All File Changes

v405_preview to v405_preview2 (2020-09-21 to 2020-09-28) v405

• src/hg/hgTracks/hgTracks.c
  • lines changed 15, context: html, text, full: html, text
    9ca89f9ff4facb407acfd0a8e970472a45be29a0 Tue Sep 22 11:48:06 2020 -0700
    adding chrom.sizes as download file for hgTracks sequences in assembly hubs refs #24396
• src/hg/hgTracks/vcfTrack.c
  • lines changed 107, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
• src/hg/hgc/vcfClick.c
  • lines changed 33, context: html, text, full: html, text
    a3e03473bbde188141b61d0c3db48c85d2ec6aa3 Tue Sep 22 17:38:13 2020 -0700
    Basic vcf to bed converter, with a -fields argument for what VCF INFO tags to include in the bigBed itself, refs #25010
• src/hg/htdocs/covid19.html
  • lines changed 16, context: html, text, full: html, text
    ee8c009611ab4aa8076b43754983e6b46cd85b9f Tue Sep 22 10:22:15 2020 -0700
    Update COVID landing page to make Nature Genetics manuscript more visible. refs #25217
  • lines changed 27, context: html, text, full: html, text
    697cd77a0d73699bc7326ed78c2679b759c910ae Wed Sep 23 16:34:43 2020 -0700
    Add Max's intro about viral phylogenomics. And mention human browser COVID-related tracks (COVID-19 GWAS). refs #25217
  • lines changed 17, context: html, text, full: html, text
    94b6137388725543913544bca8147518a9c3444f Thu Sep 24 15:57:30 2020 -0700
    Ana and Max contributions merged in. refs #25217
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html
  • lines changed 4, context: html, text, full: html, text
    d31eb51438b48d3d976b1e58af1ddf943dacc9e2 Tue Sep 22 14:22:22 2020 -0700
    polishing up bigLolly text. Still needs examples.
• src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v2.html
  • lines changed 4, context: html, text, full: html, text
    d31eb51438b48d3d976b1e58af1ddf943dacc9e2 Tue Sep 22 14:22:22 2020 -0700
    polishing up bigLolly text. Still needs examples.
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 5, context: html, text, full: html, text
    d31eb51438b48d3d976b1e58af1ddf943dacc9e2 Tue Sep 22 14:22:22 2020 -0700
    polishing up bigLolly text. Still needs examples.
• src/hg/htdocs/goldenPath/help/vcf.html
  • lines changed 20, context: html, text, full: html, text
    a941de9925864ae6f9f3ee113354f4ef9bf9e123 Thu Sep 24 17:24:27 2020 -0700
    Fixing doc up for refs #26076
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 39, context: html, text, full: html, text
    01befcfd5b461b535ed1a7616a40264e365ec8ce Wed Sep 23 17:45:01 2020 -0700
    Committing news announcements for COVID GWAS and Trios #26129
  • lines changed 47, context: html, text, full: html, text
    a63f1ceba1c9349722814de6b6c6f1f326f0f93f Thu Sep 24 18:21:36 2020 -0700
    Adding announce for COVID GWAS and Trios, Removing 404 link refs #26129 26076
  • lines changed 19, context: html, text, full: html, text
    40f61eea47cc8f5e458bda156f5f48de4c28b08e Fri Sep 25 10:19:12 2020 -0700
    Updating newsarch for refs #26129
  • lines changed 1, context: html, text, full: html, text
    ed2e1668f324b428f364e01e71a49f5f0c6dde73 Fri Sep 25 16:52:03 2020 -0700
    Adding date No RM
• src/hg/htdocs/images/CovidGWAS.png
  • lines changed 0, context: html, text, full: html, text
    dab2b45057d52cbc24324052ac603f2a50acc0da Thu Sep 24 18:00:28 2020 -0700
    Commiting image for announcement refs #26129
• src/hg/htdocs/indexNews.html
  • lines changed 14, context: html, text, full: html, text
    01befcfd5b461b535ed1a7616a40264e365ec8ce Wed Sep 23 17:45:01 2020 -0700
    Committing news announcements for COVID GWAS and Trios #26129
• src/hg/htdocs/style/HGStyle.css
  • lines changed 4, context: html, text, full: html, text
    83e1af42189c325480a763bfa025a7039ac0a418 Fri Sep 25 02:01:06 2020 -0700
    minor aesthetic tweak to hui.c after core review, refs #26242
• src/hg/inc/trackHub.h
  • lines changed 8, context: html, text, full: html, text
    ea3c06ec82f3f1df48c529c77d2667ead355edf3 Tue Sep 22 11:51:11 2020 -0700
    adding chrom.sizes as download file for hgTracks sequences in assembly hubs refs #24396
• src/hg/inc/vcfUi.h
  • lines changed 2, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
• src/hg/lib/cart.c
  • lines changed 15, context: html, text, full: html, text
    8bf48e3933789ba104547de42044a949ba7ba796 Mon Sep 21 16:56:02 2020 -0700
    allow HTML in early warn handlers
• src/hg/lib/googleAnalytics.c
  • lines changed 2, context: html, text, full: html, text
    4a7d9d3577950a71f85b84dba4db95f05fbc5b05 Mon Sep 21 12:18:01 2020 -0700
    and another bugfix for link tracking, refs #21916
  • lines changed 4, context: html, text, full: html, text
    5c5f18aa318868fbf10a027e458b62db2d5715a0 Mon Sep 21 15:22:12 2020 -0700
    and yet another bugfix for link tracking, refs #21916
  • lines changed 12, context: html, text, full: html, text
    adb8dd2449d4ce58327aabeb09d3b143201ad6f3 Tue Sep 22 03:09:08 2020 -0700
    sending event with current db to google analytics, for yearly NIH report, refs #21916,
  • lines changed 3, context: html, text, full: html, text
    4842d6b65f5d24617ee05ed73cfba4760ae56d9a Tue Sep 22 03:35:14 2020 -0700
    handle ad-blockers in outbound link tracking, refs #21916,
• src/hg/lib/hdb.c
  • lines changed 28, context: html, text, full: html, text
    f619ad52904568bd108d65e34d2e10cb381f439e Mon Sep 21 14:04:09 2020 -0700
    now recognizing assembly hub chromAlias file to allow bed type custom tracks with other names refs #24396
• src/hg/lib/hubConnect.c
  • lines changed 5, context: html, text, full: html, text
    1fa73a25ef37e37286c5b86e810c684efbef6e9b Tue Sep 22 15:22:40 2020 -0700
    Improving the message when a collection is removed by the trash cleaners, refs #26075
• src/hg/lib/hui.c
  • lines changed 2, context: html, text, full: html, text
    83e1af42189c325480a763bfa025a7039ac0a418 Fri Sep 25 02:01:06 2020 -0700
    minor aesthetic tweak to hui.c after core review, refs #26242
• src/hg/lib/trackHub.c
  • lines changed 19, context: html, text, full: html, text
    f619ad52904568bd108d65e34d2e10cb381f439e Mon Sep 21 14:04:09 2020 -0700
    now recognizing assembly hub chromAlias file to allow bed type custom tracks with other names refs #24396
  • lines changed 28, context: html, text, full: html, text
    9ca89f9ff4facb407acfd0a8e970472a45be29a0 Tue Sep 22 11:48:06 2020 -0700
    adding chrom.sizes as download file for hgTracks sequences in assembly hubs refs #24396
• src/hg/lib/vcfUi.c
  • lines changed 47, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
• src/hg/makeDb/doc/birdsAsmHub/birds.orderList.tsv
  • lines changed 65, context: html, text, full: html, text
    cbde4b68d111496a694ee94430b6d64511d620e7 Fri Sep 25 12:45:04 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/birdsAsmHub/makefile
  • lines changed 19, context: html, text, full: html, text
    cbde4b68d111496a694ee94430b6d64511d620e7 Fri Sep 25 12:45:04 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/fishAsmHub/fish.orderList.tsv
  • lines changed 76, context: html, text, full: html, text
    cbde4b68d111496a694ee94430b6d64511d620e7 Fri Sep 25 12:45:04 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/fishAsmHub/makefile
  • lines changed 19, context: html, text, full: html, text
    cbde4b68d111496a694ee94430b6d64511d620e7 Fri Sep 25 12:45:04 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/primatesAsmHub/makefile
  • lines changed 20, context: html, text, full: html, text
    c11977132896e151af8ce9254baa6d5b130e9b40 Fri Sep 25 11:16:33 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/primatesAsmHub/primates.orderList.tsv
  • lines changed 22, context: html, text, full: html, text
    c11977132896e151af8ce9254baa6d5b130e9b40 Fri Sep 25 11:16:33 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/ucscGenes/hg38.gencodeV35.sh
  • lines changed 145, context: html, text, full: html, text
    9f870fc604395b879ccf923b6f1c0a5f291c55ad Mon Sep 21 16:06:44 2020 -0700
    blastDb's for Gencode V35
• src/hg/makeDb/doc/vertebrateAsmHub/makefile
  • lines changed 18, context: html, text, full: html, text
    cbde4b68d111496a694ee94430b6d64511d620e7 Fri Sep 25 12:45:04 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/vertebrateAsmHub/vertebrate.orderList.tsv
  • lines changed 26, context: html, text, full: html, text
    cbde4b68d111496a694ee94430b6d64511d620e7 Fri Sep 25 12:45:04 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/vgpAsmHub/makefile
  • lines changed 1, context: html, text, full: html, text
    cbde4b68d111496a694ee94430b6d64511d620e7 Fri Sep 25 12:45:04 2020 -0700
    update to new make system refs #23891
• src/hg/makeDb/doc/wuhCor1/cladeLineageColors.pl
  • lines changed 122, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
• src/hg/makeDb/doc/wuhCor1/gisaidCladeColors.pl
  • lines changed 29, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
• src/hg/makeDb/doc/wuhCor1/phylogenetics.txt
  • lines changed 34, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
• src/hg/makeDb/trackDb/human/covidHgiGwas.ra
  • lines changed 1, context: html, text, full: html, text
    7bec90dd6413db62d281cc6140c706315a6fb631 Fri Sep 25 14:25:37 2020 -0700
    Pennant icon #26129 #26076
• src/hg/makeDb/trackDb/human/dbVarCommon.html
  • lines changed 12, context: html, text, full: html, text
    40710f848501eb48692babdc889a513f3dcda7ef Fri Sep 25 09:01:51 2020 -0700
    improved color code descriptions refs #25424
• src/hg/makeDb/trackDb/human/dbVarConflict.html
  • lines changed 13, context: html, text, full: html, text
    40710f848501eb48692babdc889a513f3dcda7ef Fri Sep 25 09:01:51 2020 -0700
    improved color code descriptions refs #25424
• src/hg/makeDb/trackDb/human/hg38/gencodeV35.html
  • lines changed 58, context: html, text, full: html, text
    4b43a760f732176ce6464372d7db286a1ddf8e79 Tue Sep 22 08:40:24 2020 -0700
    more accurate, but still meager description page for gencodeV35
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    7bec90dd6413db62d281cc6140c706315a6fb631 Fri Sep 25 14:25:37 2020 -0700
    Pennant icon #26129 #26076
• src/hg/makeDb/trackDb/human/iscaComposite.html
  • lines changed 11, context: html, text, full: html, text
    c75996df45abe3b4532699165995f05ed6d58654 Tue Sep 22 09:43:44 2020 -0700
    Adding a message to clinGen desc page indicating deprecation, and data is now in clinVar track refs #24818
• src/hg/makeDb/trackDb/human/trackDb.clinGen.ra
  • lines changed 1, context: html, text, full: html, text
    96491e1654afc074370e6083eed396296953724e Mon Sep 21 10:01:29 2020 -0700
    Hiding clinGen composite by default refs #24818
  • lines changed 1, context: html, text, full: html, text
    83077bd03336bc37132962d741d69bff0f5a741d Fri Sep 25 01:57:36 2020 -0700
    changed long track name refs #24818
• src/hg/makeDb/trackDb/human/trackDb.clinvar.ra
  • lines changed 1, context: html, text, full: html, text
    170a1149f8e308c7bbc16f41ad0d6aa76ec44c5e Thu Sep 24 16:25:55 2020 -0700
    Clarifying longLabel refs #24850
• src/hg/makeDb/trackDb/human/trackDb.dbVar.ra
  • lines changed 1, context: html, text, full: html, text
    af6381df096fc3301bcd266e3724716c4d713227 Wed Sep 23 03:23:50 2020 -0700
    changed track short name refs #25424
• src/hg/makeDb/trackDb/human/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    1de32ba4feb7869e8008089c265e22cd2306fbb0 Tue Sep 22 10:26:55 2020 -0700
    Silent release of new clinGen composite refs #24818
  • lines changed 42, context: html, text, full: html, text
    00dbf34a4ecca1b801d643ff6baecca5737cd581 Tue Sep 22 15:31:34 2020 -0700
    Pushing COVID GWAS and LOVD tracks refs 25841, 26129
  • lines changed 2, context: html, text, full: html, text
    d7258f3b93b43cac09ac69d4cf04aae663edf00a Tue Sep 22 16:12:09 2020 -0700
    Fixing typo in decipherSnvs stanza
• src/hg/makeDb/trackDb/mouse/mm39/xenoRefGene.html
  • lines changed 1, context: html, text, full: html, text
    1814cfe8a47d914476409512a3c77c02595dcbe0 Fri Sep 25 16:52:15 2020 -0700
    Moving the <br> tag at the end of the sentence, refs #22271
  • lines changed 2, context: html, text, full: html, text
    f3236b08e54d2a7249a2fa80cd7db0ef55e2e437 Fri Sep 25 17:11:12 2020 -0700
    Adding line breaks so the command can be copy/pasted into a terminal, refs #22271
• src/hg/makeDb/trackDb/mouse/mm39/xenoRefGene.ra
  • lines changed 1, context: html, text, full: html, text
    94458a5af2a75d20cd88e8fdaaee78e39f7c3de4 Fri Sep 25 15:45:04 2020 -0700
    Moving the RefSeq mRNAs to the beginning of the mRNAs group since it is on by default, refs #22271
• src/hg/makeDb/trackDb/tagTypes.tab
  • lines changed 1, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
• src/hg/makeDb/trackDb/virus/wuhCor1/Starr_Bloom.html
  • lines changed 29, context: html, text, full: html, text
    2a7110e9f3930e479b9236213d18386017c21994 Thu Sep 24 08:19:50 2020 -0700
    fixing up Bloom RBD wuhCor1 tracks for release, refs #26201
• src/hg/makeDb/trackDb/virus/wuhCor1/Starr_Bloom_antibody.html
  • lines changed 16, context: html, text, full: html, text
    2a7110e9f3930e479b9236213d18386017c21994 Thu Sep 24 08:19:50 2020 -0700
    fixing up Bloom RBD wuhCor1 tracks for release, refs #26201
• src/hg/makeDb/trackDb/virus/wuhCor1/bloom.ra
  • lines changed 237, context: html, text, full: html, text
    2a7110e9f3930e479b9236213d18386017c21994 Thu Sep 24 08:19:50 2020 -0700
    fixing up Bloom RBD wuhCor1 tracks for release, refs #26201
• src/hg/makeDb/trackDb/virus/wuhCor1/calu3_07hpi.html
  • lines changed 17, context: html, text, full: html, text
    d6e4fdf2657d6e5abd7f7002e21bf582cc5eb8d9 Mon Sep 28 08:15:38 2020 -0700
    adding Weizman ORFs track for wuhCor1, based on a public hub, refs #26216
• src/hg/makeDb/trackDb/virus/wuhCor1/description.html
  • lines changed 22, context: html, text, full: html, text
    5842216794056586132eb61b59621e9c90e0a8ff Tue Sep 22 10:47:46 2020 -0700
    Update to make SARS-Cov-2 manuscript in Nature Genetics more prominent. refs #25185
• src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    9174a163b341bfd2dd5c8fe84952265e74bef32a Sun Sep 27 23:50:14 2020 -0700
    Added setting sampleColorFile so one or more sample coloring schemes can be offered for the tree in VCF+tree tracks. refs #26177 TODO: document the new setting
  • lines changed 51, context: html, text, full: html, text
    c7f2c6b539326f2478279bc17bd5869dad414d47 Mon Sep 28 09:34:47 2020 -0700
    Make separate release beta,public and release alpha versions of sarsCov2Phylo so that the new trackDb setting sampleColorFile is used only in alpha. Release tags should be moved along with the files that the setting points to. Setting will be ignored on beta/RR until v405 is rolled out. refs #26177
• src/hg/makeDb/trackDb/virus/wuhCor1/vero6_05hpi.html
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    d6e4fdf2657d6e5abd7f7002e21bf582cc5eb8d9 Mon Sep 28 08:15:38 2020 -0700
    adding Weizman ORFs track for wuhCor1, based on a public hub, refs #26216
• src/hg/makeDb/trackDb/virus/wuhCor1/vero6_24hpi.html
  • lines changed 19, context: html, text, full: html, text
    d6e4fdf2657d6e5abd7f7002e21bf582cc5eb8d9 Mon Sep 28 08:15:38 2020 -0700
    adding Weizman ORFs track for wuhCor1, based on a public hub, refs #26216
• src/hg/makeDb/trackDb/virus/wuhCor1/weizmanOrfs.html
  • lines changed 44, context: html, text, full: html, text
    d6e4fdf2657d6e5abd7f7002e21bf582cc5eb8d9 Mon Sep 28 08:15:38 2020 -0700
    adding Weizman ORFs track for wuhCor1, based on a public hub, refs #26216
• src/hg/makeDb/trackDb/virus/wuhCor1/weizmanOrfs.ra
  • lines changed 390, context: html, text, full: html, text
    d6e4fdf2657d6e5abd7f7002e21bf582cc5eb8d9 Mon Sep 28 08:15:38 2020 -0700
    adding Weizman ORFs track for wuhCor1, based on a public hub, refs #26216
• src/hg/pyLib/hgLib.py
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    5f5f13fd06770522984306094db7871be67aeb40 Tue Sep 22 14:25:50 2020 -0700
    fixing error in hgLib where a missing bottleneck server leads to a crash, no redmine yet, email from Braney
• src/hg/utils/automation/asmHubChromAlias.pl
  • lines changed 161, context: html, text, full: html, text
    c270fe6ea9ae2701f1d41dc3b4180ac511dff187 Mon Sep 21 14:55:35 2020 -0700
    initial script works only on araTha refs #24396
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    464d0311d4ec35f8ffe669e3ef75aa7f374ba926 Mon Sep 21 17:44:51 2020 -0700
    begin to work in the chromAlias construction to the assembly hubs refs #24396
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    46d4388aa7f2d939c4712d33053812d7ec1a7f97 Wed Sep 23 09:55:39 2020 -0700
    accomodate duplicate sequences refs #24396
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    b1852a4dd2bbc53c29c822f0d6a0e40d1af7a713 Wed Sep 23 10:11:32 2020 -0700
    accomodate duplicate sequences refs #24396
• src/hg/utils/automation/doAssemblyHub.pl
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    4f09e8ddd0fc70577eb8727e38a87896bfd57e84 Wed Sep 23 09:56:28 2020 -0700
    adding chromAlias build refs #24396
• src/hg/utils/faToVcf/faToVcf.c
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    0083ef3c88c18261d0cf52ec3259a1add58c9d8f Sun Sep 27 18:26:24 2020 -0700
    Added -noGenotypes option. Handle insertions in reference sequence. Don't count N bases in INFO column AN. refs MLQ #26227
• src/hg/utils/makefile
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    a06dd1caf5a2f7992de5994e8e816c3f3006d788 Mon Sep 28 09:18:45 2020 -0700
    Add faToVcf to userApps -- used in an MLQ answer & I plan to add it to Data Access section of SARS-CoV-2 Phylogeny. refs #26227
• src/hg/utils/otto/clinvar/clinVarToBed
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    962ca87bb38d9d7724188f943cdc7e3d760e90e5 Fri Sep 25 01:44:40 2020 -0700
    removing link to color doc after code review, refs #26242
• src/hg/utils/otto/dbVar/dbVarWrapper.sh
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    cdf38279ca376913f58c332cbaeca92f573fc9bd Tue Sep 22 11:26:51 2020 -0700
    Keep dbVar otto scripts up to date
• src/hg/utils/otto/dbVar/processNstd175.py
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    f0cd304218bd294a3630f6d12f42325d3c6472d5 Tue Sep 22 11:24:43 2020 -0700
    Fix genome in a bottle structural variants build script to not fail when a field is missing from input
• src/hg/utils/otto/lovd/lovd.long.as
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    2ecc3d06e54d325c3e45850738ddd44b19f79a23 Tue Sep 22 07:41:43 2020 -0700
    Fix lovd short and long table names in autoSql, refs build email
• src/hg/utils/otto/lovd/lovd.short.as
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    2ecc3d06e54d325c3e45850738ddd44b19f79a23 Tue Sep 22 07:41:43 2020 -0700
    Fix lovd short and long table names in autoSql, refs build email
• src/hg/utils/vcfToBed/makefile
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    a3e03473bbde188141b61d0c3db48c85d2ec6aa3 Tue Sep 22 17:38:13 2020 -0700
    Basic vcf to bed converter, with a -fields argument for what VCF INFO tags to include in the bigBed itself, refs #25010
• src/hg/utils/vcfToBed/vcfToBed.c
  • lines changed 282, context: html, text, full: html, text
    a3e03473bbde188141b61d0c3db48c85d2ec6aa3 Tue Sep 22 17:38:13 2020 -0700
    Basic vcf to bed converter, with a -fields argument for what VCF INFO tags to include in the bigBed itself, refs #25010
  • lines changed 164, context: html, text, full: html, text
    13db5365510728c1e96d96110a6fe86065949b8a Thu Sep 24 16:17:54 2020 -0700
    Make vcfToBed way more basic and don't do any special parsing of VCF specific stuff, just chop out requested fields, refs #25010
  • lines changed 108, context: html, text, full: html, text
    1562b816fff70fb76a2c67341e5488c562e51857 Fri Sep 25 14:52:52 2020 -0700
    Code cleanup in vcfToBed and fix wrong array length variable for looping over info fields, refs #25010
• src/inc/vcf.h
  • lines changed 13, context: html, text, full: html, text
    a3e03473bbde188141b61d0c3db48c85d2ec6aa3 Tue Sep 22 17:38:13 2020 -0700
    Basic vcf to bed converter, with a -fields argument for what VCF INFO tags to include in the bigBed itself, refs #25010
  • lines changed 6, context: html, text, full: html, text
    13db5365510728c1e96d96110a6fe86065949b8a Thu Sep 24 16:17:54 2020 -0700
    Make vcfToBed way more basic and don't do any special parsing of VCF specific stuff, just chop out requested fields, refs #25010
• src/lib/vcf.c
  • lines changed 26, context: html, text, full: html, text
    a3e03473bbde188141b61d0c3db48c85d2ec6aa3 Tue Sep 22 17:38:13 2020 -0700
    Basic vcf to bed converter, with a -fields argument for what VCF INFO tags to include in the bigBed itself, refs #25010
  • lines changed 1, context: html, text, full: html, text
    13db5365510728c1e96d96110a6fe86065949b8a Thu Sep 24 16:17:54 2020 -0700
    Make vcfToBed way more basic and don't do any special parsing of VCF specific stuff, just chop out requested fields, refs #25010
• src/utils/qa/weeklybld/buildEnv.csh
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    310275ba5b10dc4d25fb6583e551a5ec8a9542eb Mon Sep 28 10:11:10 2020 -0700
    v405 preview2, refs #26249

• lines changed: 3189
• files changed: 93