All File Changes

v481_base to v482_preview (2025-04-28 to 2025-05-05) v482

• confs/hgwbeta.hg.conf
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    5056d9966e75850fbcbe9f629b4d02094ddff4fc Sun May 4 01:11:16 2025 -0700
    Installing updated hg.conf files from UCSC servers
• confs/hgwdev.hg.conf
  • lines changed 8, context: html, text, full: html, text
    5056d9966e75850fbcbe9f629b4d02094ddff4fc Sun May 4 01:11:16 2025 -0700
    Installing updated hg.conf files from UCSC servers
• docs/gatewayTutorial.md
  • lines changed 297, context: html, text, full: html, text
    532489da40462ffa8bc5745555fbd837fb572aeb Tue Apr 29 17:40:46 2025 -0700
    Adding the gateway tutorial markdown and makefile, refs #34938
• docs/makefile
  • lines changed 2, context: html, text, full: html, text
    532489da40462ffa8bc5745555fbd837fb572aeb Tue Apr 29 17:40:46 2025 -0700
    Adding the gateway tutorial markdown and makefile, refs #34938
• src/hg/cirm/gateway/htdocs/sspsygeneTimeline.html
  • lines changed 9, context: html, text, full: html, text
    c9741c8914fffb5e6e74be51b321296061ee6a2c Thu May 1 15:16:07 2025 -0700
    Changes Yale timeline, pre-existing entries [SUSPENDED or DELAYED per lab]
• src/hg/hgApi/hgApi.c
  • lines changed 37, context: html, text, full: html, text
    fd6b31a3f5776f7f3fa7ddc617a559de6ab3ff5c Fri May 2 16:01:20 2025 -0700
    Add bigGenePred to 'zoomToExon' and 'zoomToCodon' feature, refs #33963
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    b39606ff87b94b5a2a3f7319aa870fe9b253bd76 Fri May 2 19:16:10 2025 -0700
    Initialize structure to NULL so compiler doesn't complain
• src/hg/hgCustom/hgCustom.c
  • lines changed 1, context: html, text, full: html, text
    252a94aadebea2407b24f654d6fac89f4a6d205d Mon Apr 28 16:39:19 2025 -0700
    Adding a GFF3 format to BigGenePred link to hgCustom, refs #25155
• src/hg/hgGateway/hgGateway.c
  • lines changed 10, context: html, text, full: html, text
    1f0b23fe45c8fd5c2a6e2416dbc864f8f6cbf9ab Sun May 4 22:13:34 2025 -0700
    Edits to hgGateway.c and hgGateway.js following Jairo's code review feedback, #35591
• src/hg/hgHubConnect/hooks/makefile
  • lines changed 31, context: html, text, full: html, text
    0f8c686fd4147fa59b8b6cc23cec946748dc1991 Thu May 1 23:06:25 2025 -0700
    addess issues with installing CGI loaders in beta make #35600
• src/hg/hgHubConnect/hooks/pre-finish.c
  • lines changed 1, context: html, text, full: html, text
    eb2780907d717a7cf8e2a34cd79276512c3880dc Fri May 2 11:59:49 2025 -0700
    Oops when a user was uploading a hub.txt file to hubspace that was not named 'hub.txt', we were doing dumb stuff. Also fix more issues with the hubspace data dir being a symlink, refs #35384
• src/hg/hgTables/mainPage.c
  • lines changed 30, context: html, text, full: html, text
    87dbdc612e3d8aeb3a7c564dbdcea1adc77b7e67 Tue Apr 29 14:40:44 2025 -0700
    Staging the Table Browser tutorial. Adding <DIV> sections to the main table browser page for the tutorial. refs #35126
• src/hg/hgTracks/bamTrack.c
  • lines changed 31, context: html, text, full: html, text
    540506f7475055ae33969ce12d53a649ffff140e Mon Apr 28 16:55:59 2025 -0700
    change BAM support to use maxItems as a signal to go into coverage mode. Added BAMMaxItems to limit the total number of items that might be retrieved from a BAM file.
• src/hg/hgTracks/bigBedTrack.c
  • lines changed 1, context: html, text, full: html, text
    540506f7475055ae33969ce12d53a649ffff140e Mon Apr 28 16:55:59 2025 -0700
    change BAM support to use maxItems as a signal to go into coverage mode. Added BAMMaxItems to limit the total number of items that might be retrieved from a BAM file.
• src/hg/hgTracks/simpleTracks.c
  • lines changed 2, context: html, text, full: html, text
    540506f7475055ae33969ce12d53a649ffff140e Mon Apr 28 16:55:59 2025 -0700
    change BAM support to use maxItems as a signal to go into coverage mode. Added BAMMaxItems to limit the total number of items that might be retrieved from a BAM file.
• src/hg/hgc/hgc.c
  • lines changed 111, context: html, text, full: html, text
    310239836c4e2d37f470c98ca7f544dedceca60c Wed Apr 30 14:55:06 2025 -0700
    fixes hgBlat table of alignments not available once browsing. This fixes both native blat track and ct blat track. fixes #32750
  • lines changed 14, context: html, text, full: html, text
    4ae7d849e69a0c914ba43d7bb38a7491b8d0b366 Fri May 2 11:00:40 2025 -0700
    minor bugfix for rm32750-hgBlat-table-all-alignments-not-available. refs #32750
• src/hg/hgcentralTidy/hgcentralTidy.c
  • lines changed 1, context: html, text, full: html, text
    97b9c00e2fa052fd5bf566011307f01841926f94 Mon Apr 28 10:48:51 2025 -0700
    increasing purgestart to reach 20 years back if needed
  • lines changed 1, context: html, text, full: html, text
    400b525d25cd8592195af0a9f778050c64bee3f9 Thu May 1 12:23:55 2025 -0700
    removing debug comment
• src/hg/htdocs/contacts.html
  • lines changed 4, context: html, text, full: html, text
    b862da687dcc336a7179bf8fdc0484d7d520efa6 Wed Apr 30 17:13:28 2025 -0700
    Swapping X mentions for bluesky, refs #35606
• src/hg/htdocs/goldenPath/help/bigWig.html
  • lines changed 3, context: html, text, full: html, text
    593033daa676cedf89870baf24143e5ec0015c64 Fri May 2 16:11:09 2025 -0700
    Adding more prominent mentions of dynseq display to the docs, refs #35616
• src/hg/htdocs/goldenPath/help/gbic.html
  • lines changed 31, context: html, text, full: html, text
    08320469134fa85d4162a1927ed3659af7e2fbe3 Mon Apr 28 18:57:20 2025 -0700
    adding note about update command being compatible with db names and add lines about GBiC+Docker that were not in the .md file, refs #25120
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 3, context: html, text, full: html, text
    593033daa676cedf89870baf24143e5ec0015c64 Fri May 2 16:11:09 2025 -0700
    Adding more prominent mentions of dynseq display to the docs, refs #35616
• src/hg/htdocs/images/blueskyIcon.svg
  • lines changed 4, context: html, text, full: html, text
    b862da687dcc336a7179bf8fdc0484d7d520efa6 Wed Apr 30 17:13:28 2025 -0700
    Swapping X mentions for bluesky, refs #35606
• src/hg/htdocs/indexMeetings.html
  • lines changed 1, context: html, text, full: html, text
    d9e0b9cd466daaae15e59705d0f1efc5a82fcfc2 Tue Apr 29 16:35:43 2025 -0700
    Updating booth #.
• src/hg/htdocs/makefile
  • lines changed 1, context: html, text, full: html, text
    dbe19021cbe4564aff8871d1dd4ab443a966a6cf Tue Apr 29 02:38:49 2025 -0700
    fixing make beta in htdocs, reported by matt, no redmine
• src/hg/js/hgGateway.js
  • lines changed 8, context: html, text, full: html, text
    1f0b23fe45c8fd5c2a6e2416dbc864f8f6cbf9ab Sun May 4 22:13:34 2025 -0700
    Edits to hgGateway.c and hgGateway.js following Jairo's code review feedback, #35591
• src/hg/js/hgMyData.js
  • lines changed 7, context: html, text, full: html, text
    eb2780907d717a7cf8e2a34cd79276512c3880dc Fri May 2 11:59:49 2025 -0700
    Oops when a user was uploading a hub.txt file to hubspace that was not named 'hub.txt', we were doing dumb stuff. Also fix more issues with the hubspace data dir being a symlink, refs #35384
• src/hg/js/hgTracks.js
  • lines changed 4, context: html, text, full: html, text
    fd6b31a3f5776f7f3fa7ddc617a559de6ab3ff5c Fri May 2 16:01:20 2025 -0700
    Add bigGenePred to 'zoomToExon' and 'zoomToCodon' feature, refs #33963
• src/hg/js/tutorials/gatewayTutorial.js
  • lines changed 19, context: html, text, full: html, text
    4c11eb65296e0ced1b61b7b85de541b1b92a119b Tue Apr 29 17:12:55 2025 -0700
    Updating the makefile and adding gatewayTutorial.js for the Gateway interactive tutorial, refs #34938
• src/hg/js/tutorials/makefile
  • lines changed 1, context: html, text, full: html, text
    87dbdc612e3d8aeb3a7c564dbdcea1adc77b7e67 Tue Apr 29 14:40:44 2025 -0700
    Staging the Table Browser tutorial. Adding <DIV> sections to the main table browser page for the tutorial. refs #35126
  • lines changed 1, context: html, text, full: html, text
    4c11eb65296e0ced1b61b7b85de541b1b92a119b Tue Apr 29 17:12:55 2025 -0700
    Updating the makefile and adding gatewayTutorial.js for the Gateway interactive tutorial, refs #34938
  • lines changed 2, context: html, text, full: html, text
    221c807e7b59d1a5cb7cd9105c923320e72346a0 Tue Apr 29 17:33:11 2025 -0700
    Updaing makefile to resolve merge conflict, refs #34938
• src/hg/js/tutorials/tableBrowserTutorial.js
  • lines changed 258, context: html, text, full: html, text
    87dbdc612e3d8aeb3a7c564dbdcea1adc77b7e67 Tue Apr 29 14:40:44 2025 -0700
    Staging the Table Browser tutorial. Adding <DIV> sections to the main table browser page for the tutorial. refs #35126
• src/hg/lib/botDelay.c
  • lines changed 1, context: html, text, full: html, text
    e200427ab4ca0a21b30e26f88118e15187652ee5 Mon Apr 28 11:40:55 2025 -0700
    adding 10 seconds on hogExit, #35585
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    2a79675fbba7f505b6236c0ec13eccfdb04a183e Tue Apr 29 02:40:31 2025 -0700
    doing what I wrote in the previous commit message and actually setting to 10 seconds, not 15, refs #35585
• src/hg/lib/cart.c
  • lines changed 1, context: html, text, full: html, text
    d05d6d82995bcaf90a98daa51ff2e42382e22ee5 Fri May 2 10:42:55 2025 -0700
    not outputting warning about missing cookie in cart.c when run from command line, email from Lou, QA runs CGIs from the command line
• src/hg/lib/evaSnp.as
  • lines changed 1, context: html, text, full: html, text
    fe96ff900173bd8c6f9b27200b9f70383349869c Mon Apr 28 13:26:46 2025 -0700
    Staging EVA SNP 7 as QA-ready, refs #35504
• src/hg/lib/jksql.c
  • lines changed 1, context: html, text, full: html, text
    b862da687dcc336a7179bf8fdc0484d7d520efa6 Wed Apr 30 17:13:28 2025 -0700
    Swapping X mentions for bluesky, refs #35606
• src/hg/lib/straw/straw.cpp
  • lines changed 1, context: html, text, full: html, text
    f55db282b6910109210d047dc6dfc872c722ce75 Wed Apr 30 16:51:40 2025 +0200
    The new g++ refuses to compile straw.cpp without this change. Preparing a new release of GBIC.
• src/hg/lib/userdata.c
  • lines changed 17, context: html, text, full: html, text
    81ddc517bd6b1c3b0ee5af6bb438752ac3c716c3 Tue Apr 29 09:58:55 2025 -0700
    Resolve tusdDataDir hg.conf setting because it may be a symlink, refs Jairo email
  • lines changed 9, context: html, text, full: html, text
    eb2780907d717a7cf8e2a34cd79276512c3880dc Fri May 2 11:59:49 2025 -0700
    Oops when a user was uploading a hub.txt file to hubspace that was not named 'hub.txt', we were doing dumb stuff. Also fix more issues with the hubspace data dir being a symlink, refs #35384
• src/hg/lib/variantProjector.c
  • lines changed 11, context: html, text, full: html, text
    3070de3ae68503b4913f650584ee86aa606b5592 Mon Apr 28 16:03:21 2025 -0700
    Fix corner case (exonic portion of alt in deletion spanning end of transcript) found in #35577
  • lines changed 13, context: html, text, full: html, text
    f198c745e42f17eb535990d2617d133ebd1396d6 Tue Apr 29 11:07:40 2025 -0700
    Fix vpExpandIndelGaps corner case from #34135 notes 9 & 14 (shifting a gap left past the beginning of the exon in some diabolical imperfect AT repeats in 3' UTR of bosTau6 NM_177504).
  • lines changed 3, context: html, text, full: html, text
    4a170c36598f984d9957b4a591e09c743b49821f Thu May 1 11:35:31 2025 -0700
    In vpTranscriptToProtein, check for NULL protSeq which can happen when the transcript has a CDS but none of the CDS has been aligned to the genome. refs #35577
• src/hg/makeDb/doc/asmHubs/master.run.list
  • lines changed 2, context: html, text, full: html, text
    5891f089874b4a07f36eeed0bd7ed77dd120f9ac Tue Apr 29 23:46:29 2025 -0700
    adding 2 per user request refs: #29545
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    386b50e109363fe99d57d80e1f27b4f4ebb3fe61 Thu May 1 22:02:57 2025 -0700
    adding one per user request refs #29545
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    535a24f0c1dbdef89551c63539491df60bf99e22 Fri May 2 22:46:53 2025 -0700
    adding one per user request refs #29545
• src/hg/makeDb/doc/asmHubs/verifyOnDownload.sh
  • lines changed 1, context: html, text, full: html, text
    0ba42be287a75035fd47e15f221c63cd4aa221aa Tue Apr 29 21:26:03 2025 -0700
    viral reached a new low of 7 no redmine
• src/hg/makeDb/doc/evaSnp7.txt
  • lines changed 21, context: html, text, full: html, text
    fe96ff900173bd8c6f9b27200b9f70383349869c Mon Apr 28 13:26:46 2025 -0700
    Staging EVA SNP 7 as QA-ready, refs #35504
• src/hg/makeDb/doc/hg19.txt
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    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/doc/hg38/genotypeArrays.txt
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    1ba3009dbb6fcfbe8ebb5c4804d1898b987e1379 Thu May 1 15:45:03 2025 -0700
    Releasing the Illumina EPICv2 methylation array track refs #35558
• src/hg/makeDb/doc/hg38/vistaEnhancers.txt
  • lines changed 14, context: html, text, full: html, text
    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    535a24f0c1dbdef89551c63539491df60bf99e22 Fri May 2 22:46:53 2025 -0700
    adding one per user request refs #29545
• src/hg/makeDb/doc/mm10.txt
  • lines changed 15, context: html, text, full: html, text
    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/doc/mm39/vistaEnhancers.txt
  • lines changed 13, context: html, text, full: html, text
    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/doc/plantsAsmHub/plants.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    386b50e109363fe99d57d80e1f27b4f4ebb3fe61 Thu May 1 22:02:57 2025 -0700
    adding one per user request refs #29545
• src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt
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    ffb55fbb22a873180a04c4d26eeda57f38fcf052 Mon Apr 28 14:48:58 2025 -0700
    update to freeze1 status refs #34370
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    1ca99896d98a1b0419067d858e7d013456e63d56 Mon Apr 28 15:15:09 2025 -0700
    GCF_029281585.2 name change refs #34370
• src/hg/makeDb/doc/viralAsmHub/viral.orderList.tsv
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    5891f089874b4a07f36eeed0bd7ed77dd120f9ac Tue Apr 29 23:46:29 2025 -0700
    adding 2 per user request refs: #29545
• src/hg/makeDb/hgLoadMaf/makefile
  • lines changed 24, context: html, text, full: html, text
    0f8c686fd4147fa59b8b6cc23cec946748dc1991 Thu May 1 23:06:25 2025 -0700
    addess issues with installing CGI loaders in beta make #35600
• src/hg/makeDb/hgLoadWiggle/makefile
  • lines changed 25, context: html, text, full: html, text
    0f8c686fd4147fa59b8b6cc23cec946748dc1991 Thu May 1 23:06:25 2025 -0700
    addess issues with installing CGI loaders in beta make #35600
• src/hg/makeDb/scripts/evaSnp/evaSnp7.py
  • lines changed 607, context: html, text, full: html, text
    fe96ff900173bd8c6f9b27200b9f70383349869c Mon Apr 28 13:26:46 2025 -0700
    Staging EVA SNP 7 as QA-ready, refs #35504
• src/hg/makeDb/trackDb/evaSnp.alpha.ra
  • lines changed 131, context: html, text, full: html, text
    fe96ff900173bd8c6f9b27200b9f70383349869c Mon Apr 28 13:26:46 2025 -0700
    Staging EVA SNP 7 as QA-ready, refs #35504
• src/hg/makeDb/trackDb/human/dbSnp155Composite.html
  • lines changed 4, context: html, text, full: html, text
    bb83f26ce1141e98f2f1db4534fef7dbd4384269 Wed Apr 30 11:15:55 2025 -0700
    Added explanation of gray deletion box for delins variants (#33538)
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
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    1ba3009dbb6fcfbe8ebb5c4804d1898b987e1379 Thu May 1 15:45:03 2025 -0700
    Releasing the Illumina EPICv2 methylation array track refs #35558
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    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
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    f323b98128fb8a8ee1b30690c99ac442ecb1a764 Fri May 2 12:22:27 2025 -0700
    Adding the mouseOverField setting to hg19/mm39/mm10 VISTA Enhancers update track, refs #35531
• src/hg/makeDb/trackDb/human/hg38/pseudogenes.ra
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    c771a56216fdcd9c0bedbca135a824bbc5866faa Thu May 1 12:38:47 2025 -0700
    mouseover improvement to pseudogene track
• src/hg/makeDb/trackDb/human/hg38/recount3.ra
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    4da74a09eacc7cae27140ea7e6feeffa5f0a4a74 Thu May 1 13:09:22 2025 -0700
    Hiding recount3 by default - we should try to keep visibilities of dev same as the other servers.
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
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    1ba3009dbb6fcfbe8ebb5c4804d1898b987e1379 Thu May 1 15:45:03 2025 -0700
    Releasing the Illumina EPICv2 methylation array track refs #35558
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    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/trackDb/human/vistaEnhancersBb.html
  • lines changed 91, context: html, text, full: html, text
    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra
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    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
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    f323b98128fb8a8ee1b30690c99ac442ecb1a764 Fri May 2 12:22:27 2025 -0700
    Adding the mouseOverField setting to hg19/mm39/mm10 VISTA Enhancers update track, refs #35531
• src/hg/makeDb/trackDb/mouse/mm10/vistaEnhancersBb.html
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    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/trackDb/mouse/mm39/trackDb.ra
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    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
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    f323b98128fb8a8ee1b30690c99ac442ecb1a764 Fri May 2 12:22:27 2025 -0700
    Adding the mouseOverField setting to hg19/mm39/mm10 VISTA Enhancers update track, refs #35531
• src/hg/makeDb/trackDb/mouse/mm39/vistaEnhancersBb.html
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    d90ebafc3574dccc5db20b875c6ebf5cd193e616 Thu May 1 16:36:47 2025 -0700
    Adding the VISTA Enhancers 2025 update, refs #35531
• src/hg/makeDb/trackDb/patchTracks.new.ra
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    b55b285a7f27fec51ad23dca19b262efc0218a82 Fri May 2 16:21:12 2025 -0700
    Removing release tags for the GRC Patches track , refs #35326
• src/hg/makeDb/trackDb/patchTracks.ra
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    b55b285a7f27fec51ad23dca19b262efc0218a82 Fri May 2 16:21:12 2025 -0700
    Removing release tags for the GRC Patches track , refs #35326
• src/hg/makeDb/trackDb/trackDb.ra
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    fe96ff900173bd8c6f9b27200b9f70383349869c Mon Apr 28 13:26:46 2025 -0700
    Staging EVA SNP 7 as QA-ready, refs #35504
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    da32b65ef5007d3f1fd49eef8e416083b54bf067 Wed Apr 30 10:15:17 2025 -0700
    Staging the new GRC Patches track on hgwbeta, refs #35326
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    b55b285a7f27fec51ad23dca19b262efc0218a82 Fri May 2 16:21:12 2025 -0700
    Removing release tags for the GRC Patches track , refs #35326
• src/hg/oneShot/hgvsToBed/hgvsToBed.c
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    4343f704c3b83b37d1c6784504e19463561d77ad Wed Apr 16 08:53:12 2025 -0700
    Some command-line tools useful for parsing MaveDB data, refs #31812
• src/hg/oneShot/hgvsToBed/makefile
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    4343f704c3b83b37d1c6784504e19463561d77ad Wed Apr 16 08:53:12 2025 -0700
    Some command-line tools useful for parsing MaveDB data, refs #31812
• src/hg/oneShot/parseMave/parseMave.pl
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    4343f704c3b83b37d1c6784504e19463561d77ad Wed Apr 16 08:53:12 2025 -0700
    Some command-line tools useful for parsing MaveDB data, refs #31812
• src/hg/utils/otto/vista/vistaOtto.sh
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    4ff3943d1a1e3a147b32bd72dcaec916c19a9815 Mon May 5 09:00:55 2025 -0700
    Adding the otto script for the VISTA Enhancers track, refs #35531
• src/inc/cgiLoader.mk
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    0f8c686fd4147fa59b8b6cc23cec946748dc1991 Thu May 1 23:06:25 2025 -0700
    addess issues with installing CGI loaders in beta make #35600
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    32e47282c839f807197b52bf254741724e1be237 Fri May 2 18:17:09 2025 -0700
    fixed problem with make alpha wanting to put loaders in cgi-bin-alpha
• src/inc/cgiVars.mk
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    0f8c686fd4147fa59b8b6cc23cec946748dc1991 Thu May 1 23:06:25 2025 -0700
    addess issues with installing CGI loaders in beta make #35600
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    32e47282c839f807197b52bf254741724e1be237 Fri May 2 18:17:09 2025 -0700
    fixed problem with make alpha wanting to put loaders in cgi-bin-alpha
• src/inc/common.mk
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    7646f2265253b53a715d9469cf4edc1afb25aae5 Wed Apr 30 18:02:55 2025 -0700
    gbic: newer linuxes do not have mysql_config symlinks anymore, so detect if mysql_config actually exists
• src/inc/userApp.mk
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    0f8c686fd4147fa59b8b6cc23cec946748dc1991 Thu May 1 23:06:25 2025 -0700
    addess issues with installing CGI loaders in beta make #35600
• src/inc/userAppMulti.mk
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    2b055e47cafb1400ab0cdbee6d3db7f3a2ab65ce Fri May 2 01:07:15 2025 -0700
    Adding userAppMulti.mk from MarkD's home directory, since he forgot to commit it yesterday and I'm trying to test the Docker release script today and I need a working build on the master branch.
• src/makefile
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    7354574f49260362fdabce3552b6602fbe515ea4 Wed Apr 30 16:54:57 2025 +0200
    allowing builds on the beta tag alone, required to build the tree on a beta checkout so the install script does not have to lookup the current version number but can just do a git clone of beta and start the build
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    8168a89f56c1aacda65d39ddf612b78a501a0d2c Wed Apr 30 12:07:56 2025 -0700
    Allowing to be on a beta branch when doing make alpha. This may sound strange, but if we do not allow this, I don't know how a mirror can build into the normal alpha directory /usr/local/apache/cgi-bin/ while being on the beta branch. Mirrors should not be on the master branch, they should be on the beta branch, as that's our release. No idea why this has never come up before.
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    0f8c686fd4147fa59b8b6cc23cec946748dc1991 Thu May 1 23:06:25 2025 -0700
    addess issues with installing CGI loaders in beta make #35600
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    b39e695f387a5f9d2d411064a13d6d0cb5991c9f Thu May 1 23:08:49 2025 -0700
    fixed merge conflict
• src/product/installer/README.md
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    08320469134fa85d4162a1927ed3659af7e2fbe3 Mon Apr 28 18:57:20 2025 -0700
    adding note about update command being compatible with db names and add lines about GBiC+Docker that were not in the .md file, refs #25120
• src/product/installer/browserSetup.sh
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    71e1738517ba4e9ff1b69a1cbe5668cd35dac5a0 Tue Apr 29 18:02:45 2025 +0200
    gbic: few changes for OSX, no redmine
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    bdb06975e0cfcd09174a8b4e9c216628068fdf85 Wed Apr 30 09:14:53 2025 +0200
    forgot freetype in gbic
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    74ed527e2e85f76398076ec800dcb3c1e6f94eaf Wed Apr 30 12:32:56 2025 -0700
    fixing gbic script again for normal linux installations
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    496a76ea8ab70a03a4d777e22f9526245cf86578 Thu May 1 02:08:25 2025 +0200
    moving back to master branch on gbic build
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    c866b6f85d50ffe0ec7402f05f3fafb2735f3950 Wed Apr 30 17:59:51 2025 -0700
    auto-detecting libfreetype, not using master branch anymore, using mariadb-dev package rather than the oracle client, which seems to crash hgTracks now
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    1cdbd92df420340ab0dfc9a5d8b83e5e3be85558 Thu May 1 10:52:59 2025 -0700
    using libmysqlclient so mysql8 leads to crashes in jksql. very odd. So removing libmysqlclient and using only libmariadb-dev now in gbic.
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    05868d7649db46f08e2fa8006ab29c75c4a8d980 Fri May 2 14:34:34 2025 +0200
    Gbic: cleaning up the apt-get init procedure. removing udr entirely for now. Making sure that curl is there, curl is tiny and always useful.
• src/product/installer/docker/Dockerfile
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    f241bbe5f54481d2bd1aee41d702baefa501feb2 Fri May 2 19:47:13 2025 +0200
    cleaning up our dockerfile and moving it to Ubuntu 24 Noble
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    0f6d42da47f225686a8785362b177c229b755710 Mon May 5 14:27:35 2025 +0200
    GBIC: fixing root user problem with mariadb
• src/product/installer/docker/mariadb.service
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    0f6d42da47f225686a8785362b177c229b755710 Mon May 5 14:27:35 2025 +0200
    GBIC: fixing root user problem with mariadb
• src/product/installer/docker/mysql.service
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    0f6d42da47f225686a8785362b177c229b755710 Mon May 5 14:27:35 2025 +0200
    GBIC: fixing root user problem with mariadb
• src/utils/qa/weeklybld/buildEnv.csh
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    c11f84eed555358c99c3165f0b20f2d3342e05b9 Mon May 5 13:15:37 2025 -0700
    v482 preview1, refs #35512
• src/utils/qa/weeklybld/makeStrictBeta.csh
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    58d1a26b1a7a3c7de94c37e373b058ceb9559606 Tue Apr 29 11:28:31 2025 -0700
    Can't do beta build in parallel yet - 40 was too much, but also metaDb makefiles in trackDb need changes first. No ticket

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