All File Changes

v395_preview to v395_preview2 (2020-02-24 to 2020-03-02) v395

• src/hg/bedToGenePred/bedToGenePred.c
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    33f43afed02b66b3297e05bde52016292e5325ea Mon Mar 2 09:00:28 2020 -0800
    correct one line header in usage message no redmine
• src/hg/cirm/gateway/htdocs/cescg/cescgOrg.html
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    fce3010f837ef9eacc71b4a8153dda3db6037d6e Mon Feb 24 15:06:21 2020 -0800
    Remove icons and changes to single cell column on project.html, index page now has clickable icons, add credit images to orgs page
• src/hg/cirm/gateway/htdocs/cirmIndex.html
  • lines changed 9, context: html, text, full: html, text
    fce3010f837ef9eacc71b4a8153dda3db6037d6e Mon Feb 24 15:06:21 2020 -0800
    Remove icons and changes to single cell column on project.html, index page now has clickable icons, add credit images to orgs page
• src/hg/cirm/gateway/htdocs/projects.html
  • lines changed 287, context: html, text, full: html, text
    fce3010f837ef9eacc71b4a8153dda3db6037d6e Mon Feb 24 15:06:21 2020 -0800
    Remove icons and changes to single cell column on project.html, index page now has clickable icons, add credit images to orgs page
• src/hg/estOrient/estOrient.c
  • lines changed 7, context: html, text, full: html, text
    9c497a369f82a2262cc9767761ae09b04ec5a78d Mon Mar 2 09:06:05 2020 -0800
    correct one line header in usage message no redmine
• src/hg/genePredToBed/genePredToBed.c
  • lines changed 17, context: html, text, full: html, text
    61ba0f65282f7de325bb658bb7862b1338ea9ce1 Fri Feb 28 14:21:19 2020 -0800
    add tab and score options to allow for space in names and to allow score setting refs #23891
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    c6d365fd7d447135c5f167aa5c8898850538729d Fri Feb 28 14:45:11 2020 -0800
    and allow -fillSpace to fixup names with space characters refs #23891
• src/hg/gigAssembler/checkAgpAndFa/checkAgpAndFa.c
  • lines changed 2, context: html, text, full: html, text
    8fb8b7633c8c5f0a7e6657b4d7fb79d6ac96df7b Mon Mar 2 09:02:06 2020 -0800
    correct one line header in usage message no redmine
• src/hg/hgCustom/hgCustom.c
  • lines changed 6, context: html, text, full: html, text
    f043c937a34269023b71d7a89b7ff25103e6c125 Mon Feb 24 15:35:59 2020 -0800
    Check user custom track group setting instead of allowing any string. Don't silently drop warnings. refs #25003, #25016
• src/hg/hgIntegrator/hgIntegrator.c
  • lines changed 9, context: html, text, full: html, text
    095cba23003b6d1f0a1ebc772c44a15c03b9d5d8 Fri Feb 21 10:20:38 2020 -0800
    start textOut pipe earlier in case there are warnings from loading trackDb. refs #25003
• src/hg/hgTracks/hgTracks.c
  • lines changed 1, context: html, text, full: html, text
    571bacac014f02089172161bf5010d5277346bc8 Tue Feb 25 09:00:18 2020 -0800
    Updating legend for pli track after feedback from Lou, refs #20394
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    470118f67c83cf4ae379c805fe29c3f1d7146790 Thu Feb 27 14:55:15 2020 -0800
    don't add hidden collection multiwigs to list of tracks to display refs #25050
• src/hg/htdocs/goldenPath/help/bam.html
  • lines changed 16, context: html, text, full: html, text
    b4354dab1ce9929f4cd6b81628b545a3b0bd9840 Wed Feb 26 14:43:22 2020 -0800
    Adding note about bigDataIndex keyword #25018
• src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html
  • lines changed 8, context: html, text, full: html, text
    b4354dab1ce9929f4cd6b81628b545a3b0bd9840 Wed Feb 26 14:43:22 2020 -0800
    Adding note about bigDataIndex keyword #25018
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html
  • lines changed 2, context: html, text, full: html, text
    6f591f2833055f38a007456202980ea337a3ed98 Mon Feb 24 13:44:21 2020 -0800
    Updating docs on statement-value requirements for filters refs #25007
• src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v2.html
  • lines changed 2, context: html, text, full: html, text
    379f7570898396bfb48f6d4aa734fa8bba62f8f1 Mon Feb 24 13:35:34 2020 -0800
    Updating docs to reflect all filters needed to be statement-value pairs refs #25007
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 20, context: html, text, full: html, text
    379f7570898396bfb48f6d4aa734fa8bba62f8f1 Mon Feb 24 13:35:34 2020 -0800
    Updating docs to reflect all filters needed to be statement-value pairs refs #25007
  • lines changed 2, context: html, text, full: html, text
    8b33246855916a8eb06b17f57da0b45e693392e1 Mon Feb 24 13:39:50 2020 -0800
    Fixing two small typos from previous commit refs #25007
• src/hg/htdocs/goldenPath/help/vcf.html
  • lines changed 7, context: html, text, full: html, text
    b4354dab1ce9929f4cd6b81628b545a3b0bd9840 Wed Feb 26 14:43:22 2020 -0800
    Adding note about bigDataIndex keyword #25018
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 32, context: html, text, full: html, text
    72411c72feeb19cb6a06bab7089900c49119456d Wed Feb 26 11:33:47 2020 -0800
    News release for RefSeq Select + MANE track refs #24787
• src/hg/htdocs/images/SARS-CoV-2.jpg
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    cb8b1cfc8d9435469febb08526e21d7c8b491a83 Fri Feb 28 11:55:47 2020 -0800
    rename virus from 2019-nCoV to SARS-CoV-2, coronavirus viron schematic from Belouzard, et al. Viruses. 2012 Jun; 4(6): 1011-1033 refs #24851
• src/hg/htdocs/images/pLIscoreLegend.png
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    3fd136d23d88d68a62b0e7d6947acefa46806eb0 Tue Feb 25 11:11:38 2020 -0800
    Adding pLI score legend for gnomAD track refs #20394
• src/hg/htdocs/images/phylo/danRer10_12way.png
  • lines changed 0, context: html, text, full: html, text
    23c7550f40be611c0550a0db47d11175289d5988 Wed Feb 26 12:49:28 2020 -0800
    12-way alignment on danRer10 no redmine
• src/hg/htdocs/images/validateHub.png
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    0f2401e7effe3d235df471f382f4698a37ab95bb Mon Feb 24 11:09:13 2020 -0800
    Updating image for Validate hubs doc CR refs #25025
• src/hg/htdocs/indexNews.html
  • lines changed 12, context: html, text, full: html, text
    72411c72feeb19cb6a06bab7089900c49119456d Wed Feb 26 11:33:47 2020 -0800
    News release for RefSeq Select + MANE track refs #24787
• src/hg/inc/chromAlias.h
  • lines changed 7, context: html, text, full: html, text
    d12a52edb9b3841adcfe42fc25b361e59654ef11 Fri Feb 28 15:59:19 2020 -0800
    Better accounting for chromosome aliases in .hic files, refs #25055
• src/hg/js/dbDbTaxonomy.js
  • lines changed 1, context: html, text, full: html, text
    5d3e45aae48628dc114533005c7b1eb3b9d6cd41 Fri Feb 28 11:50:39 2020 -0800
    rename Wuhan market virus to SARS-CoV-2 refs #24851
• src/hg/js/hgTracks.js
  • lines changed 5, context: html, text, full: html, text
    416f074a17bb23e7f531b7843e27517969e8f010 Mon Feb 24 11:32:01 2020 -0800
    hgTracks should save cart settings before going to hgTrackUi, refs #22359
• src/hg/lib/cart.c
  • lines changed 7, context: html, text, full: html, text
    454a750c0c78b006d14683d35f7314fe4524a0b9 Fri Feb 21 10:18:44 2020 -0800
    cartEarlyWarningHandler needs to set Content-Type if cartAndCookieWithHtml did not set it. refs #25003
• src/hg/lib/cartTrackDb.c
  • lines changed 19, context: html, text, full: html, text
    dd7bcd673c6cebe1517e6ab04bddc180d751cc4a Fri Feb 21 14:38:09 2020 -0800
    cartTrackDbTablesForTrack was applying all.joiner to composite parent track (fruitless) - apply to subtrack tables. refs #25015
  • lines changed 35, context: html, text, full: html, text
    f87fbb580a1a393a2b5c8688780b972e3bb672df Fri Feb 21 15:06:56 2020 -0800
    Instead of warn() about invalid group, which messes up output of hgTables & hgIntegrator, fix group and fprintf(stderr). refs #25003, #25016
• src/hg/lib/chromAlias.c
  • lines changed 27, context: html, text, full: html, text
    d12a52edb9b3841adcfe42fc25b361e59654ef11 Fri Feb 28 15:59:19 2020 -0800
    Better accounting for chromosome aliases in .hic files, refs #25055
• src/hg/lib/customFactory.c
  • lines changed 35, context: html, text, full: html, text
    f043c937a34269023b71d7a89b7ff25103e6c125 Mon Feb 24 15:35:59 2020 -0800
    Check user custom track group setting instead of allowing any string. Don't silently drop warnings. refs #25003, #25016
• src/hg/lib/customTrack.c
  • lines changed 2, context: html, text, full: html, text
    f043c937a34269023b71d7a89b7ff25103e6c125 Mon Feb 24 15:35:59 2020 -0800
    Check user custom track group setting instead of allowing any string. Don't silently drop warnings. refs #25003, #25016
• src/hg/lib/hic.c
  • lines changed 60, context: html, text, full: html, text
    d12a52edb9b3841adcfe42fc25b361e59654ef11 Fri Feb 28 15:59:19 2020 -0800
    Better accounting for chromosome aliases in .hic files, refs #25055
• src/hg/makeDb/doc/asmHubs/asmHubs.mk
  • lines changed 4, context: html, text, full: html, text
    d3219932529dacd180646575f4892e8a32ba2601 Mon Feb 24 10:16:46 2020 -0800
    adding trackData page construction refs #23891
• src/hg/makeDb/doc/asmHubs/trackData.pl
  • lines changed 360, context: html, text, full: html, text
    d3219932529dacd180646575f4892e8a32ba2601 Mon Feb 24 10:16:46 2020 -0800
    adding trackData page construction refs #23891
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    32bd9b7bea2ca6154383f124a803fdd6ad04c77b Sat Feb 29 16:41:43 2020 -0800
    add allGaps column and use featureBits result when present and zero when track is empty refs #23891
• src/hg/makeDb/doc/hg19.addChrMT.txt
  • lines changed 14, context: html, text, full: html, text
    557555a3b5289cbb7d7c75c5b4ab423bfe35fc1c Mon Feb 24 16:35:45 2020 -0800
    Build hg19.altsAndFixes.p13.plusMT (and document the /hive/data/genomes/$db/altsAndFixes symlink). refs #24648
• src/hg/makeDb/doc/hg19.patchUpdate.13.txt
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    557555a3b5289cbb7d7c75c5b4ab423bfe35fc1c Mon Feb 24 16:35:45 2020 -0800
    Build hg19.altsAndFixes.p13.plusMT (and document the /hive/data/genomes/$db/altsAndFixes symlink). refs #24648
• src/hg/makeDb/doc/hg38/patchUpdate.12.txt
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    557555a3b5289cbb7d7c75c5b4ab423bfe35fc1c Mon Feb 24 16:35:45 2020 -0800
    Build hg19.altsAndFixes.p13.plusMT (and document the /hive/data/genomes/$db/altsAndFixes symlink). refs #24648
• src/hg/makeDb/gnomad/aaToGenomic.py
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    a97fcdb7a465526580818e99cba107559e7e3b8d Mon Feb 24 12:57:49 2020 -0800
    Changing up colors of items in pli and missense track after feedback from QA, refs #20394
• src/hg/makeDb/gnomad/combine.awk
  • lines changed 1, context: html, text, full: html, text
    a97fcdb7a465526580818e99cba107559e7e3b8d Mon Feb 24 12:57:49 2020 -0800
    Changing up colors of items in pli and missense track after feedback from QA, refs #20394
• src/hg/makeDb/trackDb/contrastGene.html
  • lines changed 1, context: html, text, full: html, text
    fc524ed53987a5a3f5a2057fc99d2de751a7f132 Tue Feb 25 16:03:47 2020 -0800
    Updating redirected links found for dm3, uiLinks cronjob.
• src/hg/makeDb/trackDb/drosophila/dm3/bacEndPairs.html
  • lines changed 6, context: html, text, full: html, text
    fc524ed53987a5a3f5a2057fc99d2de751a7f132 Tue Feb 25 16:03:47 2020 -0800
    Updating redirected links found for dm3, uiLinks cronjob.
• src/hg/makeDb/trackDb/drosophila/dm3/multiz15way.html
  • lines changed 1, context: html, text, full: html, text
    fc524ed53987a5a3f5a2057fc99d2de751a7f132 Tue Feb 25 16:03:47 2020 -0800
    Updating redirected links found for dm3, uiLinks cronjob.
• src/hg/makeDb/trackDb/drosophila/dm3/pscreen.html
  • lines changed 2, context: html, text, full: html, text
    fc524ed53987a5a3f5a2057fc99d2de751a7f132 Tue Feb 25 16:03:47 2020 -0800
    Updating redirected links found for dm3, uiLinks cronjob.
• src/hg/makeDb/trackDb/drosophila/dm6/description.html
  • lines changed 2, context: html, text, full: html, text
    b8bb6537cf1929d51b4e92cdbf43042440af1ac2 Wed Feb 26 16:31:52 2020 -0800
    Adding link to the Alliance of Genome Resources requested in Suggestion Box refs #25009
• src/hg/makeDb/trackDb/ensGene.html
  • lines changed 16, context: html, text, full: html, text
    fa3dd1f60d1193c09588b1b1619c21d2c6330d95 Fri Feb 28 14:46:12 2020 -0800
    Adding/ editing GTF data access sections #24928
• src/hg/makeDb/trackDb/human/dbSnp153Composite.html
  • lines changed 10, context: html, text, full: html, text
    c4107b587391b4757477c10fb6cb0df022d854fb Wed Feb 26 14:05:10 2020 -0800
    put color information for SNPs in color to catch the eye
• src/hg/makeDb/trackDb/human/hg19/gnomadPLI.html
  • lines changed 4, context: html, text, full: html, text
    aab0256eac6898e9395ea726bc93a9e5389506e6 Tue Feb 25 11:29:53 2020 -0800
    Adding pLI legend to track description page and fixing color mentions refs #20394
• src/hg/makeDb/trackDb/human/hg19/knownGene.html
  • lines changed 15, context: html, text, full: html, text
    78b0e11aa5e2cb23c194eda9a34e192bbc022e98 Thu Feb 27 16:38:07 2020 -0800
    Adding Data Access section including GTFs to kg and Gencode #24928
  • lines changed 5, context: html, text, full: html, text
    fa3dd1f60d1193c09588b1b1619c21d2c6330d95 Fri Feb 28 14:46:12 2020 -0800
    Adding/ editing GTF data access sections #24928
• src/hg/makeDb/trackDb/human/hg19/refSeqComposite.html
  • lines changed 282, context: html, text, full: html, text
    df10f4fa3878798c48f892fd54618befcf2ebc5c Fri Feb 28 11:55:51 2020 -0800
    Moving the ncbiRefSeq Select track stanza to hg19/hg38 levels in order to change the short/longLabel for hg19, as well as the description page, in response to a message from NCBI. See RM23787 for more info refs #24787
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    57a5915247eac40cd7f68ce91a138bc0e7342b58 Fri Feb 28 14:20:09 2020 -0800
    Removing some additional mentions of MANE as requested refs #24787
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 15, context: html, text, full: html, text
    df10f4fa3878798c48f892fd54618befcf2ebc5c Fri Feb 28 11:55:51 2020 -0800
    Moving the ncbiRefSeq Select track stanza to hg19/hg38 levels in order to change the short/longLabel for hg19, as well as the description page, in response to a message from NCBI. See RM23787 for more info refs #24787
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeSuper.html
  • lines changed 15, context: html, text, full: html, text
    78b0e11aa5e2cb23c194eda9a34e192bbc022e98 Thu Feb 27 16:38:07 2020 -0800
    Adding Data Access section including GTFs to kg and Gencode #24928
  • lines changed 4, context: html, text, full: html, text
    fa3dd1f60d1193c09588b1b1619c21d2c6330d95 Fri Feb 28 14:46:12 2020 -0800
    Adding/ editing GTF data access sections #24928
• src/hg/makeDb/trackDb/human/hg38/knownGene.html
  • lines changed 8, context: html, text, full: html, text
    78b0e11aa5e2cb23c194eda9a34e192bbc022e98 Thu Feb 27 16:38:07 2020 -0800
    Adding Data Access section including GTFs to kg and Gencode #24928
  • lines changed 4, context: html, text, full: html, text
    fa3dd1f60d1193c09588b1b1619c21d2c6330d95 Fri Feb 28 14:46:12 2020 -0800
    Adding/ editing GTF data access sections #24928
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
  • lines changed 14, context: html, text, full: html, text
    df10f4fa3878798c48f892fd54618befcf2ebc5c Fri Feb 28 11:55:51 2020 -0800
    Moving the ncbiRefSeq Select track stanza to hg19/hg38 levels in order to change the short/longLabel for hg19, as well as the description page, in response to a message from NCBI. See RM23787 for more info refs #24787
• src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeSuper.html
  • lines changed 15, context: html, text, full: html, text
    78b0e11aa5e2cb23c194eda9a34e192bbc022e98 Thu Feb 27 16:38:07 2020 -0800
    Adding Data Access section including GTFs to kg and Gencode #24928
  • lines changed 3, context: html, text, full: html, text
    fa3dd1f60d1193c09588b1b1619c21d2c6330d95 Fri Feb 28 14:46:12 2020 -0800
    Adding/ editing GTF data access sections #24928
• src/hg/makeDb/trackDb/mouse/mm10/description.html
  • lines changed 2, context: html, text, full: html, text
    b8bb6537cf1929d51b4e92cdbf43042440af1ac2 Wed Feb 26 16:31:52 2020 -0800
    Adding link to the Alliance of Genome Resources requested in Suggestion Box refs #25009
• src/hg/makeDb/trackDb/rat/rn6/description.html
  • lines changed 2, context: html, text, full: html, text
    b8bb6537cf1929d51b4e92cdbf43042440af1ac2 Wed Feb 26 16:31:52 2020 -0800
    Adding link to the Alliance of Genome Resources requested in Suggestion Box refs #25009
• src/hg/makeDb/trackDb/refSeqComposite.html
  • lines changed 13, context: html, text, full: html, text
    df8c8dcd64bc7d71f9711df629b6d0178d6fa26f Tue Feb 25 13:33:12 2020 -0800
    trying to reduce the confusion in docs between refseq select and MANE, refs #24787
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    a09ed9674ba592c546dd669074801c020f9f0884 Wed Feb 26 06:12:34 2020 -0800
    forgot db arg in link, refs #24787
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    202747ec0531c9c8c6eab66377bd6bc84e1a1b57 Wed Feb 26 11:29:49 2020 -0800
    Touching up RefSeq composite page to clarify new RefSeq Select track refs #24787
• src/hg/makeDb/trackDb/refSeqComposite.ra
  • lines changed 2, context: html, text, full: html, text
    5ab10e92b5562e3d3c4de51f3e288e19ddf585e2 Tue Feb 25 12:54:30 2020 -0800
    Updating pennantIcon for refSeq Select release refs #24787
  • lines changed 33, context: html, text, full: html, text
    df8c8dcd64bc7d71f9711df629b6d0178d6fa26f Tue Feb 25 13:33:12 2020 -0800
    trying to reduce the confusion in docs between refseq select and MANE, refs #24787
  • lines changed 12, context: html, text, full: html, text
    df10f4fa3878798c48f892fd54618befcf2ebc5c Fri Feb 28 11:55:51 2020 -0800
    Moving the ncbiRefSeq Select track stanza to hg19/hg38 levels in order to change the short/longLabel for hg19, as well as the description page, in response to a message from NCBI. See RM23787 for more info refs #24787
• src/hg/makeDb/trackDb/sacCer/sacCer3/description.html
  • lines changed 4, context: html, text, full: html, text
    b8bb6537cf1929d51b4e92cdbf43042440af1ac2 Wed Feb 26 16:31:52 2020 -0800
    Adding link to the Alliance of Genome Resources requested in Suggestion Box refs #25009
• src/hg/makeDb/trackDb/virus/wuhCor1/description.html
  • lines changed 5, context: html, text, full: html, text
    97cb1f031c965fa01185ce3873c6f856e971c141 Fri Feb 28 11:54:18 2020 -0800
    rename virus from 2019-nCoV to SARS-CoV-2 refs #24851
• src/hg/makeDb/trackDb/worm/ce11/description.html
  • lines changed 2, context: html, text, full: html, text
    b8bb6537cf1929d51b4e92cdbf43042440af1ac2 Wed Feb 26 16:31:52 2020 -0800
    Adding link to the Alliance of Genome Resources requested in Suggestion Box refs #25009
• src/hg/makeDb/trackDb/zebrafish/danRer11/description.html
  • lines changed 2, context: html, text, full: html, text
    b8bb6537cf1929d51b4e92cdbf43042440af1ac2 Wed Feb 26 16:31:52 2020 -0800
    Adding link to the Alliance of Genome Resources requested in Suggestion Box refs #25009
• src/hg/ratStuff/makefile
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    1f25d65e6ccdcb32997ddb28ced16207113e0ac3 Mon Mar 2 07:53:12 2020 -0800
    mafRc is not suitable for a userApp delivery no redmine
• src/hg/utils/automation/asmHubGatewayPage.pl
  • lines changed 12, context: html, text, full: html, text
    186ce9edc8f61d7ad4c8b2e86437a81e29d77ccd Wed Feb 26 14:41:28 2020 -0800
    correctly locate buildDIr with accessionId vs asmId refs #23891
• src/hg/utils/automation/asmHubTrackDb.sh
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    81edac3824e0dd89d6cd13e1d668011cd3695ea0 Wed Feb 26 14:44:12 2020 -0800
    begining to function OK for assembly hubs refs #24963
• src/hg/utils/automation/doAssemblyHub.pl
  • lines changed 56, context: html, text, full: html, text
    66a4bb8eccef8184fe80dbeb638c99f2dcbda169 Wed Feb 26 14:53:01 2020 -0800
    better detection if steps need to be done or have been done or are currently running refs #23891
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    2aa890be7b759af7095a891fa999cb27a63bf5a2 Fri Feb 28 15:32:32 2020 -0800
    better detection if step already done and need to fixup spaces in gene names from NCBI refs #23891
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    97199fbf1ff56c9ee01956deb736b97244ea3ac6 Sun Mar 1 21:52:28 2020 -0800
    calculating featureBits like measurement for gene tracks, removing duplicates for ncbiRefSeq, remove blanks from gene names for ncbiRefSeq, and fix fundamental bug reference to geneToId in ncbiRefSeqOtherAttrs.pl refs #23891
• src/hg/utils/automation/doAugustus.pl
  • lines changed 7, context: html, text, full: html, text
    97199fbf1ff56c9ee01956deb736b97244ea3ac6 Sun Mar 1 21:52:28 2020 -0800
    calculating featureBits like measurement for gene tracks, removing duplicates for ncbiRefSeq, remove blanks from gene names for ncbiRefSeq, and fix fundamental bug reference to geneToId in ncbiRefSeqOtherAttrs.pl refs #23891
• src/hg/utils/automation/doEnsGeneUpdate.pl
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    b63f95d2cb4f728858cb3d63f68e70a234db6db4 Wed Feb 26 14:43:13 2020 -0800
    begining to function OK for assembly hubs refs #24963
• src/hg/utils/automation/doNcbiRefSeq.pl
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    2aa890be7b759af7095a891fa999cb27a63bf5a2 Fri Feb 28 15:32:32 2020 -0800
    better detection if step already done and need to fixup spaces in gene names from NCBI refs #23891
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    97199fbf1ff56c9ee01956deb736b97244ea3ac6 Sun Mar 1 21:52:28 2020 -0800
    calculating featureBits like measurement for gene tracks, removing duplicates for ncbiRefSeq, remove blanks from gene names for ncbiRefSeq, and fix fundamental bug reference to geneToId in ncbiRefSeqOtherAttrs.pl refs #23891
• src/hg/utils/automation/doXenoRefGene.pl
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    97199fbf1ff56c9ee01956deb736b97244ea3ac6 Sun Mar 1 21:52:28 2020 -0800
    calculating featureBits like measurement for gene tracks, removing duplicates for ncbiRefSeq, remove blanks from gene names for ncbiRefSeq, and fix fundamental bug reference to geneToId in ncbiRefSeqOtherAttrs.pl refs #23891
• src/hg/utils/automation/makefile
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    75778c0fae9df5a460b36ab20cfafd639574534d Wed Feb 26 14:45:15 2020 -0800
    need to deliver kmer functions for doTandenDups script refs #23891
• src/hg/utils/automation/ncbiRefSeqOtherAttrs.pl
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    97199fbf1ff56c9ee01956deb736b97244ea3ac6 Sun Mar 1 21:52:28 2020 -0800
    calculating featureBits like measurement for gene tracks, removing duplicates for ncbiRefSeq, remove blanks from gene names for ncbiRefSeq, and fix fundamental bug reference to geneToId in ncbiRefSeqOtherAttrs.pl refs #23891
• src/hg/utils/bedPartition/bedPartition.c
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    f22eadf651576744dfe9610b363bcd1a8161334c Mon Mar 2 08:58:53 2020 -0800
    correct one line header in usage message no redmine
• src/utils/bedJoinTabOffset/bedJoinTabOffset.c
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    6f796d7565a982f9b94cd3a0632aacc0c6abc3e1 Mon Mar 2 08:53:52 2020 -0800
    correct one line header to usage message no redmine
• src/utils/qa/weeklybld/buildEnv.csh
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    2873f15d63152f2cff038db275c813569dc9845e Mon Mar 2 10:05:04 2020 -0800
    v395 preview2, refs #25041

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• files changed: 91