All File Changes

v429_base to v430_preview (2022-04-04 to 2022-04-11) v430

• confs/hgwbeta.hg.conf
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    b1b217de2d3c88334934257175f98c66cb971fc1 Sun Apr 10 01:13:31 2022 -0700
    Installing updated hg.conf files from UCSC servers
• confs/hgwdev.hg.conf
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    b1b217de2d3c88334934257175f98c66cb971fc1 Sun Apr 10 01:13:31 2022 -0700
    Installing updated hg.conf files from UCSC servers
• src/hg/hgConvert/hgConvert.c
  • lines changed 16, context: html, text, full: html, text
    eaa76b9f96a1509b9591a4492e7b363f11eb58c9 Mon Apr 4 16:22:40 2022 -0700
    support genark hubs in hgConvert
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    e2b7d2fa29f32948a664ef74a7dd30dcdfb949db Tue Apr 5 08:28:27 2022 -0700
    delete hub prefix on trackHubs before looking for them in the database
• src/hg/hgTables/vcf.c
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    ad18889898ae327c9c2787fea48ca371527dd41f Fri Apr 8 13:36:37 2022 -0700
    support vcfTabix schema display on track hubs
• src/hg/hgTracks/hgTracks.c
  • lines changed 17, context: html, text, full: html, text
    a9b6ad6611b2c3c72d76c82044393c024bbe9933 Thu Apr 7 05:39:23 2022 -0700
    allow assembly-specific info links that work with hubs, for CHM13, refs #29224
• src/hg/hgc/hgc.c
  • lines changed 5, context: html, text, full: html, text
    d26707fc96ea80bad241b19ccca7eb9b770b6b3c Wed Apr 6 14:14:02 2022 -0700
    missed a case for bigBeds in extended dna coloring
• src/hg/htdocs/FAQ/FAQblat.html
  • lines changed 1, context: html, text, full: html, text
    b86ab045ecfd00134c31978cb3196e7455e1c8c9 Tue Mar 29 12:31:55 2022 -0700
    reworded slightly to clarify that it is not three variables PLUS the seq, the type and the db
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 179, context: html, text, full: html, text
    b2927318686423284931557fb1bec7f1c8787b7e Fri Apr 8 17:40:46 2022 -0700
    Announcement for new CHM13 assembly, refs #29203
  • lines changed 7, context: html, text, full: html, text
    7079fc959cca75f0b55651694407718866089320 Fri Apr 8 17:58:37 2022 -0700
    Swapping track order for clarity and prioritizing the liftOver track, refs #29203
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    dc459ed9ddd8a43c1a4785a9d827d9f17e8c4d29 Fri Apr 8 19:39:06 2022 -0700
    Fixing typo.
• src/hg/htdocs/images/chm13Gateway.png
  • lines changed 0, context: html, text, full: html, text
    b2927318686423284931557fb1bec7f1c8787b7e Fri Apr 8 17:40:46 2022 -0700
    Announcement for new CHM13 assembly, refs #29203
• src/hg/htdocs/images/hgConvert.png
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    b2927318686423284931557fb1bec7f1c8787b7e Fri Apr 8 17:40:46 2022 -0700
    Announcement for new CHM13 assembly, refs #29203
• src/hg/htdocs/images/scienceFillingTheGaps.jpg
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    b2927318686423284931557fb1bec7f1c8787b7e Fri Apr 8 17:40:46 2022 -0700
    Announcement for new CHM13 assembly, refs #29203
• src/hg/htdocs/images/t2tGenomesMenu.png
  • lines changed 0, context: html, text, full: html, text
    b2927318686423284931557fb1bec7f1c8787b7e Fri Apr 8 17:40:46 2022 -0700
    Announcement for new CHM13 assembly, refs #29203
• src/hg/htdocs/inc/gbPageStartHardcoded.html
  • lines changed 1, context: html, text, full: html, text
    8004e1c0a478427536d6760a0f94f2a5107df85a Thu Apr 7 13:12:51 2022 -0700
    Adding CHM13 to genomes drop down refs #29202
• src/hg/htdocs/inc/globalNavBar.inc
  • lines changed 1, context: html, text, full: html, text
    8004e1c0a478427536d6760a0f94f2a5107df85a Thu Apr 7 13:12:51 2022 -0700
    Adding CHM13 to genomes drop down refs #29202
• src/hg/htdocs/indexNews.html
  • lines changed 12, context: html, text, full: html, text
    b2927318686423284931557fb1bec7f1c8787b7e Fri Apr 8 17:40:46 2022 -0700
    Announcement for new CHM13 assembly, refs #29203
• src/hg/htdocs/training/index.html
  • lines changed 3, context: html, text, full: html, text
    3107d2a2b1f09a2fa8851237236102ed5f845b78 Tue Apr 5 12:43:33 2022 -0700
    changed future workshops to indicate location
• src/hg/lib/hdb.c
  • lines changed 2, context: html, text, full: html, text
    4231bb41a4af90422596fcc33304a6a20e654dc6 Tue Apr 5 13:12:56 2022 -0700
    when grabbing liftOver chains, don't check for database base presence since the chains may be for a track hub
  • lines changed 2, context: html, text, full: html, text
    7f87f28f5603d0d1619c8421d0e4aa7e71e2cd79 Tue Apr 5 14:44:33 2022 -0700
    Revert "when grabbing liftOver chains, don't check for database base presence" This reverts commit 4231bb41a4af90422596fcc33304a6a20e654dc6.
  • lines changed 2, context: html, text, full: html, text
    2292f9dea942be082a90d741927df1ff18a51574 Tue Apr 5 15:49:22 2022 -0700
    get hgLiftOver and liftOver to work with genark hubs where the liftOver chain may be a URL
• src/hg/lib/liftOver.c
  • lines changed 2, context: html, text, full: html, text
    2292f9dea942be082a90d741927df1ff18a51574 Tue Apr 5 15:49:22 2022 -0700
    get hgLiftOver and liftOver to work with genark hubs where the liftOver chain may be a URL
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt
  • lines changed 7, context: html, text, full: html, text
    8ee357c0d328758d1bbbbc692981f4c2e8eddc38 Wed Apr 6 18:51:44 2022 -0700
    added catLiftOffGenes GTF/GFF3
  • lines changed 286, context: html, text, full: html, text
    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/doc/chm13v2.0_CytoBandMapping.readme.txt
  • lines changed 31, context: html, text, full: html, text
    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/doc/chm13v2.0_CytoBandMapping.tsv
  • lines changed 863, context: html, text, full: html, text
    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/catLiftOffGenesV1.html
  • lines changed 104, context: html, text, full: html, text
    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/censat.html
  • lines changed 34, context: html, text, full: html, text
    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/clinVar20220313.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/dbSNP155.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/gwasSNPs2022-03-08.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgCactus.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgLiftOver.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgUnique.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/proseq.html
  • lines changed 57, context: html, text, full: html, text
    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/rdnaModel.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/rnaseq.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/sedefSegDups.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile
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    8ee357c0d328758d1bbbbc692981f4c2e8eddc38 Wed Apr 6 18:51:44 2022 -0700
    added catLiftOffGenes GTF/GFF3
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/schema/cenSat.as
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/schema/sedefSegDups.as
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/catLiftOffGenesV1.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/censat.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/clinVar20220313.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/cytoBandMapped.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/dbSNP155.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/gwasSNPs2022-03-08.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgCactus.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgLiftOver.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgUnique.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/proseq.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/rdnaModel.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/rnaseq.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/sedefSegDups.trackDb.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/build.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/doc/chm13v2.0_CytoBandMapping.readme.txt
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/doc/chm13v2.0_CytoBandMapping.tsv
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/catLiftOffGenesV1.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/censat.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/clinVar20220313.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/dbSNP155.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/gwasSNPs2022-03-08.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/hgCactus.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/hgLiftOver.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
    Updates for genome name changes, update hgLiftover
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    eb8d108a0120f22ef926740fba982fc5d595f0d8 Sun Apr 10 16:29:30 2022 -0700
    renamed chm13v2.0 T2T supplied data documentation directory to something sane
• src/hg/makeDb/doc/GCA_009914755.4_T2T-CHM13v2.0/html/hgUnique.html
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    2e33343a4408ecab24f88bebae9cf2f994a8599d Sat Apr 9 14:42:02 2022 -0700
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    better cleanup no redmine
• src/hg/utils/automation/pairLastz.sh
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    8d2de5d51f2b37ece3f733c5a575b3c74bb2c8e6 Tue Apr 5 11:18:00 2022 -0700
    more meta data on the query and target for later use in doc construction refs #29207
• src/hg/utils/otto/decipher/buildDecipher
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    d6d6967d21a36badceed77f26525ec10c8540ebf Tue Apr 5 17:40:55 2022 -0700
    Updates to the DECIPHER pipeline, first for a manual build, refs #29130
• src/hg/utils/otto/decipher/checkDecipher.sh
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    d6d6967d21a36badceed77f26525ec10c8540ebf Tue Apr 5 17:40:55 2022 -0700
    Updates to the DECIPHER pipeline, first for a manual build, refs #29130
• src/hg/utils/otto/decipher/processDecipher.py
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    d6d6967d21a36badceed77f26525ec10c8540ebf Tue Apr 5 17:40:55 2022 -0700
    Updates to the DECIPHER pipeline, first for a manual build, refs #29130
• src/hg/utils/otto/decipher/validateDecipher.sh
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    d6d6967d21a36badceed77f26525ec10c8540ebf Tue Apr 5 17:40:55 2022 -0700
    Updates to the DECIPHER pipeline, first for a manual build, refs #29130
• src/inc/bbiAlias.h
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/inc/bbiFile.h
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/lib/bbiAlias.c
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/lib/bbiWrite.c
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/bedGraphToBigWig.c
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/expected/mixed.err
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/expected/testBadChrom1.err
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/input/chromAliasIndex.as
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/input/human.chrom.sizes.txt
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/input/human.chromAlias.bed
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/input/mixed.bed
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/input/test1.bed
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedGraphToBigWig/tests/makefile
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/bedToBigBed.c
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/expected/mixed.err
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/expected/testBadChrom1.err
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/input/bigGenePred.as
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/input/chromAliasIndex.as
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/input/colored.genbank.bed
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/input/human.chrom.sizes.txt
  • lines changed 639, context: html, text, full: html, text
    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/input/human.chromAlias.bed
  • lines changed 638, context: html, text, full: html, text
    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/input/mixed.bed
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    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/bedToBigBed/tests/makefile
  • lines changed 17, context: html, text, full: html, text
    8fdef9e866ecc228bfe4ea54102d0079818f0366 Fri Apr 8 14:49:38 2022 -0700
    let bedGraphToBigWig use chromAlias.bb as chromSizes file. Add tests to both bedGraphToBigWig and bedToBigBed
• src/utils/qa/weeklybld/buildEnv.csh
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    926bfa1071a61284137ca8e2e9099dc297d16ae1 Mon Apr 11 10:15:59 2022 -0700
    v430 preview1, refs #29124
• src/utils/qa/weeklybld/doNewBranch.csh
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    83830db927a7d15cb0447c2949a771a7ea2139ec Mon Apr 11 10:11:00 2022 -0700
    Remove ann brian and bob from code review pairing email and add lou
• src/utils/qa/weeklybld/doNewReview.csh
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    83830db927a7d15cb0447c2949a771a7ea2139ec Mon Apr 11 10:11:00 2022 -0700
    Remove ann brian and bob from code review pairing email and add lou
• src/utils/qa/weeklybld/doNewReview2.csh
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    83830db927a7d15cb0447c2949a771a7ea2139ec Mon Apr 11 10:11:00 2022 -0700
    Remove ann brian and bob from code review pairing email and add lou

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