All File Changes

v490_base to v491_preview (2025-11-03 to 2025-11-10) v491

• confs/euro.hg.conf
  • lines changed 4, context: html, text, full: html, text
    4fbd744caf357e9f919c0b909b3c47bfdaef59a2 Sun Nov 9 01:11:18 2025 -0800
    Installing updated hg.conf files from UCSC servers
• confs/hgwbeta.hg.conf
  • lines changed 1, context: html, text, full: html, text
    4fbd744caf357e9f919c0b909b3c47bfdaef59a2 Sun Nov 9 01:11:18 2025 -0800
    Installing updated hg.conf files from UCSC servers
• confs/hgwdev.hg.conf
  • lines changed 1, context: html, text, full: html, text
    4fbd744caf357e9f919c0b909b3c47bfdaef59a2 Sun Nov 9 01:11:18 2025 -0800
    Installing updated hg.conf files from UCSC servers
• src/hg/hgTracks/bigBedTrack.c
  • lines changed 31, context: html, text, full: html, text
    adb1dba016cec0944021bdf3c6f0b226c9a63f54 Mon Nov 3 16:37:59 2025 -0800
    single path for bigBed loading refs #19984
• src/hg/hgTracks/hgTracks.c
  • lines changed 2, context: html, text, full: html, text
    f07f43476ae7ac72bdbd83603c63191bb699104a Tue Nov 4 12:05:12 2025 -0800
    Allows local curated genomes by checking for /gbdb/$db. Does not allow those local bigDataUrl directories to be used for custom tracks. Allows those hub URLs with local paths to be loaded in the background for better speed. Allows for vcfTabix etc to work with hs1. Removes need for udc.localDir setting in hg.conf for hgwdev, hgwbeta, RR, and mirrors. Warning do not set udc.localDir= to an empty string since it is completely permissive suffix matches all URLs. fixes #rm34544
• src/hg/hgTracks/mainMain.c
  • lines changed 1, context: html, text, full: html, text
    c101e1eef844b0390c108f2806c7c03233a53731 Tue Nov 4 05:13:02 2025 -0800
    comment change after code review, refs #36651
• src/hg/hgTracks/simpleTracks.c
  • lines changed 1, context: html, text, full: html, text
    adb1dba016cec0944021bdf3c6f0b226c9a63f54 Mon Nov 3 16:37:59 2025 -0800
    single path for bigBed loading refs #19984
• src/hg/hgc/bigBedClick.c
  • lines changed 2, context: html, text, full: html, text
    af700cd3f80530f9addd7e1e8b8f9ed7663a93b4 Thu Nov 6 01:07:48 2025 -0800
    allowing non-20bp crispr guides in crispr track, email from Eric Malekos, no redmine
• src/hg/hgc/hgc.c
  • lines changed 8, context: html, text, full: html, text
    adb1dba016cec0944021bdf3c6f0b226c9a63f54 Mon Nov 3 16:37:59 2025 -0800
    single path for bigBed loading refs #19984
• src/hg/htdocs/FAQ/FAQblat.html
  • lines changed 3, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/FAQ/FAQdownloads.html
  • lines changed 7, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
• src/hg/htdocs/FAQ/FAQformat.html
  • lines changed 1, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/admin/git.html
  • lines changed 8, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/admin/jk-install.html
  • lines changed 5, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/gbdDescriptions.html
  • lines changed 3, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/help/barChart.html
  • lines changed 1, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/help/bigBed.html
  • lines changed 1, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/help/bigMethyl.html
  • lines changed 51, context: html, text, full: html, text
    e1868c9f1dae8212b13ee13fdc785436ee7b7ff1 Mon Nov 10 09:11:01 2025 -0800
    Removing bigMethyl.html, we added the bigMethyl description in bedMethyl.html, No RM
• src/hg/htdocs/goldenPath/help/cloud.html
  • lines changed 5, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
• src/hg/htdocs/goldenPath/help/cram.html
  • lines changed 1, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/help/ftp.html
  • lines changed 7, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
• src/hg/htdocs/goldenPath/help/gbib.html
  • lines changed 16, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
• src/hg/htdocs/goldenPath/help/gbic.html
  • lines changed 8, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
  • lines changed 2, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/help/hgTracksHelp.html
  • lines changed 7, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
• src/hg/htdocs/goldenPath/help/hubBasics.html
  • lines changed 20, context: html, text, full: html, text
    817ed6c4b137f61c521d8d1289dd38823df78ba7 Fri Nov 7 16:06:40 2025 -0800
    Fixing some typos and making some edits, refs #28347
• src/hg/htdocs/goldenPath/help/hubQuickStart.html
  • lines changed 9, context: html, text, full: html, text
    26021fdf598718825035c26faae8acca18f818eb Fri Nov 7 11:47:26 2025 -0800
    Documenting that the group setting needs to be in each stanza for a container, refs #35079 #34995
• src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html
  • lines changed 4, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
• src/hg/htdocs/goldenPath/help/mirror.html
  • lines changed 4, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/help/mirrorManual.html
  • lines changed 12, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/help/query.html
  • lines changed 5, context: html, text, full: html, text
    a69f0bd67dca4c804a9017f328b37a15557613d0 Thu Nov 6 15:15:47 2025 -0800
    Documenting that you can search for gnomAD IDs, refs #36388
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.css
  • lines changed 1, context: html, text, full: html, text
    a58b0fd5b029ced24e011952b6a3a66731ef37df Tue Nov 4 12:20:15 2025 -0800
    Make search div on trackDb settings document not cover menu bar dropdowns, refs #36587
• src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v3.html
  • lines changed 1, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 2, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/hg/htdocs/indexMeetings.html
  • lines changed 37, context: html, text, full: html, text
    997c5948ceb84d0694cc41896ca75c3195aed586 Mon Nov 10 10:35:15 2025 -0800
    Updating and adding all upcoming meetings for next year.
• src/hg/htdocs/robots.rr.txt
  • lines changed 10, context: html, text, full: html, text
    b76bc0ef2593943ea828881d1295395df56b1346 Wed Nov 5 15:55:56 2025 -0800
    Adding a special section just for googlebot so it stops indexing our hgsid URLs as well ans hgRenderTracks. Refs #36175
• src/hg/htdocs/style/HGStyle.css
  • lines changed 17, context: html, text, full: html, text
    eccfc3f056c761a3009ced5e839274f4256a06de Tue Nov 4 05:15:23 2025 -0800
    removing style change that I accidentally committed this week
• src/hg/inc/customFactory.h
  • lines changed 2, context: html, text, full: html, text
    f07f43476ae7ac72bdbd83603c63191bb699104a Tue Nov 4 12:05:12 2025 -0800
    Allows local curated genomes by checking for /gbdb/$db. Does not allow those local bigDataUrl directories to be used for custom tracks. Allows those hub URLs with local paths to be loaded in the background for better speed. Allows for vcfTabix etc to work with hs1. Removes need for udc.localDir setting in hg.conf for hgwdev, hgwbeta, RR, and mirrors. Warning do not set udc.localDir= to an empty string since it is completely permissive suffix matches all URLs. fixes #rm34544
• src/hg/js/hgTracks.js
  • lines changed 2, context: html, text, full: html, text
    e63ad9101e0926c7d80848fd15c305b6fc6990e0 Wed Nov 5 09:47:33 2025 -0800
    Fix copy/paste error of variable name to match when doing gnomad regex match in position box, refs #36388
• src/hg/js/model/lib/cart.js
  • lines changed 4, context: html, text, full: html, text
    1cc53c5240946811f8f18ec10f2704872f5ff3d5 Wed Nov 5 13:41:36 2025 -0800
    Send credentials (cookies) when doing async cart requests now that we do them 'cross-site' from genome-euro and genome-asia to the RR for the hubspace ui. These were already send by default when making requests to the same origin, and will not work even with this change without also modifying Apache to set the correct Access-Control headers
• src/hg/lib/customFactory.c
  • lines changed 30, context: html, text, full: html, text
    f07f43476ae7ac72bdbd83603c63191bb699104a Tue Nov 4 12:05:12 2025 -0800
    Allows local curated genomes by checking for /gbdb/$db. Does not allow those local bigDataUrl directories to be used for custom tracks. Allows those hub URLs with local paths to be loaded in the background for better speed. Allows for vcfTabix etc to work with hs1. Removes need for udc.localDir setting in hg.conf for hgwdev, hgwbeta, RR, and mirrors. Warning do not set udc.localDir= to an empty string since it is completely permissive suffix matches all URLs. fixes #rm34544
• src/hg/lib/customTrack.c
  • lines changed 2, context: html, text, full: html, text
    c462aa3843e20d6e149121fd630bb5f8d8023921 Wed Nov 5 17:19:14 2025 -0800
    Need to have customTrack.c clear out this cart variable so it does not hang around and cause problems later. It was causing new autogenerated blat custom tracks to disappear after using hgTrackUi track and submittting. fixes #36660
• src/hg/lib/featureBits.c
  • lines changed 1, context: html, text, full: html, text
    e5a54c455c6cf05fda2bc967254e2929f0b07d39 Tue Nov 4 03:59:16 2025 -0800
    adding the word "flank" to table browser exon split output mode, so the user knows what this is about, refs #30655
  • lines changed 1, context: html, text, full: html, text
    837b1fecc4d7ebed5e327bbc3eb5f62d7233d015 Wed Nov 5 10:03:21 2025 -0800
    Adding the flanking text to clarify what the value means the way we did for exons, refs #30655
• src/hg/makeDb/doc/asmHubs/README.txt
  • lines changed 21, context: html, text, full: html, text
    a75fa5b90024f61cc20c36877880267eb60c7bb4 Fri Nov 7 12:53:15 2025 -0800
    indicate the newer minimal build procedure refs #29545
• src/hg/makeDb/doc/asmHubs/lastzRuns.txt
  • lines changed 160, context: html, text, full: html, text
    ba189ec1cc8a311148dcf7d28a6705d998f3add5 Sun Nov 9 17:19:46 2025 -0800
    GCF_014441545.1 to canFam6, susScr11 to GCF_009873245.2 lastz/chain/net run for users, refs #36578 #36546
• src/hg/makeDb/doc/bacteriaAsmHub/bacteria.orderList.tsv
  • lines changed 178, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/doc/fishAsmHub/fish.orderList.tsv
  • lines changed 28, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/doc/fungiAsmHub/fungi.orderList.tsv
  • lines changed 35, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/doc/hg19.txt
  • lines changed 10, context: html, text, full: html, text
    aa8e2e87c3b54e9662d87cd5b921d5607fc846ad Mon Nov 10 05:51:08 2025 -0800
    adding korea to varFreqs supertrack, refs #36642
• src/hg/makeDb/doc/hg38/varFreqs.txt
  • lines changed 69, context: html, text, full: html, text
    aa8e2e87c3b54e9662d87cd5b921d5607fc846ad Mon Nov 10 05:51:08 2025 -0800
    adding korea to varFreqs supertrack, refs #36642
• src/hg/makeDb/doc/hg38/varaico.txt
  • lines changed 9, context: html, text, full: html, text
    b191fb2263862a0c89efa9bd6f54ff436cb72f42 Mon Nov 10 03:27:38 2025 -0800
    Updated makedoc for Varaico #36612
• src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv
  • lines changed 66, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv
  • lines changed 16, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/doc/plantsAsmHub/plants.orderList.tsv
  • lines changed 82, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/doc/vertebrateAsmHub/vertebrate.orderList.tsv
  • lines changed 18, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/doc/viralAsmHub/viral.orderList.tsv
  • lines changed 10, context: html, text, full: html, text
    36de921a4bcdd3b4e8f473fd501f67abb4679038 Fri Nov 7 12:10:43 2025 -0800
    updated to bring in Crispor list refs #29545
• src/hg/makeDb/scripts/kovaToVcf.py
  • lines changed 148, context: html, text, full: html, text
    aa8e2e87c3b54e9662d87cd5b921d5607fc846ad Mon Nov 10 05:51:08 2025 -0800
    adding korea to varFreqs supertrack, refs #36642
• src/hg/makeDb/trackDb/human/ALFA.html
  • lines changed 3, context: html, text, full: html, text
    28bfc5e8e4301c0955eac938490458282438cf49 Tue Nov 4 07:28:44 2025 -0800
    adding HGDP and alfa docs page to var freqs track
• src/hg/makeDb/trackDb/human/alfa.html
  • lines changed 75, context: html, text, full: html, text
    1eb778792659124aa071876e2c5541bc8e3d6b3d Tue Nov 4 01:54:21 2025 -0800
    adding a link to more updated ancient dna tracks, refs #36592
• src/hg/makeDb/trackDb/human/bamSLDenisova.html
  • lines changed 11, context: html, text, full: html, text
    1eb778792659124aa071876e2c5541bc8e3d6b3d Tue Nov 4 01:54:21 2025 -0800
    adding a link to more updated ancient dna tracks, refs #36592
• src/hg/makeDb/trackDb/human/decipher.ra
  • lines changed 1, context: html, text, full: html, text
    c86db12566ce5d19a7640a36e9957207f66c0742 Wed Nov 5 16:27:27 2025 -0800
    Staging the G2P track on hgwbeta and updating the release tags, refs #36469
• src/hg/makeDb/trackDb/human/trackDb.ra
  • lines changed 33, context: html, text, full: html, text
    ef8aa7e210d822fc0f2e4cc423e52158bcec5ab9 Tue Nov 4 16:24:05 2025 -0800
    Removing testing tracks and updating dataVersion to release 2 (20251027), refs #36612
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    902ddcd7fbb3d57866a542f85eecdaaf16f58684 Wed Nov 5 12:31:44 2025 -0800
    Edits to the Varaico update, refs #36612
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    c86db12566ce5d19a7640a36e9957207f66c0742 Wed Nov 5 16:27:27 2025 -0800
    Staging the G2P track on hgwbeta and updating the release tags, refs #36469
  • lines changed 3, context: html, text, full: html, text
    7bcba9b8eeca07a85517921f653a565be81fef22 Sun Nov 9 15:07:17 2025 -0800
    Commenting out the pennantIcons, refs #36612
• src/hg/makeDb/trackDb/human/varFreqs.html
  • lines changed 98, context: html, text, full: html, text
    c3c037cd89b6095049807b367371fc559a07ee95 Mon Nov 3 17:43:57 2025 -0800
    docs update for var freqs track
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    aa8e2e87c3b54e9662d87cd5b921d5607fc846ad Mon Nov 10 05:51:08 2025 -0800
    adding korea to varFreqs supertrack, refs #36642
• src/hg/makeDb/trackDb/human/varFreqs.ra
  • lines changed 1, context: html, text, full: html, text
    e7808095a7043981fd7915a5fd495cc1339b8ee3 Mon Nov 3 15:38:58 2025 -0800
    Updating the /gbdb path after moving the TopMed file into its own folder like the other tracks, refs #36628
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    c3c037cd89b6095049807b367371fc559a07ee95 Mon Nov 3 17:43:57 2025 -0800
    docs update for var freqs track
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    d26249b15576a1cf3f7a79ce49e8d302b6dd32a6 Mon Nov 3 17:49:44 2025 -0800
    small changes to variant freqs track
  • lines changed 114, context: html, text, full: html, text
    1eb778792659124aa071876e2c5541bc8e3d6b3d Tue Nov 4 01:54:21 2025 -0800
    adding a link to more updated ancient dna tracks, refs #36592
  • lines changed 53, context: html, text, full: html, text
    28bfc5e8e4301c0955eac938490458282438cf49 Tue Nov 4 07:28:44 2025 -0800
    adding HGDP and alfa docs page to var freqs track
  • lines changed 88, context: html, text, full: html, text
    aa8e2e87c3b54e9662d87cd5b921d5607fc846ad Mon Nov 10 05:51:08 2025 -0800
    adding korea to varFreqs supertrack, refs #36642
• src/hg/makeDb/trackDb/human/varaico.html
  • lines changed 3, context: html, text, full: html, text
    b50a50c8854495af3c0399a6348472b2c64ec20e Wed Nov 5 01:54:38 2025 -0800
    Added a sentence about Varaico Suppl variants #36612
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    902ddcd7fbb3d57866a542f85eecdaaf16f58684 Wed Nov 5 12:31:44 2025 -0800
    Edits to the Varaico update, refs #36612
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    310474ddc889a29e4c406f444acc0f321f7c75a9 Thu Nov 6 07:36:25 2025 -0800
    Updated varaico color scheme for >= 20 publications
• src/hg/makeDb/trackDb/human/varsInPubs.html
  • lines changed 1, context: html, text, full: html, text
    902ddcd7fbb3d57866a542f85eecdaaf16f58684 Wed Nov 5 12:31:44 2025 -0800
    Edits to the Varaico update, refs #36612
• src/hg/makeDb/trackDb/mouse/mm39/knownGeneArchive.ra
  • lines changed 2, context: html, text, full: html, text
    ef8aa7e210d822fc0f2e4cc423e52158bcec5ab9 Tue Nov 4 16:24:05 2025 -0800
    Removing testing tracks and updating dataVersion to release 2 (20251027), refs #36612
• src/hg/utils/automation/doBlastzChainNet.pl
  • lines changed 1, context: html, text, full: html, text
    9da709168196ca0e7755b1d915eb030ab1b5d797 Wed Nov 5 14:08:10 2025 -0800
    correctly specify 12g refs #36546
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    91190f13a86010b085922adc9922707b1891ceb0 Wed Nov 5 14:13:10 2025 -0800
    correctly specify 12g refs #36546
• src/hg/utils/hubCheck/example2.bb
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    8f820e5ebdba131bb8dceef34227f326dc892428 Mon Nov 3 23:15:00 2025 -0800
    oops one more unwanted checkin example2.bb.
• src/hg/utils/hubCheck/fooy
  • lines changed 3331, context: html, text, full: html, text
    e112c27b7a39c6fd9def5b24ed5015087d057778 Mon Nov 3 16:27:05 2025 -0800
    oops, I accidentally checked in these files, must have missed a -u with git add command so it added everything in the directory. no redmine.
• src/hg/utils/hubCheck/fuck
  • lines changed 152, context: html, text, full: html, text
    e112c27b7a39c6fd9def5b24ed5015087d057778 Mon Nov 3 16:27:05 2025 -0800
    oops, I accidentally checked in these files, must have missed a -u with git add command so it added everything in the directory. no redmine.
• src/hg/utils/hubCheck/hubCheck.c.debugBadFEFFCharsInHubtxtDropBox
  • lines changed 1326, context: html, text, full: html, text
    e112c27b7a39c6fd9def5b24ed5015087d057778 Mon Nov 3 16:27:05 2025 -0800
    oops, I accidentally checked in these files, must have missed a -u with git add command so it added everything in the directory. no redmine.
• src/hg/utils/hubCheck/hubCheck.c.debugWhyAreSomeSitesSlow
  • lines changed 1232, context: html, text, full: html, text
    e112c27b7a39c6fd9def5b24ed5015087d057778 Mon Nov 3 16:27:05 2025 -0800
    oops, I accidentally checked in these files, must have missed a -u with git add command so it added everything in the directory. no redmine.
• src/hg/utils/hubCheck/hubCheck.c.rejectedLogLevelAsNotUseful
  • lines changed 1213, context: html, text, full: html, text
    e112c27b7a39c6fd9def5b24ed5015087d057778 Mon Nov 3 16:27:05 2025 -0800
    oops, I accidentally checked in these files, must have missed a -u with git add command so it added everything in the directory. no redmine.
• src/hg/utils/hubCheck/tracks.tmp
  • lines changed 26, context: html, text, full: html, text
    e112c27b7a39c6fd9def5b24ed5015087d057778 Mon Nov 3 16:27:05 2025 -0800
    oops, I accidentally checked in these files, must have missed a -u with git add command so it added everything in the directory. no redmine.
• src/product/installer/README.md
  • lines changed 6, context: html, text, full: html, text
    a7e37b9dfa1c8e2c3e135d08a8ee873a2e855d47 Mon Nov 3 16:47:06 2025 -0800
    removing references to hgdownload-euro, refs #35031
  • lines changed 2, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/product/mirrorManual.txt
  • lines changed 2, context: html, text, full: html, text
    ef238e6ab90d807a28fc144fa520b50c0d1b9801 Mon Nov 3 17:12:17 2025 -0800
    changing genome-source to github references, refs #35031
• src/utils/qa/checkHTTPS
  • lines changed 1, context: html, text, full: html, text
    ec5dd02af919d00299019f8d6bc8786dc7122d1f Tue Nov 4 10:28:22 2025 -0800
    Simplifying certificates check, per admins (no ticket)

• lines changed: 9236
• files changed: 92