All File Changes

v401_base to v402_preview (2020-07-13 to 2020-07-20) v402

• src/hg/encode3/encodeDataWarehouse/edwMakeValidFile/edwMakeValidFile.c
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    553e456f9d78c07964df4c42af62d7480b7a55a6 Wed Jul 15 08:30:40 2020 -0700
    oops... a place I missed that references gff.h.
• src/hg/geoIp/README.v5
  • lines changed 240, context: html, text, full: html, text
    374fb19b44fccdcec68620cfc5c6d93b553fd2ae Fri Jul 17 17:05:43 2020 -0700
    updated geoIp data and tables which were 1 year old. Jonathan found VPN in LA was mapping to europe. refs #25906
• src/hg/geoIp/load-tables
  • lines changed 4, context: html, text, full: html, text
    374fb19b44fccdcec68620cfc5c6d93b553fd2ae Fri Jul 17 17:05:43 2020 -0700
    updated geoIp data and tables which were 1 year old. Jonathan found VPN in LA was mapping to europe. refs #25906
• src/hg/geoIp/save-old-for-compare
  • lines changed 3, context: html, text, full: html, text
    374fb19b44fccdcec68620cfc5c6d93b553fd2ae Fri Jul 17 17:05:43 2020 -0700
    updated geoIp data and tables which were 1 year old. Jonathan found VPN in LA was mapping to europe. refs #25906
• src/hg/hgSuggest/hgSuggest.c
  • lines changed 4, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
• src/hg/hgTracks/hgTracks.c
  • lines changed 46, context: html, text, full: html, text
    fb06bed25a9f45eaef8a875f3efbd45cfc14e804 Mon Jul 20 04:43:21 2020 -0700
    fixing PDF output for new highlight cart variable format, also fixes a related problem that just came up on the ML, refs #25887
  • lines changed 3, context: html, text, full: html, text
    60415e3d32c3d7431bf4d5e400dc4f26314066e5 Mon Jul 20 08:02:11 2020 -0700
    a few more fixes for new highlight syntax, refs #21384
• src/hg/hgTracks/vcfTrack.c
  • lines changed 17, context: html, text, full: html, text
    161f75600a7d002b587651e28c25bd5034322bfa Thu Jul 16 14:14:34 2020 -0700
    AJAX update of VCF track with color-by-function was losing the colors because the whole track list isn't loaded; load geneTrack tdb separately in that case. refs #25870
• src/hg/hgc/wiggleClick.c
  • lines changed 46, context: html, text, full: html, text
    808b145f396d7d8af6ff393e1eda815ec318ae66 Wed Jul 15 11:31:35 2020 -0700
    in place of histogram table show actual values when number of data points < 25 refs #25885
• src/hg/htdocs/FAQ/FAQgenes.html
  • lines changed 14, context: html, text, full: html, text
    223c03855d75f770eaa40b5d30d2c631f0f9df71 Mon Jul 13 14:09:11 2020 -0700
    adding multi-placement example to genes faq, refs #25883
  • lines changed 7, context: html, text, full: html, text
    b88f5b43c268c4d47e083b461e2565060cd144a7 Fri Jul 17 06:03:18 2020 -0700
    tiny change to genes faq, no redmine. Also adding track docs pages for wuhCor1 contacts track, refs #25910
• src/hg/htdocs/goldenPath/help/bigGenePred.html
  • lines changed 4, context: html, text, full: html, text
    2702c32c069eb7e3ec51beb22d1d160a6538e6d2 Mon Jul 13 17:09:05 2020 -0700
    Code review refs #25875
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html
  • lines changed 9, context: html, text, full: html, text
    4265bc406f5ae78b172dff09d3ff2b922f9930ca Wed Jul 15 14:24:25 2020 -0700
    Documenting new trackDb options to disable vcf filter ui, refs #24317
  • lines changed 6, context: html, text, full: html, text
    944206877334ce5b5c47175110ffbabee88ae831 Thu Jul 16 12:01:34 2020 -0700
    Rename 'vcfNo' trackDb variables to 'vcfDo' so code is more clear, refs Angie email
  • lines changed 7, context: html, text, full: html, text
    d69d994c583af17369b899c7e3ff8e4c20fdd8b4 Fri Jul 17 13:09:20 2020 -0700
    Adding trackDb doc for new VCF settings hapClusterMethod, hapClusterColorBy function, and geneTrack. refs #25197, #25278, #25870
• src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v2.html
  • lines changed 9, context: html, text, full: html, text
    4265bc406f5ae78b172dff09d3ff2b922f9930ca Wed Jul 15 14:24:25 2020 -0700
    Documenting new trackDb options to disable vcf filter ui, refs #24317
  • lines changed 6, context: html, text, full: html, text
    944206877334ce5b5c47175110ffbabee88ae831 Thu Jul 16 12:01:34 2020 -0700
    Rename 'vcfNo' trackDb variables to 'vcfDo' so code is more clear, refs Angie email
  • lines changed 7, context: html, text, full: html, text
    d69d994c583af17369b899c7e3ff8e4c20fdd8b4 Fri Jul 17 13:09:20 2020 -0700
    Adding trackDb doc for new VCF settings hapClusterMethod, hapClusterColorBy function, and geneTrack. refs #25197, #25278, #25870
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 21, context: html, text, full: html, text
    4265bc406f5ae78b172dff09d3ff2b922f9930ca Wed Jul 15 14:24:25 2020 -0700
    Documenting new trackDb options to disable vcf filter ui, refs #24317
  • lines changed 6, context: html, text, full: html, text
    944206877334ce5b5c47175110ffbabee88ae831 Thu Jul 16 12:01:34 2020 -0700
    Rename 'vcfNo' trackDb variables to 'vcfDo' so code is more clear, refs Angie email
  • lines changed 32, context: html, text, full: html, text
    d69d994c583af17369b899c7e3ff8e4c20fdd8b4 Fri Jul 17 13:09:20 2020 -0700
    Adding trackDb doc for new VCF settings hapClusterMethod, hapClusterColorBy function, and geneTrack. refs #25197, #25278, #25870
• src/hg/htdocs/images/canFam5.jpg
  • lines changed 0, context: html, text, full: html, text
    2a7a47859629388751d074ae62ee0c2d2349f21f Fri Jul 17 16:48:42 2020 -0700
    adding canFam5 Great Dane to build refs #25917
• src/hg/inc/hdb.h
  • lines changed 5, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
• src/hg/inc/vcfUi.h
  • lines changed 4, context: html, text, full: html, text
    5e1673a9fadc12f17211b01376f538598f6bb525 Wed Jul 15 11:43:26 2020 -0700
    Adding some trackDb options to hide some VCF config options that are useless for 1000 genomes and sars-cov-2 vcfs, refs #24317
  • lines changed 3, context: html, text, full: html, text
    944206877334ce5b5c47175110ffbabee88ae831 Thu Jul 16 12:01:34 2020 -0700
    Rename 'vcfNo' trackDb variables to 'vcfDo' so code is more clear, refs Angie email
• src/hg/js/hgTracks.js
  • lines changed 5, context: html, text, full: html, text
    2c9786155a4a3134fdef9c08b03148f1b9c988ec Thu Jul 16 06:11:45 2020 -0700
    fixing highlight problems with chrom names that contain a period or colon, #25887
  • lines changed 3, context: html, text, full: html, text
    60415e3d32c3d7431bf4d5e400dc4f26314066e5 Mon Jul 20 08:02:11 2020 -0700
    a few more fixes for new highlight syntax, refs #21384
• src/hg/js/utils.js
  • lines changed 21, context: html, text, full: html, text
    2c9786155a4a3134fdef9c08b03148f1b9c988ec Thu Jul 16 06:11:45 2020 -0700
    fixing highlight problems with chrom names that contain a period or colon, #25887
• src/hg/lib/customFactory.c
  • lines changed 7, context: html, text, full: html, text
    e3bb4f76194bc1e842fa4a9c58422a3976df7361 Wed Jul 15 03:28:25 2020 -0700
    adding link to hosting docs to binary upload error message in hgCustom, refs #25891
• src/hg/lib/genePred.c
  • lines changed 4, context: html, text, full: html, text
    62746b4dd3909b50dce1928ca75d3ba8316f83e6 Tue Jul 14 15:42:46 2020 -0700
    changes from user Sergej Nowoshilow on github
• src/hg/lib/hdb.c
  • lines changed 42, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
• src/hg/lib/hgFind.c
  • lines changed 439, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
• src/hg/lib/suggest.c
  • lines changed 4, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
• src/hg/lib/tests/genePredTester.c
  • lines changed 1, context: html, text, full: html, text
    d57e88e244a6f7372791a93f52b1f4b1628801ff Wed Jul 15 08:38:34 2020 -0700
    oops.. another place that references gff.h
• src/hg/lib/vcfUi.c
  • lines changed 7, context: html, text, full: html, text
    5e1673a9fadc12f17211b01376f538598f6bb525 Wed Jul 15 11:43:26 2020 -0700
    Adding some trackDb options to hide some VCF config options that are useless for 1000 genomes and sars-cov-2 vcfs, refs #24317
• src/hg/makeDb/doc/canFam5/initialBuild.txt
  • lines changed 1135, context: html, text, full: html, text
    571f0f6a9f2eedaa14524d60a93deecb0e3c763e Fri Jul 17 17:09:07 2020 -0700
    starting canFam5 build refs #25917
• src/hg/makeDb/doc/hg38/tba10way.txt
  • lines changed 1915, context: html, text, full: html, text
    a9a2c044ff98a2ed4122c6c36dfd1a60ffcd4ba1 Tue Jul 14 12:18:52 2020 -0700
    working on tba experiment on chrX refs #11636
  • lines changed 195, context: html, text, full: html, text
    24660da2440d1db3215bbde7cbd4bd8e56e38db8 Tue Jul 14 13:55:22 2020 -0700
    loaded tba10way track to compare with multiz10way refs #11636
  • lines changed 128, context: html, text, full: html, text
    376ad47e34d1ddf6a3aef79214b97c24f6910848 Thu Jul 16 12:18:24 2020 -0700
    loading up chrX 10way on each species refs #11636
• src/hg/makeDb/doc/ucscGenes/hg38.gencodeV35.sh
  • lines changed 11, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
• src/hg/makeDb/doc/wuhCor1/phylogenetics.txt
  • lines changed 129, context: html, text, full: html, text
    8dc53b643c0defa73465a6027fd19fe741f25b2a Thu Jul 16 11:01:58 2020 -0700
    Adding sarscov2phylo (SARS-CoV-2 Phylogeny) track (Rob Lanfear's 40k-sample tree). refs #25904
• src/hg/makeDb/schema/all.joiner
  • lines changed 77, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
• src/hg/makeDb/schema/dbSnoop/dbSnoop.c
  • lines changed 36, context: html, text, full: html, text
    09275329a3702936dd2f0907157711703aab3b75 Tue Jul 14 12:06:52 2020 -0700
    dbSnoop improvements. Added -sortAlpha to help with django db that has tables with mixed up field order so that all the fields appear in alphabetical order. Fixed a bug in index display where the multi-column indexes were not being handled correctly.
• src/hg/makeDb/trackDb/dog/canFam5/description.html
  • lines changed 64, context: html, text, full: html, text
    22ae6271f25d6a23cce958a3b3894814b27e5e40 Fri Jul 17 16:47:53 2020 -0700
    adding canFam5 Great Dane to build refs #25917
  • lines changed 1, context: html, text, full: html, text
    36ac5c534789875cc934a242796723a0daa85ec2 Fri Jul 17 17:10:52 2020 -0700
    correct dog name under photo refs #25915
• src/hg/makeDb/trackDb/dog/canFam5/gap.html
  • lines changed 30, context: html, text, full: html, text
    22ae6271f25d6a23cce958a3b3894814b27e5e40 Fri Jul 17 16:47:53 2020 -0700
    adding canFam5 Great Dane to build refs #25917
• src/hg/makeDb/trackDb/dog/canFam5/gold.html
  • lines changed 33, context: html, text, full: html, text
    22ae6271f25d6a23cce958a3b3894814b27e5e40 Fri Jul 17 16:47:53 2020 -0700
    adding canFam5 Great Dane to build refs #25917
• src/hg/makeDb/trackDb/dog/canFam5/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    22ae6271f25d6a23cce958a3b3894814b27e5e40 Fri Jul 17 16:47:53 2020 -0700
    adding canFam5 Great Dane to build refs #25917
  • lines changed 6, context: html, text, full: html, text
    8b7f5e635a1a920fed9b6b7e16eb16a83dcb21f5 Fri Jul 17 17:07:07 2020 -0700
    adding search rule for gold/assembly track refs #25917
• src/hg/makeDb/trackDb/human/hg38/gencodeV35.ra
  • lines changed 16, context: html, text, full: html, text
    ccaa3ea70462cde244d79b856f2b5738b359b5a1 Wed Jul 15 08:52:39 2020 -0700
    change Gencode to GENCODE in trackDb
  • lines changed 7, context: html, text, full: html, text
    11a82397d8d5c6d013cc62cdc99b84bc5506747e Fri Jul 17 12:55:23 2020 -0700
    ongoing work on the GENCODE merge
  • lines changed 1, context: html, text, full: html, text
    ef268322c817e01ce0f59ee15fc1f4de0fcf16f3 Fri Jul 17 15:41:19 2020 -0700
    gencodeV35 should be off by default
• src/hg/makeDb/trackDb/human/hg38/tgpTrios.html
  • lines changed 11, context: html, text, full: html, text
    c02a50ac5939e53c2a0666689f2ff646796d49b8 Thu Jul 16 12:55:55 2020 -0700
    Doc'ing new settings and released to beta tgpTrios refs #25582
• src/hg/makeDb/trackDb/human/hg38/trackDb.10way.ra
  • lines changed 213, context: html, text, full: html, text
    18f827aa052d87a0dc1950926b7c71fec3440914 Tue Jul 14 13:54:27 2020 -0700
    adding 10-way chrX multiz vs. tba experiment refs #11636
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    18f827aa052d87a0dc1950926b7c71fec3440914 Tue Jul 14 13:54:27 2020 -0700
    adding 10-way chrX multiz vs. tba experiment refs #11636
  • lines changed 3, context: html, text, full: html, text
    5e1673a9fadc12f17211b01376f538598f6bb525 Wed Jul 15 11:43:26 2020 -0700
    Adding some trackDb options to hide some VCF config options that are useless for 1000 genomes and sars-cov-2 vcfs, refs #24317
  • lines changed 3, context: html, text, full: html, text
    944206877334ce5b5c47175110ffbabee88ae831 Thu Jul 16 12:01:34 2020 -0700
    Rename 'vcfNo' trackDb variables to 'vcfDo' so code is more clear, refs Angie email
  • lines changed 8, context: html, text, full: html, text
    c02a50ac5939e53c2a0666689f2ff646796d49b8 Thu Jul 16 12:55:55 2020 -0700
    Doc'ing new settings and released to beta tgpTrios refs #25582
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    22ae6271f25d6a23cce958a3b3894814b27e5e40 Fri Jul 17 16:47:53 2020 -0700
    adding canFam5 Great Dane to build refs #25917
• src/hg/makeDb/trackDb/tagTypes.tab
  • lines changed 3, context: html, text, full: html, text
    5e1673a9fadc12f17211b01376f538598f6bb525 Wed Jul 15 11:43:26 2020 -0700
    Adding some trackDb options to hide some VCF config options that are useless for 1000 genomes and sars-cov-2 vcfs, refs #24317
  • lines changed 3, context: html, text, full: html, text
    944206877334ce5b5c47175110ffbabee88ae831 Thu Jul 16 12:01:34 2020 -0700
    Rename 'vcfNo' trackDb variables to 'vcfDo' so code is more clear, refs Angie email
• src/hg/makeDb/trackDb/virus/wuhCor1/contacts.html
  • lines changed 49, context: html, text, full: html, text
    b88f5b43c268c4d47e083b461e2565060cd144a7 Fri Jul 17 06:03:18 2020 -0700
    tiny change to genes faq, no redmine. Also adding track docs pages for wuhCor1 contacts track, refs #25910
• src/hg/makeDb/trackDb/virus/wuhCor1/nextstrainSamples.html
  • lines changed 10, context: html, text, full: html, text
    90c17c91b1720de15fcb99da8a63b9c6fca4d3b7 Fri Jul 17 13:34:05 2020 -0700
    Remove trackDb.nextstrain.v1.ra and nextstrainSamplesDevOnly.html since they are no longer needed (new tracks have been pushed to RR). Update nextstrainSamples.html with edits made to DevOnly. refs #25782
• src/hg/makeDb/trackDb/virus/wuhCor1/nextstrainSamplesDevOnly.html
  • lines changed 6, context: html, text, full: html, text
    d880e691d58c7a6a68fd1c885defec0c61c733c4 Tue Jul 14 12:19:32 2020 -0700
    Minor edits to links and grammar #25782
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    fa5860a82438427c23b43ab9e85663d6a2cc046e Tue Jul 14 12:37:02 2020 -0700
    adding link refs #25782
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    90c17c91b1720de15fcb99da8a63b9c6fca4d3b7 Fri Jul 17 13:34:05 2020 -0700
    Remove trackDb.nextstrain.v1.ra and nextstrainSamplesDevOnly.html since they are no longer needed (new tracks have been pushed to RR). Update nextstrainSamples.html with edits made to DevOnly. refs #25782
• src/hg/makeDb/trackDb/virus/wuhCor1/rapid.html
  • lines changed 24, context: html, text, full: html, text
    38a35a63cf1fdddd943476e729a2f3d2c401c9d8 Thu Jul 16 17:11:02 2020 -0700
    Fixing rapid html, adding pennant icons refs #25847
• src/hg/makeDb/trackDb/virus/wuhCor1/sarsCov2Phylo.html
  • lines changed 165, context: html, text, full: html, text
    8dc53b643c0defa73465a6027fd19fe741f25b2a Thu Jul 16 11:01:58 2020 -0700
    Adding sarscov2phylo (SARS-CoV-2 Phylogeny) track (Rob Lanfear's 40k-sample tree). refs #25904
  • lines changed 3, context: html, text, full: html, text
    101a3f1fef03c64b66a2ae970e81c358b7803ac3 Thu Jul 16 14:34:08 2020 -0700
    Added note for SARS-CoV-2 Phylogeny about increasing the left label area width in order to see the full tree. refs #25904
• src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.nextstrain.ra
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    5fed0fb5652dec1db7546410bd50271b404f4f45 Thu Jul 16 14:55:13 2020 -0700
    Adding Chris's new vcfDoQual and vcfDoFilter trackDb settings for Nextstrain Variants and SARS-CoV-2 Phylogeny. refs #25188, #25904, #25902
  • lines changed 1, context: html, text, full: html, text
    38a35a63cf1fdddd943476e729a2f3d2c401c9d8 Thu Jul 16 17:11:02 2020 -0700
    Fixing rapid html, adding pennant icons refs #25847
  • lines changed 2, context: html, text, full: html, text
    90c17c91b1720de15fcb99da8a63b9c6fca4d3b7 Fri Jul 17 13:34:05 2020 -0700
    Remove trackDb.nextstrain.v1.ra and nextstrainSamplesDevOnly.html since they are no longer needed (new tracks have been pushed to RR). Update nextstrainSamples.html with edits made to DevOnly. refs #25782
• src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.nextstrain.v1.ra
  • lines changed 129, context: html, text, full: html, text
    90c17c91b1720de15fcb99da8a63b9c6fca4d3b7 Fri Jul 17 13:34:05 2020 -0700
    Remove trackDb.nextstrain.v1.ra and nextstrainSamplesDevOnly.html since they are no longer needed (new tracks have been pushed to RR). Update nextstrainSamples.html with edits made to DevOnly. refs #25782
• src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra
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    082453a9ca2fff004e17ab0392bbedf36a4ce35e Wed Jul 15 16:33:17 2020 -0700
    Releasing UniProt update and NextStrainVar update #25192, 25782
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    8dc53b643c0defa73465a6027fd19fe741f25b2a Thu Jul 16 11:01:58 2020 -0700
    Adding sarscov2phylo (SARS-CoV-2 Phylogeny) track (Rob Lanfear's 40k-sample tree). refs #25904
  • lines changed 3, context: html, text, full: html, text
    c3f3fc2613d90757906f12120dcf8f40dec7d793 Thu Jul 16 11:25:47 2020 -0700
    Fixing someone's error so I can make wuhCor1 No RM
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    51c0e3d58eadd12ec2157b8eb123cf37e293fd01 Thu Jul 16 13:08:40 2020 -0700
    Adding 'release alpha' to subtracks of sarsCov2Phylo. refs #25904
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    85c7a88f8bc6294728c555e778aa681b932c0f83 Thu Jul 16 14:27:39 2020 -0700
    Better longLabels for SARS-CoV-2 Phylogeny subtracks. refs #25904
  • lines changed 2, context: html, text, full: html, text
    5fed0fb5652dec1db7546410bd50271b404f4f45 Thu Jul 16 14:55:13 2020 -0700
    Adding Chris's new vcfDoQual and vcfDoFilter trackDb settings for Nextstrain Variants and SARS-CoV-2 Phylogeny. refs #25188, #25904, #25902
  • lines changed 1, context: html, text, full: html, text
    38a35a63cf1fdddd943476e729a2f3d2c401c9d8 Thu Jul 16 17:11:02 2020 -0700
    Fixing rapid html, adding pennant icons refs #25847
  • lines changed 10, context: html, text, full: html, text
    b88f5b43c268c4d47e083b461e2565060cd144a7 Fri Jul 17 06:03:18 2020 -0700
    tiny change to genes faq, no redmine. Also adding track docs pages for wuhCor1 contacts track, refs #25910
  • lines changed 22, context: html, text, full: html, text
    1cd78199ada0aeccbd205c13fe26dec7602a51a5 Mon Jul 20 02:11:22 2020 -0700
    moving contacts up
• src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.uniprot.public.ra
  • lines changed 273, context: html, text, full: html, text
    495beb4238451cb69d80abb573e58ad6ffea5573 Wed Jul 15 05:14:26 2020 -0700
    adding release tags for uniprot on wuhCor1, email from Daniel
  • lines changed 273, context: html, text, full: html, text
    ddb2f26aafb47e81295483b700f710af134ac396 Thu Jul 16 06:22:55 2020 -0700
    removing the duplicate trackDb.uniprot.ra file for public. refs #25192
• src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.uniprot.ra
  • lines changed 15, context: html, text, full: html, text
    495beb4238451cb69d80abb573e58ad6ffea5573 Wed Jul 15 05:14:26 2020 -0700
    adding release tags for uniprot on wuhCor1, email from Daniel
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    cb55f75c17064da553e095557fe14e86c9747f89 Wed Jul 15 16:01:45 2020 -0700
    making wuhCor1 uniprot bigGenePred again, after an incorrect previous commit, refs #25192
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    082453a9ca2fff004e17ab0392bbedf36a4ce35e Wed Jul 15 16:33:17 2020 -0700
    Releasing UniProt update and NextStrainVar update #25192, 25782
• src/hg/utils/automation/doBigDbSnp.pl
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    93119a2588afc1810b9c6b819ce35cbb0a45bedc Mon Jul 13 14:34:25 2020 -0700
    bedToBigBed: add a -maxAlloc option to raise needLargeMem's ceiling for enormous bigDbSnp files. refs #24500
• src/hg/utils/faToVcf/faToVcf.c
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    73d02b0696465e3bbc8634b0650ec5230c379caa Wed Jul 15 16:46:09 2020 -0700
    faToVcf: added -ambiguousToN option to treat all IUPAC ambiguous bases as missing info (as opposed to observations of other alleles as with -resolveAmbiguous). refs #25904
• src/hg/utils/geoMirrorNode/testInput
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    374fb19b44fccdcec68620cfc5c6d93b553fd2ae Fri Jul 17 17:05:43 2020 -0700
    updated geoIp data and tables which were 1 year old. Jonathan found VPN in LA was mapping to europe. refs #25906
• src/hg/utils/gtfToGenePred/gtfToGenePred.c
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    62746b4dd3909b50dce1928ca75d3ba8316f83e6 Tue Jul 14 15:42:46 2020 -0700
    changes from user Sergej Nowoshilow on github
• src/hg/utils/otto/lovd/checkAndLoad.sh
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    3e50c8a867b33f2ea89bc9f26eb7e13dbcde51e1 Fri Jul 17 09:12:14 2020 -0700
    Adding hg38 to lovd otto build
• src/hg/utils/otto/lovd/download.sh
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    3e50c8a867b33f2ea89bc9f26eb7e13dbcde51e1 Fri Jul 17 09:12:14 2020 -0700
    Adding hg38 to lovd otto build
• src/inc/gff.h
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    62746b4dd3909b50dce1928ca75d3ba8316f83e6 Tue Jul 14 15:42:46 2020 -0700
    changes from user Sergej Nowoshilow on github
• src/lib/gff.c
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    62746b4dd3909b50dce1928ca75d3ba8316f83e6 Tue Jul 14 15:42:46 2020 -0700
    changes from user Sergej Nowoshilow on github
• src/utils/bedToBigBed/bedToBigBed.c
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    93119a2588afc1810b9c6b819ce35cbb0a45bedc Mon Jul 13 14:34:25 2020 -0700
    bedToBigBed: add a -maxAlloc option to raise needLargeMem's ceiling for enormous bigDbSnp files. refs #24500
• src/utils/qa/weeklybld/buildEnv.csh
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    78cc410bd49ff423bc96d004ac07219b509ae25e Mon Jul 20 10:03:38 2020 -0700
    v402 preview1

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