All File Changes

v457_preview to v457_preview2 (2023-11-06 to 2023-11-13) v457

• src/hg/hgTracks/bigBedTrack.c
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    a2b2a6404ccc3f54bd6f9e3728c30677c550bef2 Wed Nov 8 13:53:28 2023 -0800
    make sure bigBed has a non-null name before checking it's name with hgFind
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    525c2a55e1d547931cc6bb2c362a1b1d4f7fb5bc Thu Nov 9 14:09:47 2023 -0800
    take out hgFind check on bigBedFilters because it breaks on bed3's
• src/hg/hgTracks/hgTracks.c
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    0ae67100c17918eb761982d726b0f0e65c6cea25 Tue Nov 7 13:55:01 2023 -0800
    if we're called on the path that has excludeHash set we also want to set the supertrack children's visbilities refs #32556
• src/hg/hgc/bigBedClick.c
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    f8b81fa07495f9e71fabbed2f539adee95dd2403 Tue Nov 7 15:47:59 2023 -0800
    Put some basic code for checking associated chain vis into the chainHprc details tables. Needs to be fixed up more, refs #32562
• src/hg/htdocs/goldenPath/help/decorator.html
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    6692a72c450168a00d0e1a4935dd0184f16927be Fri Nov 10 16:21:52 2023 -0800
    Code review edits, refs #32564
• src/hg/htdocs/goldenPath/help/query.html
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    c1cd528300bee12948fd6645afee65cbc789926b Mon Nov 6 11:58:41 2023 -0800
    docing ID:start-end a feature that was only remembered by Hiram's neurons
• src/hg/htdocs/goldenPath/newsarch.html
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    d3bc7aa1bb4f8066f800ac7286d8d995292f3fa7 Wed Nov 8 09:37:31 2023 -0800
    Announcing the new track decorators feature, refs #32467
• src/hg/htdocs/images/feature_decorators.png
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    d3bc7aa1bb4f8066f800ac7286d8d995292f3fa7 Wed Nov 8 09:37:31 2023 -0800
    Announcing the new track decorators feature, refs #32467
• src/hg/htdocs/images/newsArchImages/feature_decorators.png
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    d3bc7aa1bb4f8066f800ac7286d8d995292f3fa7 Wed Nov 8 09:37:31 2023 -0800
    Announcing the new track decorators feature, refs #32467
• src/hg/htdocs/indexNews.html
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    d3bc7aa1bb4f8066f800ac7286d8d995292f3fa7 Wed Nov 8 09:37:31 2023 -0800
    Announcing the new track decorators feature, refs #32467
• src/hg/hubApi/findGenome.c
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    be7b74e1384a63cb009427b752198d35a4c471e2 Fri Nov 10 12:00:28 2023 -0800
    initial idea for a findGenome function refs #32596
• src/hg/js/hgc.js
  • lines changed 4, context: html, text, full: html, text
    f8b81fa07495f9e71fabbed2f539adee95dd2403 Tue Nov 7 15:47:59 2023 -0800
    Put some basic code for checking associated chain vis into the chainHprc details tables. Needs to be fixed up more, refs #32562
• src/hg/js/utils.js
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    a1df14efb5885e1059b25bed1033a2d3922ed711 Tue Nov 7 10:15:23 2023 -0800
    Make all elements with a title attribute use the new mouseover code, not just those elements in the imgTbl or ideoMap, refs Max email
• src/hg/makeDb/doc/asmHubs/master.run.list
  • lines changed 1, context: html, text, full: html, text
    3644d0c555a968d02350bf618b7a2fd900a654a0 Thu Nov 9 10:40:30 2023 -0800
    update adding GCF_000002855.4_ASM285v2 has changed taxId from previous GCF_000002855.3_ASM285v2 refs #29545
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    c25fdc7a147efc5e321d9188ec4632cd3a676b9d Thu Nov 9 15:01:51 2023 -0800
    update added GCF_004011695.2_ASM401169v2 refs #29545
• src/hg/makeDb/doc/canFam2.txt
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    17cbba92415b7abca39e85852a54f4b9f5f67093 Sat Nov 11 13:23:39 2023 -0800
    canFam2 vs. dog GCF_014441545.1, lastz/chain/net run for user, refs #32514
• src/hg/makeDb/doc/danRer10/initialBuild.txt
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    56f91678d7671b26ab3d70711429e52c26585a03 Mon Nov 6 13:21:34 2023 -0800
    adding crispr tracks for danRer10 danRer11 refs #21863
• src/hg/makeDb/doc/danRer11/initialBuild.txt
  • lines changed 99, context: html, text, full: html, text
    56f91678d7671b26ab3d70711429e52c26585a03 Mon Nov 6 13:21:34 2023 -0800
    adding crispr tracks for danRer10 danRer11 refs #21863
• src/hg/makeDb/doc/fungiAsmHub/fungi.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    3644d0c555a968d02350bf618b7a2fd900a654a0 Thu Nov 9 10:40:30 2023 -0800
    update adding GCF_000002855.4_ASM285v2 has changed taxId from previous GCF_000002855.3_ASM285v2 refs #29545
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    c25fdc7a147efc5e321d9188ec4632cd3a676b9d Thu Nov 9 15:01:51 2023 -0800
    update added GCF_004011695.2_ASM401169v2 refs #29545
• src/hg/makeDb/doc/galGal5/lastzRuns.txt
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    baf2428c31c95c077cc7048911f4ecdc30732612 Sat Nov 11 13:19:58 2023 -0800
    chicken GCF_016699485.2 vs. Chicken GalGal5, lastz/chain/net run for user, refs #31969
• src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt
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    52b7ccd5ebc572ed48151e425717961f8d81c92d Thu Nov 9 14:35:54 2023 -0800
    update made obsolete GCF_000002855.3_ASM285v2 refs #29545
• src/hg/makeDb/doc/legacyAsmHub/legacy.orderList.tsv
  • lines changed 1, context: html, text, full: html, text
    52b7ccd5ebc572ed48151e425717961f8d81c92d Thu Nov 9 14:35:54 2023 -0800
    update made obsolete GCF_000002855.3_ASM285v2 refs #29545
• src/hg/makeDb/trackDb/human/dbSnp155Composite.html
  • lines changed 4, context: html, text, full: html, text
    028a5f9e95d21de9cd9ab29cb2f6a340f74cf571 Sat Nov 11 17:05:13 2023 -0800
    Add link to Sequence Ontology website, refs #32540
• src/hg/makeDb/trackDb/human/hg19/lincRNAs.ra
  • lines changed 1, context: html, text, full: html, text
    ec71e1f1451ca4085763308b1821754e5cb0d851 Fri Nov 10 14:46:34 2023 -0800
    Changing priority due to track appearing first in the TB for the Genes Group, refs #32560
• src/lib/htmshell.c
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    8b044625d9cdd9dfaec89ff32d0ecb069b7c0565 Wed Nov 8 14:01:18 2023 -0800
    Remove pointless comparison to vararg list that can't be checked, refs #30579
• src/utils/qa/checkSyncMetaDataWrapper.py
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    4643518a5845ad64c87f16be0697e6152fb19f3d Sun Nov 12 23:51:34 2023 -0800
    Adding a wrapper script for checkSync/checkMetaData All cron to omit when there are no errors, refs #32483
• src/utils/qa/makefile
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    be00f9085e8cd6c52854319c2cbbdf68b8820a0e Sun Nov 12 23:56:31 2023 -0800
    Adding a script to omit the checkSync/checkMetaData All cron when no errors are found, refs #32483
• src/utils/qa/qaTestScript.py
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    e1edb514193319056ebed850a4bd1307e7216667 Sun Nov 12 14:32:07 2023 -0800
    Adding a schema page check and hgFind.matches cart variable test. Removing zoom steps, refs #30817
• src/utils/qa/weeklybld/buildEnv.csh
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    51d2ada0ab721cb1dd6c657afe5d63ba32091dc7 Mon Nov 13 10:06:00 2023 -0800
    v457 preview2
• src/utils/qa/weeklybld/buildHgCentralSql.csh
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    502de626a4b5afaf9d891e7c4e038f304590e449 Tue Nov 7 16:52:34 2023 -0800
    admins say hgdownload2 is out and probably not coming back
• src/utils/qa/weeklybld/doZip.csh
  • lines changed 3, context: html, text, full: html, text
    502de626a4b5afaf9d891e7c4e038f304590e449 Tue Nov 7 16:52:34 2023 -0800
    admins say hgdownload2 is out and probably not coming back
• src/utils/qa/weeklybld/makeUserApps.csh
  • lines changed 4, context: html, text, full: html, text
    502de626a4b5afaf9d891e7c4e038f304590e449 Tue Nov 7 16:52:34 2023 -0800
    admins say hgdownload2 is out and probably not coming back
• src/utils/qa/weeklybld/userApps.sh
  • lines changed 4, context: html, text, full: html, text
    502de626a4b5afaf9d891e7c4e038f304590e449 Tue Nov 7 16:52:34 2023 -0800
    admins say hgdownload2 is out and probably not coming back

• lines changed: 650
• files changed: 34