All File Changes

v478_base to v479_preview (2025-02-24 to 2025-03-03) v479

• confs/hgwdev.hg.conf
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    228daed3dded390f7a2b7895702097b0b71794f1 Sun Mar 2 01:11:13 2025 -0800
    Installing updated hg.conf files from UCSC servers
• src/hg/encode/getTrackReferences/getTrackReferences
  • lines changed 29, context: html, text, full: html, text
    1c36c9c04ec6dd169e4ae9ec0d4f2934e829aca5 Sun Mar 2 12:14:17 2025 -0800
    Pushing getTrackReferences to python3, refs #35314
• src/hg/hgHubConnect/hgHubConnect.c
  • lines changed 1, context: html, text, full: html, text
    f4811acb1836d4a91ab6d2189aff8f1d7a438d1b Tue Feb 25 15:10:49 2025 -0800
    Remove hubSpace hub from the cart when deleting a hub.txt, refs #31058
• src/hg/hgHubConnect/hooks/hooklib.c
  • lines changed 26, context: html, text, full: html, text
    1f954876a8847da234e0c89b3b43390b40c6ca4e Tue Feb 25 10:45:31 2025 -0800
    Special handle the parentDir setting during uploads by cgi-encoding the components of parentDir but leaving the slash characters in place. This allows hubtools uploads to preserve the filesystem layout on the host on our end, but prevent writing of files outside of the users hubspace directory. Any '..' characters in the parentDir are simply ignored. This commit also fixes some other hubtools related UI bugs, like preventing infinite recursion when doing a row select, displaying file names unencoded, and fixing a bug when deleting subdirectories, refs #31058
• src/hg/hgHubConnect/hooks/hooklib.h
  • lines changed 4, context: html, text, full: html, text
    1f954876a8847da234e0c89b3b43390b40c6ca4e Tue Feb 25 10:45:31 2025 -0800
    Special handle the parentDir setting during uploads by cgi-encoding the components of parentDir but leaving the slash characters in place. This allows hubtools uploads to preserve the filesystem layout on the host on our end, but prevent writing of files outside of the users hubspace directory. Any '..' characters in the parentDir are simply ignored. This commit also fixes some other hubtools related UI bugs, like preventing infinite recursion when doing a row select, displaying file names unencoded, and fixing a bug when deleting subdirectories, refs #31058
• src/hg/hgHubConnect/hooks/pre-finish.c
  • lines changed 9, context: html, text, full: html, text
    1f954876a8847da234e0c89b3b43390b40c6ca4e Tue Feb 25 10:45:31 2025 -0800
    Special handle the parentDir setting during uploads by cgi-encoding the components of parentDir but leaving the slash characters in place. This allows hubtools uploads to preserve the filesystem layout on the host on our end, but prevent writing of files outside of the users hubspace directory. Any '..' characters in the parentDir are simply ignored. This commit also fixes some other hubtools related UI bugs, like preventing infinite recursion when doing a row select, displaying file names unencoded, and fixing a bug when deleting subdirectories, refs #31058
  • lines changed 3, context: html, text, full: html, text
    541933ca6a407a10621c3110fb0873529d78e11e Wed Feb 26 12:42:38 2025 -0800
    Don't error out if trying to do a hubspace re-upload of a file if the upload is coming from hubtools. Assume hubtools users want to overwrite existing files, ref Max email
• src/hg/hgHubConnect/trackHubWizard.c
  • lines changed 33, context: html, text, full: html, text
    1f954876a8847da234e0c89b3b43390b40c6ca4e Tue Feb 25 10:45:31 2025 -0800
    Special handle the parentDir setting during uploads by cgi-encoding the components of parentDir but leaving the slash characters in place. This allows hubtools uploads to preserve the filesystem layout on the host on our end, but prevent writing of files outside of the users hubspace directory. Any '..' characters in the parentDir are simply ignored. This commit also fixes some other hubtools related UI bugs, like preventing infinite recursion when doing a row select, displaying file names unencoded, and fixing a bug when deleting subdirectories, refs #31058
  • lines changed 14, context: html, text, full: html, text
    f4811acb1836d4a91ab6d2189aff8f1d7a438d1b Tue Feb 25 15:10:49 2025 -0800
    Remove hubSpace hub from the cart when deleting a hub.txt, refs #31058
• src/hg/hgSearch/hgSearch.c
  • lines changed 3, context: html, text, full: html, text
    ebc825e893d3ecab0e4827d2d5f2e5af532d34f6 Wed Feb 26 09:49:53 2025 -0800
    Add missing chromAlias calls to hgSearch, refs #34437
• src/hg/hgTables/bigWig.c
  • lines changed 1, context: html, text, full: html, text
    170c8b999f84fe3dc410fa7569c779627f2fe493 Thu Feb 27 16:17:32 2025 -0800
    replace assert with errAbort to get a message rather than just empty page
  • lines changed 2, context: html, text, full: html, text
    076d5f9df63dba1d913749ff8000f0c81d0af1a6 Thu Feb 27 16:24:43 2025 -0800
    fix problem in previous change of asswer because I didn't teat with the right track
• src/hg/hgTracks/bigBedTrack.c
  • lines changed 26, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/bigRmskTrack.c
  • lines changed 1, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/bigWigTrack.c
  • lines changed 58, context: html, text, full: html, text
    b74993f9080884bcc8c767693abed3f4a387ec41 Sat Mar 1 12:42:39 2025 -0800
    quickLift for bigWigs
• src/hg/hgTracks/heatmap.c
  • lines changed 782, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/heatmap.h
  • lines changed 73, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/hgTracks.c
  • lines changed 2, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/hgTracks.h
  • lines changed 11, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/lollyTrack.c
  • lines changed 1, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/makefile
  • lines changed 1, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/hgTracks/simpleTracks.c
  • lines changed 16, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/htdocs/FAQ/FAQblat.html
  • lines changed 2, context: html, text, full: html, text
    6ba0ee7febe62b7a05c0fa5b93a96d0b2ecdb5eb Wed Feb 26 15:44:36 2025 -0800
    changing double quotes to html encoding for code review, refs #35250
• src/hg/htdocs/FAQ/FAQgenes.html
  • lines changed 16, context: html, text, full: html, text
    b88a0d542ed4fb37af9aef0ba798ac92f0eb74ce Tue Feb 25 03:40:19 2025 -0800
    docing duplicate refseqs in par regions, refs #35222
  • lines changed 3, context: html, text, full: html, text
    cac0d55cab41854d0d152a5dfbd1ced98228618d Tue Feb 25 09:57:55 2025 -0800
    Updating Max entry of the 'Why does the UCSC RefSeq track (refGene) include duplicates' FAQ, refs #35222
  • lines changed 42, context: html, text, full: html, text
    bba92d23fe7b8355f40307869ccc0cfe5895b3b8 Sun Mar 2 11:32:15 2025 -0800
    adding notes on chrMT and refseq dupes to faq, refs #35299
• src/hg/htdocs/goldenPath/help/bigBed.html
  • lines changed 10, context: html, text, full: html, text
    4c3de02785367e3178c78cfb3cb2e9d3bee383e9 Thu Feb 27 08:18:17 2025 -0800
    adding note about file sorting and gzipping, refs #31612
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 28, context: html, text, full: html, text
    73365345ad5cfd5f165571982487ceee846c9918 Sat Feb 22 10:08:31 2025 -0800
    adding announcement and hiding track by default, refs #32269
  • lines changed 1, context: html, text, full: html, text
    1bbc1f488161dbacec3877bcbf986642a4fa9dc3 Mon Feb 24 15:37:51 2025 -0800
    Updating 'less' to 'fewer' for the Level of literature support table, refs #35081
  • lines changed 73, context: html, text, full: html, text
    9fc19d1c120f23370047d73268806e2fa019811a Tue Feb 25 08:10:50 2025 -0800
    resolving merge conflict in indexNews and newsarch files
  • lines changed 4, context: html, text, full: html, text
    e5239b325b8f1dbe6d9e1f7d78cd915169f27b3a Tue Feb 25 08:19:33 2025 -0800
    adding thank you to end of AlphaMissense announcement, refs #32269
  • lines changed 42, context: html, text, full: html, text
    637f4eb02e5ee60fc454c6ea9c855a4b6a70e922 Fri Feb 28 15:13:27 2025 -0800
    Fixing a typo in the CIVIC announcment. Announcing the highlight feature, refs #34703
  • lines changed 117, context: html, text, full: html, text
    407df4dbb813a74de4ca4fb2a90ba2b104b82334 Fri Feb 28 15:15:26 2025 -0800
    Fixing merge conflict
  • lines changed 7, context: html, text, full: html, text
    55aaab6ba2eccf6a17b66f54d25d0b38517d5853 Fri Feb 28 15:24:27 2025 -0800
    Adding a sentence for the image. Updating the date for next monday. Adding thanks section, refs #34703
• src/hg/htdocs/images/newsArchImages/highlightAnnouncement.png
  • lines changed 0, context: html, text, full: html, text
    637f4eb02e5ee60fc454c6ea9c855a4b6a70e922 Fri Feb 28 15:13:27 2025 -0800
    Fixing a typo in the CIVIC announcment. Announcing the highlight feature, refs #34703
• src/hg/htdocs/indexNews.html
  • lines changed 12, context: html, text, full: html, text
    73365345ad5cfd5f165571982487ceee846c9918 Sat Feb 22 10:08:31 2025 -0800
    adding announcement and hiding track by default, refs #32269
  • lines changed 18, context: html, text, full: html, text
    9fc19d1c120f23370047d73268806e2fa019811a Tue Feb 25 08:10:50 2025 -0800
    resolving merge conflict in indexNews and newsarch files
  • lines changed 12, context: html, text, full: html, text
    7e1d448237bd4fcd51365186ad84235f1e7355ea Fri Feb 28 15:26:45 2025 -0800
    Adding the highlight feature to the indexNews page, refs #34703
• src/hg/htdocs/style/hgMyData.css
  • lines changed 1, context: html, text, full: html, text
    e03fbe234ac861ea3b1831f01a18b36aea53a58d Tue Feb 25 11:58:38 2025 -0800
    Make font-size of breadcrumb text larger, make the final breadcrumb not underlined since it cannot be clicked, make the final breadcrumb not clickable, refs ##31058
• src/hg/inc/bigChain.h
  • lines changed 4, context: html, text, full: html, text
    b74993f9080884bcc8c767693abed3f4a387ec41 Sat Mar 1 12:42:39 2025 -0800
    quickLift for bigWigs
• src/hg/inc/hdb.h
  • lines changed 1, context: html, text, full: html, text
    a28594c94e4eb79c06f494b760e6e33d11ad14a9 Tue Feb 25 08:59:40 2025 -0800
    increase the number of split tables allowed refs #35253
• src/hg/inc/userdata.h
  • lines changed 3, context: html, text, full: html, text
    f4811acb1836d4a91ab6d2189aff8f1d7a438d1b Tue Feb 25 15:10:49 2025 -0800
    Remove hubSpace hub from the cart when deleting a hub.txt, refs #31058
• src/hg/js/hgMyData.js
  • lines changed 34, context: html, text, full: html, text
    1f954876a8847da234e0c89b3b43390b40c6ca4e Tue Feb 25 10:45:31 2025 -0800
    Special handle the parentDir setting during uploads by cgi-encoding the components of parentDir but leaving the slash characters in place. This allows hubtools uploads to preserve the filesystem layout on the host on our end, but prevent writing of files outside of the users hubspace directory. Any '..' characters in the parentDir are simply ignored. This commit also fixes some other hubtools related UI bugs, like preventing infinite recursion when doing a row select, displaying file names unencoded, and fixing a bug when deleting subdirectories, refs #31058
  • lines changed 14, context: html, text, full: html, text
    e03fbe234ac861ea3b1831f01a18b36aea53a58d Tue Feb 25 11:58:38 2025 -0800
    Make font-size of breadcrumb text larger, make the final breadcrumb not underlined since it cannot be clicked, make the final breadcrumb not clickable, refs ##31058
• src/hg/lib/bigChain.c
  • lines changed 21, context: html, text, full: html, text
    b74993f9080884bcc8c767693abed3f4a387ec41 Sat Mar 1 12:42:39 2025 -0800
    quickLift for bigWigs
• src/hg/lib/heatmap.as
  • lines changed 21, context: html, text, full: html, text
    ba5f4c097ecdf323f94adab36f4cf52f7f59e8cf Mon Mar 3 09:47:13 2025 -0800
    Initial commit of heatmap code for bigBeds, still plenty to do, refs #31812
• src/hg/lib/quickLift.c
  • lines changed 24, context: html, text, full: html, text
    b74993f9080884bcc8c767693abed3f4a387ec41 Sat Mar 1 12:42:39 2025 -0800
    quickLift for bigWigs
• src/hg/lib/userdata.c
  • lines changed 7, context: html, text, full: html, text
    1f954876a8847da234e0c89b3b43390b40c6ca4e Tue Feb 25 10:45:31 2025 -0800
    Special handle the parentDir setting during uploads by cgi-encoding the components of parentDir but leaving the slash characters in place. This allows hubtools uploads to preserve the filesystem layout on the host on our end, but prevent writing of files outside of the users hubspace directory. Any '..' characters in the parentDir are simply ignored. This commit also fixes some other hubtools related UI bugs, like preventing infinite recursion when doing a row select, displaying file names unencoded, and fixing a bug when deleting subdirectories, refs #31058
  • lines changed 11, context: html, text, full: html, text
    f4811acb1836d4a91ab6d2189aff8f1d7a438d1b Tue Feb 25 15:10:49 2025 -0800
    Remove hubSpace hub from the cart when deleting a hub.txt, refs #31058
• src/hg/makeDb/doc/asmHubs/master.run.list
  • lines changed 71, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
  • lines changed 8, context: html, text, full: html, text
    240a9e73c64e3d2072e6c8e7141d7f0c670fcee2 Tue Feb 25 09:31:27 2025 -0800
    continuing VGP update refs #29545
  • lines changed 16, context: html, text, full: html, text
    0b79f38c15c80abf6f73f62916530c06e7efe99b Thu Feb 27 12:22:35 2025 -0800
    VGP update and a couple user requests refs #29545
  • lines changed 2, context: html, text, full: html, text
    2ec1c55ec6f3139ed9952b1b1d085b9ffa83b150 Fri Feb 28 11:16:01 2025 -0800
    VGP update refs #29545
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    3649a56fe72fd579be33eae0c33e93c2be0b727b Sat Mar 1 13:35:05 2025 -0800
    a couple per user request and VGP update refs #29545
• src/hg/makeDb/doc/bacteriaAsmHub/bacteria.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
• src/hg/makeDb/doc/birdsAsmHub/birds.orderList.tsv
  • lines changed 2, context: html, text, full: html, text
    240a9e73c64e3d2072e6c8e7141d7f0c670fcee2 Tue Feb 25 09:31:27 2025 -0800
    continuing VGP update refs #29545
  • lines changed 4, context: html, text, full: html, text
    0b79f38c15c80abf6f73f62916530c06e7efe99b Thu Feb 27 12:22:35 2025 -0800
    VGP update and a couple user requests refs #29545
• src/hg/makeDb/doc/fishAsmHub/fish.orderList.tsv
  • lines changed 5, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
  • lines changed 1, context: html, text, full: html, text
    240a9e73c64e3d2072e6c8e7141d7f0c670fcee2 Tue Feb 25 09:31:27 2025 -0800
    continuing VGP update refs #29545
  • lines changed 1, context: html, text, full: html, text
    2ec1c55ec6f3139ed9952b1b1d085b9ffa83b150 Fri Feb 28 11:16:01 2025 -0800
    VGP update refs #29545
• src/hg/makeDb/doc/fungiAsmHub/fungi.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
• src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv
  • lines changed 2, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
  • lines changed 3, context: html, text, full: html, text
    0b79f38c15c80abf6f73f62916530c06e7efe99b Thu Feb 27 12:22:35 2025 -0800
    VGP update and a couple user requests refs #29545
  • lines changed 2, context: html, text, full: html, text
    3649a56fe72fd579be33eae0c33e93c2be0b727b Sat Mar 1 13:35:05 2025 -0800
    a couple per user request and VGP update refs #29545
• src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt
  • lines changed 7, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
  • lines changed 1, context: html, text, full: html, text
    2ec1c55ec6f3139ed9952b1b1d085b9ffa83b150 Fri Feb 28 11:16:01 2025 -0800
    VGP update refs #29545
  • lines changed 1, context: html, text, full: html, text
    3649a56fe72fd579be33eae0c33e93c2be0b727b Sat Mar 1 13:35:05 2025 -0800
    a couple per user request and VGP update refs #29545
• src/hg/makeDb/doc/legacyAsmHub/legacy.orderList.tsv
  • lines changed 7, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
  • lines changed 3, context: html, text, full: html, text
    2ec1c55ec6f3139ed9952b1b1d085b9ffa83b150 Fri Feb 28 11:16:01 2025 -0800
    VGP update refs #29545
  • lines changed 1, context: html, text, full: html, text
    3649a56fe72fd579be33eae0c33e93c2be0b727b Sat Mar 1 13:35:05 2025 -0800
    a couple per user request and VGP update refs #29545
• src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv
  • lines changed 2, context: html, text, full: html, text
    240a9e73c64e3d2072e6c8e7141d7f0c670fcee2 Tue Feb 25 09:31:27 2025 -0800
    continuing VGP update refs #29545
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    0b79f38c15c80abf6f73f62916530c06e7efe99b Thu Feb 27 12:22:35 2025 -0800
    VGP update and a couple user requests refs #29545
• src/hg/makeDb/doc/plantsAsmHub/plants.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    0b79f38c15c80abf6f73f62916530c06e7efe99b Thu Feb 27 12:22:35 2025 -0800
    VGP update and a couple user requests refs #29545
• src/hg/makeDb/doc/primatesAsmHub/primates.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    3649a56fe72fd579be33eae0c33e93c2be0b727b Sat Mar 1 13:35:05 2025 -0800
    a couple per user request and VGP update refs #29545
• src/hg/makeDb/doc/ucscGenes/mm39.gencodeVM37.sh
  • lines changed 52, context: html, text, full: html, text
    cc84507a07203d9cf4aeec4b6335e4f0d9b93216 Mon Mar 3 10:45:32 2025 -0800
    Makedoc for Gencode VM37 on mm39, refs #35819
• src/hg/makeDb/doc/vertebrateAsmHub/vertebrate.orderList.tsv
  • lines changed 5, context: html, text, full: html, text
    64095df6b21cc5f7a424a7fef692d6c5d7e2199f Mon Feb 24 16:44:28 2025 -0800
    fixup some incorrect classifications refs #29545
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    240a9e73c64e3d2072e6c8e7141d7f0c670fcee2 Tue Feb 25 09:31:27 2025 -0800
    continuing VGP update refs #29545
  • lines changed 2, context: html, text, full: html, text
    0b79f38c15c80abf6f73f62916530c06e7efe99b Thu Feb 27 12:22:35 2025 -0800
    VGP update and a couple user requests refs #29545
  • lines changed 1, context: html, text, full: html, text
    2ec1c55ec6f3139ed9952b1b1d085b9ffa83b150 Fri Feb 28 11:16:01 2025 -0800
    VGP update refs #29545
• src/hg/makeDb/doc/vgpAsmHub/vgp.alternate.orderList.tsv
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    d5fe70b3e6a9a2ce1fa0557ec745fa83ac9075f2 Wed Feb 26 11:19:30 2025 -0800
    VGP update no redmine
• src/hg/makeDb/doc/vgpAsmHub/vgp.legacy.orderList.tsv
  • lines changed 54, context: html, text, full: html, text
    d5fe70b3e6a9a2ce1fa0557ec745fa83ac9075f2 Wed Feb 26 11:19:30 2025 -0800
    VGP update no redmine
• src/hg/makeDb/doc/vgpAsmHub/vgp.primary.orderList.tsv
  • lines changed 64, context: html, text, full: html, text
    d5fe70b3e6a9a2ce1fa0557ec745fa83ac9075f2 Wed Feb 26 11:19:30 2025 -0800
    VGP update no redmine
• src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt
  • lines changed 92, context: html, text, full: html, text
    d5fe70b3e6a9a2ce1fa0557ec745fa83ac9075f2 Wed Feb 26 11:19:30 2025 -0800
    VGP update no redmine
• src/hg/makeDb/doc/vgpAsmHub/vgp.trio.orderList.tsv
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    d5fe70b3e6a9a2ce1fa0557ec745fa83ac9075f2 Wed Feb 26 11:19:30 2025 -0800
    VGP update no redmine
• src/hg/makeDb/doc/xenTro10/lastzChainNet.txt
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    db2c189b474c037cb383b96c06b71acdcf364dd7 Sun Mar 2 17:56:46 2025 -0800
    lastz chainNet procedures for xenTro10 refs #31490
• src/hg/makeDb/genbank/src/lib/gbConf.c
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    a2d41471cf7d5b2734cbe4c339a001e55f571a7f Thu Feb 27 09:45:11 2025 -0800
    fixed compile error in genbank code
• src/hg/makeDb/trackDb/human/alphaMissense.ra
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    73365345ad5cfd5f165571982487ceee846c9918 Sat Feb 22 10:08:31 2025 -0800
    adding announcement and hiding track by default, refs #32269
• src/hg/makeDb/trackDb/human/civic.html
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    637f4eb02e5ee60fc454c6ea9c855a4b6a70e922 Fri Feb 28 15:13:27 2025 -0800
    Fixing a typo in the CIVIC announcment. Announcing the highlight feature, refs #34703
• src/hg/makeDb/trackDb/human/spliceImpactSuper.alpha.ra
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    c86026f5d015eb5d26e885ba1d24ebca24f95182 Tue Feb 25 10:37:52 2025 -0800
    Adding beta tags for the spliceImpactSuper track, refs #34823
• src/hg/makeDb/trackDb/human/spliceImpactSuper.ra
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    c86026f5d015eb5d26e885ba1d24ebca24f95182 Tue Feb 25 10:37:52 2025 -0800
    Adding beta tags for the spliceImpactSuper track, refs #34823
• src/hg/makeDb/trackDb/human/trackDb.ra
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    c86026f5d015eb5d26e885ba1d24ebca24f95182 Tue Feb 25 10:37:52 2025 -0800
    Adding beta tags for the spliceImpactSuper track, refs #34823
• src/hg/makeDb/trackDb/human/varChat.html
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    1bbc1f488161dbacec3877bcbf986642a4fa9dc3 Mon Feb 24 15:37:51 2025 -0800
    Updating 'less' to 'fewer' for the Level of literature support table, refs #35081
• src/hg/makeDb/trackDb/mouse/mm39/knownGene.alpha.ra
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    9bc30cde15b1468305a46960bc2c715c5e8942e7 Sun Mar 2 09:28:44 2025 -0800
    VM37 knownGene trackDb for mm39
• src/hg/makeDb/trackDb/mouse/mm39/knownGene.ra
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    9bc30cde15b1468305a46960bc2c715c5e8942e7 Sun Mar 2 09:28:44 2025 -0800
    VM37 knownGene trackDb for mm39
• src/hg/makeDb/trackDb/mouse/mm39/knownGeneArchive.ra
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    9bc30cde15b1468305a46960bc2c715c5e8942e7 Sun Mar 2 09:28:44 2025 -0800
    VM37 knownGene trackDb for mm39
• src/hg/makeDb/trackDb/mouse/mm39/knownGeneVM37.html
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    9bc30cde15b1468305a46960bc2c715c5e8942e7 Sun Mar 2 09:28:44 2025 -0800
    VM37 knownGene trackDb for mm39
• src/hg/makeDb/trackDb/mouse/mm39/trackDb.ra
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    9bc30cde15b1468305a46960bc2c715c5e8942e7 Sun Mar 2 09:28:44 2025 -0800
    VM37 knownGene trackDb for mm39
• src/hg/txGene/txGeneExplainUpdate2/txGeneExplainUpdate2.c
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    e82710c932466ad56434e0a33dcfcd415606795a Sat Feb 22 11:59:05 2025 -0800
    Minor change to get txGeneExplainUpdate2 compiling again, refs #35189
• src/hg/utils/otto/knownGene/buildBlast.sh
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    1cfcd358bab5bee746cb33e15fc861f6206835b6 Sun Mar 2 09:35:30 2025 -0800
    Gotta run cluster jobs on hgwdev instead of ku for a bit, and s-nail wants spaces instead of commas in the recipients list, refs #35189
• src/hg/utils/otto/knownGene/genIspcrMail.sh
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    1cfcd358bab5bee746cb33e15fc861f6206835b6 Sun Mar 2 09:35:30 2025 -0800
    Gotta run cluster jobs on hgwdev instead of ku for a bit, and s-nail wants spaces instead of commas in the recipients list, refs #35189
• src/hg/utils/otto/mitoMap/buildMitoMap.py
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    2b58971a98de87361a625375a7b1bf1fcc5ded03 Fri Feb 28 17:36:45 2025 -0800
    Fixing the mitomap track, I incorrectly assumed that the hg19 chrM was the same as hg38 chrM, but it was chrMT that matches with chrM on hg38. Refs #24849
• src/hg/utils/otto/mitoMap/checkMitoMapUpdate.sh
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    2b58971a98de87361a625375a7b1bf1fcc5ded03 Fri Feb 28 17:36:45 2025 -0800
    Fixing the mitomap track, I incorrectly assumed that the hg19 chrM was the same as hg38 chrM, but it was chrMT that matches with chrM on hg38. Refs #24849
• src/inc/common.h
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    d11734eb8be118418ae02fe26799870807b43685 Mon Mar 3 07:41:09 2025 -0800
    Needed a function to split up CSV without losing empty records, refs #31812
• src/lib/common.c
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    d11734eb8be118418ae02fe26799870807b43685 Mon Mar 3 07:41:09 2025 -0800
    Needed a function to split up CSV without losing empty records, refs #31812
• src/utils/hubtools/hubtools
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    d1e2aafa5f6b2e2acb4069f4ed51e9db37934ffe Wed Feb 26 06:59:11 2025 -0800
    trying to fix hubtools behavior when specifying -i, email from Chris, no redmine
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    5d2cc0dd88a130e3e1c3eb3d9f1ad5d7d1f67e04 Wed Feb 26 08:10:53 2025 -0800
    typo in previous commit
• src/utils/qa/weeklybld/buildEnv.csh
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    93dfae59f60f1be200da01a1e24a01a10f254cac Mon Mar 3 11:05:51 2025 -0800
    v479 preview1, refs #35217

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