022 Wed May 7 08:13:37 2025 -0700
    adding help to autosuggest box on hgGateway, refs #35050
• src/hg/js/hgMyData.js
  • lines changed 1, context: html, text, full: html, text
    5af72bf1f49b25b8a2272368ed93275ab3e1a842 Mon May 5 16:01:50 2025 -0700
    use cgiEncode() rather than encodeURIComponent to preserve '/' characters in input
• src/hg/js/hgTracks.js
  • lines changed 1, context: html, text, full: html, text
    8aab2eef34ec26b85186b0a274d6dad2b0a99ff5 Tue May 6 06:17:54 2025 -0700
    improving js error message, refs #26554
  • lines changed 1, context: html, text, full: html, text
    605cd9ea17f628458e2402d8db8e4439d2ab901b Wed May 7 12:20:25 2025 -0700
    Tweaking the message replacing missing object warning, refs #26554
• src/hg/js/hui.js
  • lines changed 5, context: html, text, full: html, text
    eb7f3d03c7b4bef231f09935913fafeab13db90e Tue May 6 02:33:27 2025 -0700
    show all subtracks button on hgTrackUi, refs #35702
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    3923a0c7f25e98fe9460ec140e5c131004a6dd34 Tue May 6 03:08:38 2025 -0700
    Revert "show all subtracks button on hgTrackUi, refs #35702" This reverts commit eb7f3d03c7b4bef231f09935913fafeab13db90e.
• src/hg/js/tutorials/gatewayTutorial.js
  • lines changed 5, context: html, text, full: html, text
    859df2c7c8948da00a2305e90fafe00016032ca7 Thu May 8 12:41:02 2025 -0700
    code review edits, refs #35693
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    2cb394ae561dfacc5e200910d9e914e481bbf37a Thu May 8 13:45:07 2025 -0700
    A code review edit, refs #35693
• src/hg/js/tutorials/tableBrowserTutorial.js
  • lines changed 87, context: html, text, full: html, text
    5dea5f1a6f1b49fe827af6dc9eee2eb9c92cd99d Mon May 12 17:22:48 2025 -0700
    Adding a final step to the Table Browser tutorial, chaning some titles to steps, adding an image, adding a function to open/close the bluebar menu, refs #35126
• src/hg/js/utils.js
  • lines changed 12, context: html, text, full: html, text
    1de1fe76385950b7d2bd5b63e1ba2eac60c5af39 Wed May 7 06:37:32 2025 -0700
    Set mouseover ids to random ints rather than the full mouseover text to reduce size of DOM, refs Max email
• src/hg/lib/botDelay.c
  • lines changed 17, context: html, text, full: html, text
    589c304d7e76e316228ef5bc6dfa34d76d100aea Wed May 7 09:50:30 2025 -0700
    Added option to better penalize webcrawlers sharing hgsids, refs #35584
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    e60182e67d92953946d1ea0ab789b056b74740dd Wed May 7 09:52:54 2025 -0700
    Typo fix for false -> FALSE
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    1db14ecb3013ea661bb93435c60618550a4e8e3f Mon May 12 11:50:05 2025 -0700
    making sleep depend on hg.conf statement suggested by Jonathan, no redmine ticket yet
• src/hg/lib/cart.c
  • lines changed 4, context: html, text, full: html, text
    eaf4969a2f3cb75aca08d6fb418a590edb9dc761 Wed May 7 02:04:44 2025 -0700
    after comments from QA, making warning about request without cookie depend on hg.conf statement, no redmine, email from Lou
• src/hg/lib/hui.c
  • lines changed 3, context: html, text, full: html, text
    eb7f3d03c7b4bef231f09935913fafeab13db90e Tue May 6 02:33:27 2025 -0700
    show all subtracks button on hgTrackUi, refs #35702
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    3923a0c7f25e98fe9460ec140e5c131004a6dd34 Tue May 6 03:08:38 2025 -0700
    Revert "show all subtracks button on hgTrackUi, refs #35702" This reverts commit eb7f3d03c7b4bef231f09935913fafeab13db90e.
  • lines changed 2, context: html, text, full: html, text
    4234256fa540ef4ee9c0b495d385c0b431be2428 Wed May 7 07:11:44 2025 -0700
    after suggestion from Anna by email to Lou and me, changing the add/clear buttons on hgTrackUi to Show all and Hide all, no redmine
• src/hg/lib/trackDbCustom.c
  • lines changed 10, context: html, text, full: html, text
    88d620e6c8269c77b8c4c646e974c74872fc089d Fri May 9 12:22:38 2025 -0700
    make allwaysItemRgb hg.conf variable to be on by default
• src/hg/lib/web.c
  • lines changed 17, context: html, text, full: html, text
    07e88d43994dd561d2834443864d09b6098d13e6 Fri May 9 16:39:52 2025 -0700
    Adding an HTML ID for context-specific help links, refs #35724
• src/hg/makeDb/doc/asmHubs/commonNames.py
  • lines changed 9, context: html, text, full: html, text
    92afba7ab4f9b4a0619cb8a80ae54a4eb9be3b9e Wed May 7 12:03:17 2025 -0700
    customize names for ants, dinoflagellates, bacteria, hemichordates refs #29545
• src/hg/makeDb/doc/asmHubs/master.run.list
  • lines changed 3, context: html, text, full: html, text
    88186f40302551f7d9456e7301cd56425dbbf2e0 Mon May 5 15:06:00 2025 -0700
    adding one per user request and two for VGP project refs #29545
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    fa28303fd20c645f13b7347c4cab55a799d1c3b6 Tue May 6 22:28:19 2025 -0700
    adding one per user request refs #29545
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    3b3a15ba837cd80d8e70bff2b773c66b9fee8107 Wed May 7 12:04:38 2025 -0700
    adding 177 for BRC update refs #34337
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    0eba8112653958cc651326c62e83641e97fff5dd Wed May 7 14:21:25 2025 -0700
    another 13 bacteria for BRC project refs #34337
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    b05cf2ee1aa3b2e4621cfe48377a18720d31f232 Mon May 12 16:25:08 2025 -0700
    adding 1 per user request refs #29545
• src/hg/makeDb/doc/asmHubs/mkSymLinks.pl
  • lines changed 18, context: html, text, full: html, text
    8dbae0dc03900f90cf27c96aefb8996591edc7e1 Mon May 12 12:39:19 2025 -0700
    construction symLinks for contrib tracks refs #34917
• src/hg/makeDb/doc/asmHubs/sendToHgdownload.sh
  • lines changed 6, context: html, text, full: html, text
    45c067e0e154c3b5f52fe8e0cb013e3a6367bfb3 Fri May 9 11:47:18 2025 -0700
    avoid sending out alpha,beta,public hub.txt files refs #34917
• src/hg/makeDb/doc/bacteriaAsmHub/bacteria.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    fa28303fd20c645f13b7347c4cab55a799d1c3b6 Tue May 6 22:28:19 2025 -0700
    adding one per user request refs #29545
  • lines changed 183, context: html, text, full: html, text
    3b3a15ba837cd80d8e70bff2b773c66b9fee8107 Wed May 7 12:04:38 2025 -0700
    adding 177 for BRC update refs #34337
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    0eba8112653958cc651326c62e83641e97fff5dd Wed May 7 14:21:25 2025 -0700
    another 13 bacteria for BRC project refs #34337
• src/hg/makeDb/doc/hg19.txt
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    39a32e76ca8302695f6724eb873d5baf74c92f49 Wed May 7 17:27:20 2025 -0700
    updated hgnc for color fix.
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    dfe490296adf7fc6025c431b5f08a90706ccb2be Tue May 13 03:19:05 2025 -0700
    linsight track for hg19, refs #35730
• src/hg/makeDb/doc/hg38/hgnc.txt
  • lines changed 9, context: html, text, full: html, text
    39a32e76ca8302695f6724eb873d5baf74c92f49 Wed May 7 17:27:20 2025 -0700
    updated hgnc for color fix.
• src/hg/makeDb/doc/hg38/unusualcons.txt
  • lines changed 47, context: html, text, full: html, text
    5b9c29a85bcda6fde942cfa0622172c9b8355ac2 Tue May 6 07:58:45 2025 -0700
    adding makedoc for unusual conservation track, refs #35703
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    8a88f3d9cb80250c8449e028052898b824a1599d Mon May 12 05:23:50 2025 -0700
    adding HAQers to unusual cons track, suggested by Katie Pollard, refs #35703
• src/hg/makeDb/doc/vertebrateAsmHub/vertebrate.orderList.tsv
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    88186f40302551f7d9456e7301cd56425dbbf2e0 Mon May 5 15:06:00 2025 -0700
    adding one per user request and two for VGP project refs #29545
• src/hg/makeDb/doc/vgpAsmHub/vgp.alternate.orderList.tsv
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    65bc0021edc8878d6861e83ab37296f87103b898 Tue May 6 12:56:57 2025 -0700
    new lamprey assemblies in the group now refs #34370
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    785e9e4c01c8a4e2245075b8ceb26af14b8714e9 Thu May 8 10:10:32 2025 -0700
    the GCF_010993605.1_kPetMar1.pri and GCA_010993595.1_kPetMar1.alt are not legacy refs #34370
• src/hg/makeDb/doc/vgpAsmHub/vgp.legacy.orderList.tsv
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    65bc0021edc8878d6861e83ab37296f87103b898 Tue May 6 12:56:57 2025 -0700
    new lamprey assemblies in the group now refs #34370
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    785e9e4c01c8a4e2245075b8ceb26af14b8714e9 Thu May 8 10:10:32 2025 -0700
    the GCF_010993605.1_kPetMar1.pri and GCA_010993595.1_kPetMar1.alt are not legacy refs #34370
• src/hg/makeDb/doc/vgpAsmHub/vgp.primary.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    65bc0021edc8878d6861e83ab37296f87103b898 Tue May 6 12:56:57 2025 -0700
    new lamprey assemblies in the group now refs #34370
• src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt
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    65bc0021edc8878d6861e83ab37296f87103b898 Tue May 6 12:56:57 2025 -0700
    new lamprey assemblies in the group now refs #34370
• src/hg/makeDb/doc/viralAsmHub/viral.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    b05cf2ee1aa3b2e4621cfe48377a18720d31f232 Mon May 12 16:25:08 2025 -0700
    adding 1 per user request refs #29545
• src/hg/makeDb/trackDb/human/constraintSuper.html
  • lines changed 25, context: html, text, full: html, text
    dfe490296adf7fc6025c431b5f08a90706ccb2be Tue May 13 03:19:05 2025 -0700
    linsight track for hg19, refs #35730
• src/hg/makeDb/trackDb/human/constraintSuper.ra
  • lines changed 2, context: html, text, full: html, text
    dfe490296adf7fc6025c431b5f08a90706ccb2be Tue May 13 03:19:05 2025 -0700
    linsight track for hg19, refs #35730
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    22169c59d3ce88d6006f36adeb18a9418a5bd6ef Thu May 8 14:50:26 2025 -0700
    Announcing the release of the VISTA Enhancers track update, refs #35531
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    5a003e529a85f30f92896022777a46262a36c399 Thu May 8 17:32:31 2025 -0700
    Adding logo dynseq display for human tracks, refs #30140
• src/hg/makeDb/trackDb/human/hg38/cactus447way.html
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    d2533328acb3cbcc8bfdff4629f845e4a5a8d751 Fri May 9 02:53:10 2025 -0700
    docing REV model on cactus 447, promised to Markd, no redmine
• src/hg/makeDb/trackDb/human/hg38/encode4.ra
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    89e27f8bac87c5b4e87b23aafb494defc99bff54 Wed May 7 14:34:36 2025 -0700
    added track documentation for long_read_transcripts models track and fixed inconsistencies between hg38 and mm10
• src/hg/makeDb/trackDb/human/hg38/long_read_transcripts.html
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    89e27f8bac87c5b4e87b23aafb494defc99bff54 Wed May 7 14:34:36 2025 -0700
    added track documentation for long_read_transcripts models track and fixed inconsistencies between hg38 and mm10
• src/hg/makeDb/trackDb/human/hg38/pseudogenes.new.html
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    aec33e1248123c18b16b441095f2543f12a1e8eb Tue May 6 08:17:22 2025 -0700
    Adding new ra file for the Pseudogenes track update, refs #35466
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    2412416dac42f890d92fb997d3d932c357cb98d9 Tue May 6 11:21:19 2025 -0700
    Updates to the Pseudogenes track description page, refs #35466
• src/hg/makeDb/trackDb/human/hg38/pseudogenes.new.ra
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    aec33e1248123c18b16b441095f2543f12a1e8eb Tue May 6 08:17:22 2025 -0700
    Adding new ra file for the Pseudogenes track update, refs #35466
• src/hg/makeDb/trackDb/human/hg38/pseudogenes.ra
  • lines changed 5, context: html, text, full: html, text
    5a6a2c5c8f05eb34c6ba6056cdfec43f9fb5fccb Mon May 5 14:52:46 2025 -0700
    Adding release tags for the Pseudogenes track update, refs #35466
• src/hg/makeDb/trackDb/human/hg38/recount3.ra
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    fe3b12b06d9a164330ba6ff408a113f8f41cad44 Wed May 7 09:57:14 2025 -0700
    added strand filter and strand mouseover display to recount3
• src/hg/makeDb/trackDb/human/hg38/trackDb.447way.ra
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    5a003e529a85f30f92896022777a46262a36c399 Thu May 8 17:32:31 2025 -0700
    Adding logo dynseq display for human tracks, refs #30140
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
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    5a6a2c5c8f05eb34c6ba6056cdfec43f9fb5fccb Mon May 5 14:52:46 2025 -0700
    Adding release tags for the Pseudogenes track update, refs #35466
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    58c542d19358596c14314230ce8cd0423a9723aa Tue May 6 01:28:43 2025 -0700
    more tracks for the unusual cons regions
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    f3fce24b12b207d812be137771049d157f08cd53 Tue May 6 01:29:35 2025 -0700
    fixing build, commenting out missing file
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    aec33e1248123c18b16b441095f2543f12a1e8eb Tue May 6 08:17:22 2025 -0700
    Adding new ra file for the Pseudogenes track update, refs #35466
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    5d33e5f846258d39ab8b1ed2eb5c607506d826b5 Tue May 6 08:19:32 2025 -0700
    forgot to commit one file in previous commit
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    22169c59d3ce88d6006f36adeb18a9418a5bd6ef Thu May 8 14:50:26 2025 -0700
    Announcing the release of the VISTA Enhancers track update, refs #35531
• src/hg/makeDb/trackDb/human/hg38/unusualcons.html
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    07e253ee9c5722eb799753c51a17f711a6c664c1 Tue May 6 07:49:50 2025 -0700
    adding unusual conservation track, refs #35703
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    ca537fc3b94b26eda5590cf8535a79e6a5c15986 Fri May 9 02:42:41 2025 -0700
    adding counts to unusual cons track, refs #35703
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    6952e2683a77f8e0085080f1f60e004e8343aad0 Fri May 9 06:17:49 2025 -0700
    clarifying unusualcons docs after feedback from authors
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    8a88f3d9cb80250c8449e028052898b824a1599d Mon May 12 05:23:50 2025 -0700
    adding HAQers to unusual cons track, suggested by Katie Pollard, refs #35703
• src/hg/makeDb/trackDb/human/hg38/unusualcons.ra
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    07e253ee9c5722eb799753c51a17f711a6c664c1 Tue May 6 07:49:50 2025 -0700
    adding unusual conservation track, refs #35703
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    00633ad4e94cc143b7a39f3672f023f7ed1bd87d Wed May 7 07:33:33 2025 -0700
    tiny change to track label
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    22c95cee39a45335bacc10906cd9f6447c2d078b Fri May 9 02:26:49 2025 -0700
    allowing .bigBed extension in featureBits, easier than renaming /gbdb files, no redmine, also changing the unusualcons tracks a little.
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    8a88f3d9cb80250c8449e028052898b824a1599d Mon May 12 05:23:50 2025 -0700
    adding HAQers to unusual cons track, suggested by Katie Pollard, refs #35703
• src/hg/makeDb/trackDb/human/phastBias.ra
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    5a003e529a85f30f92896022777a46262a36c399 Thu May 8 17:32:31 2025 -0700
    Adding logo dynseq display for human tracks, refs #30140
• src/hg/makeDb/trackDb/human/trackDb.ra
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    97b760bc694f2b80669c79f238bcdc58c6c52358 Wed May 7 11:29:35 2025 -0700
    Adding a pennantIcon to the updated track, refs #34754
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    4c5c7294e5aa262c7a4691c989bc224f99866e97 Mon Apr 7 06:35:50 2025 -0700
    New varaico track
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    6824a0c7f27da6c42297b335495e12b045e02af3 Mon Apr 7 08:07:17 2025 -0700
    Fixing links
• src/hg/makeDb/trackDb/human/varsInPubs.html
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    4c5c7294e5aa262c7a4691c989bc224f99866e97 Mon Apr 7 06:35:50 2025 -0700
    New varaico track
• src/hg/makeDb/trackDb/human/vistaEnhancersBb.html
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    859df2c7c8948da00a2305e90fafe00016032ca7 Thu May 8 12:41:02 2025 -0700
    code review edits, refs #35693
• src/hg/makeDb/trackDb/mouse/mm10/encode4.ra
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    89e27f8bac87c5b4e87b23aafb494defc99bff54 Wed May 7 14:34:36 2025 -0700
    added track documentation for long_read_transcripts models track and fixed inconsistencies between hg38 and mm10
• src/hg/makeDb/trackDb/mouse/mm10/long_read_transcripts.html
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    89e27f8bac87c5b4e87b23aafb494defc99bff54 Wed May 7 14:34:36 2025 -0700
    added track documentation for long_read_transcripts models track and fixed inconsistencies between hg38 and mm10
• src/hg/makeDb/trackDb/mouse/mm10/long_read_transcripts.ra
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    89e27f8bac87c5b4e87b23aafb494defc99bff54 Wed May 7 14:34:36 2025 -0700
    added track documentation for long_read_transcripts models track and fixed inconsistencies between hg38 and mm10
• src/hg/makeDb/trackDb/mouse/mm10/recount3.ra
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    fe3b12b06d9a164330ba6ff408a113f8f41cad44 Wed May 7 09:57:14 2025 -0700
    added strand filter and strand mouseover display to recount3
• src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra
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    89e27f8bac87c5b4e87b23aafb494defc99bff54 Wed May 7 14:34:36 2025 -0700
    added track documentation for long_read_transcripts models track and fixed inconsistencies between hg38 and mm10
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    22169c59d3ce88d6006f36adeb18a9418a5bd6ef Thu May 8 14:50:26 2025 -0700
    Announcing the release of the VISTA Enhancers track update, refs #35531
• src/hg/makeDb/trackDb/mouse/mm10/vistaEnhancersBb.html
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    859df2c7c8948da00a2305e90fafe00016032ca7 Thu May 8 12:41:02 2025 -0700
    code review edits, refs #35693
• src/hg/makeDb/trackDb/mouse/mm39/trackDb.ra
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    22169c59d3ce88d6006f36adeb18a9418a5bd6ef Thu May 8 14:50:26 2025 -0700
    Announcing the release of the VISTA Enhancers track update, refs #35531
• src/hg/makeDb/trackDb/mouse/mm39/vistaEnhancersBb.html
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    859df2c7c8948da00a2305e90fafe00016032ca7 Thu May 8 12:41:02 2025 -0700
    code review edits, refs #35693
• src/hg/near/hgNear/hgNear.c
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    b8563b69c56541b075fa3cd397e9ce761ebf79b4 Mon May 12 09:41:53 2025 -0700
    Adding a NULL value for the extra parameter that was added for setContextSpecificHelp(), refs #35724
• src/hg/pyLib/hgLib3.py
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    7263b5feefa2d3e068f9cb580b04e1d55d1fd8d2 Wed May 7 18:25:12 2025 -0700
    Updating python version of botDelay check to match new C version, refs #35584
• src/hg/utils/otto/genArk/README
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    7c5b8bf0c51d84ddd36ca38da30cd7a38e186c1d Fri May 9 11:59:34 2025 -0700
    note about cron scripts pushing from hgwdev to mirrors and asia pulling from hgwdev refs #34917
• src/hg/utils/otto/genArk/pullHgwdev.sh
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    14e4b15c9378c56eba5fb0468be87948c00fde32 Fri May 9 11:56:11 2025 -0700
    cron scripts pushing from hgwdev to mirrors and asia pulling from hgwdev refs #34917
• src/hg/utils/otto/genArk/pushRR.sh
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    14e4b15c9378c56eba5fb0468be87948c00fde32 Fri May 9 11:56:11 2025 -0700
    cron scripts pushing from hgwdev to mirrors and asia pulling from hgwdev refs #34917
• src/hg/utils/otto/lovd/lovd.long.as
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    de32d8429cda00666a74bddb93a1fd4ec4fcacc2 Mon May 12 15:50:16 2025 -0700
    Updating the id field to use lstring since there was a complaint about the field being longer than 255 characters. No redmine.
• src/hg/utils/otto/lovd/lovd.short.as
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    de32d8429cda00666a74bddb93a1fd4ec4fcacc2 Mon May 12 15:50:16 2025 -0700
    Updating the id field to use lstring since there was a complaint about the field being longer than 255 characters. No redmine.
• src/hg/utils/otto/otto.crontab
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    2270cc5c03d53cb175b7d6ccc11fec29bf1a6190 Mon May 5 18:29:21 2025 -0700
    Adding vista track to otto, refs #35531
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    82b0acd14627c9bc59672adab8fa3d4adde60577 Thu May 8 11:27:35 2025 -0700
    Commenting out the ClinVar otto so it matches the live crontab, no Redmine.
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    fe273444c9b0d746925ca903df1d88a07da966a1 Fri May 9 07:50:12 2025 -0700
    Fixing typo for vistaOtto.sh, refs #35531
• src/inc/cgiLoader.mk
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    d59600ca59d93eb9691b386f7fc2d73e518242f7 Mon May 5 17:10:24 2025 -0700
    fixed stale comment
• src/inc/cgiVars.mk
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    ee14f8d4faf6533fa7dc494b2c922d51827a35b9 Fri May 9 13:22:28 2025 -0700
    simplify CGI variables
• src/makefile
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    a752b310f552caea787e824d49c6fda9badda3ea Wed May 7 14:42:59 2025 -0700
    attempt to fix userApp make problem I maybe have introduced (bad programmer, no donut)
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    f1c9c1aee3b96538a4967314776fab96354ee03e Fri May 9 04:45:20 2025 -0700
    allowing cgi-alpha builds when one is not on the master branch. This is to allow mirrors who are on the beta branch to build into the default /usr/local/apache/cgi-bin directory. Brian agreed that we do not need to check the branch for the alpha build. I am leaving the beta check in there, as that is buildmeister territory.
• src/product/installer/browserSetup.sh
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    01f6e919db5b73860066bab3a7a157906cfd3efb Mon May 5 06:18:16 2025 -0700
    GBIC: not downloading track hub examples
• src/utils/qa/weeklybld/buildEnv.csh
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    6c84ec9204d3b2e7749ea244e9cd6688dc898426 Tue May 13 11:58:21 2025 -0700
    v482 preview2, refs #35666
• src/utils/tabToBed/makefile
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    d49be6c5dc4fb5e179730b4e56de7f917163a07c Tue May 6 02:39:45 2025 -0700
    adding tabToBed tool, suggested by Lou
• src/utils/tabToBed/tabToBed
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    d49be6c5dc4fb5e179730b4e56de7f917163a07c Tue May 6 02:39:45 2025 -0700
    adding tabToBed tool, suggested by Lou

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• files changed: 124