All File Changes

v357_preview2 to v357_base (2017-10-23 to 2017-10-30) v357

• src/hg/hgCollection/hgCollection.c
  • lines changed 3, context: html, text, full: html, text
    a7383ac2f7c1ac568f13b0c6e3303bf6b2ab2d50 Mon Oct 23 11:10:00 2017 -0700
    make sure we squirrel a name of the table when adding tracks to a collection from hgTracks
  • lines changed 1, context: html, text, full: html, text
    8c7448e77d08d38806a09f4643633f1d48f6beb7 Tue Oct 24 15:32:15 2017 -0700
    some tweaks to custom composites so they play better as multiwigs
  • lines changed 19, context: html, text, full: html, text
    af76ebc56040c96025f9d5eba0ef0add4e26177f Fri Oct 27 10:31:41 2017 -0700
    dialog for calculation track.
  • lines changed 1, context: html, text, full: html, text
    8bcca0585364c5442e9118a62abdef8eb471379a Sat Oct 28 11:12:44 2017 -0700
    color icons for add and delete tracks
• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 11, context: html, text, full: html, text
    48fb236e9a07a49585fd1ed15f4aaff24dbcf8a2 Thu Oct 26 13:15:57 2017 -0700
    fixing dataVersion for hgTrackUi by libifying printDataVersion and expanding it to cover all possible track data version places that have accumulated over time. refs #20419
• src/hg/hgTracks/gtexEqtlClusterTrack.c
  • lines changed 9, context: html, text, full: html, text
    a15e95bf88dc310df10549c6bb17c288654aad64 Wed Oct 25 10:58:43 2017 -0700
    Fix filter problem noted in RM note #77; effect and prob filters should change item label to correspond to eQTLs remaining in combined item after filtering. refs #15646
• src/hg/hgTracks/multiWig.c
  • lines changed 11, context: html, text, full: html, text
    8c7448e77d08d38806a09f4643633f1d48f6beb7 Tue Oct 24 15:32:15 2017 -0700
    some tweaks to custom composites so they play better as multiwigs
• src/hg/hgc/gtexEqtlClusterClick.c
  • lines changed 6, context: html, text, full: html, text
    2ffc9d13a7475fbf6eb60a6b50d463ee11e7ff41 Wed Oct 25 18:06:54 2017 -0700
    Implement V2 GTEx eQTL clusters as described in RM as 'permissive with ID'. This adds Ensembl gene ID to schemas. Also adding summary columns to cluster track (maxEffect, maxPvalue, effectType) to provide alternative to parsing comma-sep fields for table filtering. refs #15646
• src/hg/hgc/hgc.c
  • lines changed 35, context: html, text, full: html, text
    48fb236e9a07a49585fd1ed15f4aaff24dbcf8a2 Thu Oct 26 13:15:57 2017 -0700
    fixing dataVersion for hgTrackUi by libifying printDataVersion and expanding it to cover all possible track data version places that have accumulated over time. refs #20419
• src/hg/htdocs/goldenPath/help/GTF.html
  • lines changed 8, context: html, text, full: html, text
    09bee55ace0fc5c01faede2910faa2eacf92d8f3 Wed Oct 25 12:47:09 2017 -0700
    Specifying correct GTF2.2 version over old GTF2 version, refs #20391
• src/hg/htdocs/goldenPath/help/gbib.html
  • lines changed 17, context: html, text, full: html, text
    036df01724484d919da5ab0e85b5239570844460 Thu Oct 26 12:53:02 2017 -0700
    Adding note about IP/port for genome-euro-mysql for GBiB. Also updated reference format for GBiB paper. refs #20109
• src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html
  • lines changed 1, context: html, text, full: html, text
    bc38811f73f553cee17080e1578da42d5791afe4 Tue Oct 24 16:12:01 2017 -0700
    Fixing small typo, refs #12822
  • lines changed 6, context: html, text, full: html, text
    b4a6fce4841c75116b7d152c3f74f348a90d90be Thu Oct 26 11:47:55 2017 -0700
    Removing CyVerse support email in favor of direct chat option after feedback from CyVerse.
• src/hg/htdocs/goldenPath/help/mysql.html
  • lines changed 5, context: html, text, full: html, text
    d84b9ba67536ebf58974a47924c3d5a07cd6aab3 Thu Oct 26 11:00:07 2017 -0700
    hg.conf lines need to be different depending on what server you want to connect to. Making this more clear on the page, refs #20109
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 3, context: html, text, full: html, text
    48fb236e9a07a49585fd1ed15f4aaff24dbcf8a2 Thu Oct 26 13:15:57 2017 -0700
    fixing dataVersion for hgTrackUi by libifying printDataVersion and expanding it to cover all possible track data version places that have accumulated over time. refs #20419
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 55, context: html, text, full: html, text
    32105eb11a38d93e6f9806dfb786cbd828a02ce4 Fri Oct 27 09:28:01 2017 -0700
    Fixing newsarch to conform to 100 char limit, refs #20384
  • lines changed 22, context: html, text, full: html, text
    85d6d81443396217fbbc3e9167e89d94f6a68f6c Fri Oct 27 16:03:12 2017 -0700
    Adding announcement about genome-euro-mysql release, refs #20109
• src/hg/htdocs/inc/hgCollection.html
  • lines changed 23, context: html, text, full: html, text
    af76ebc56040c96025f9d5eba0ef0add4e26177f Fri Oct 27 10:31:41 2017 -0700
    dialog for calculation track.
  • lines changed 7, context: html, text, full: html, text
    8bcca0585364c5442e9118a62abdef8eb471379a Sat Oct 28 11:12:44 2017 -0700
    color icons for add and delete tracks
• src/hg/htdocs/indexNews.html
  • lines changed 13, context: html, text, full: html, text
    85d6d81443396217fbbc3e9167e89d94f6a68f6c Fri Oct 27 16:03:12 2017 -0700
    Adding announcement about genome-euro-mysql release, refs #20109
• src/hg/htdocs/training/index.html
  • lines changed 67, context: html, text, full: html, text
    b2018fe75caf47ae475a1ca3ea79e3c752a66885 Thu Oct 26 17:12:38 2017 -0700
    removed completed mexico and ashg workshops. added india and pag workshops
  • lines changed 21, context: html, text, full: html, text
    d169468b02c00375e6032ed8dc56adcf65235410 Fri Oct 27 10:19:07 2017 -0700
    fixed broken link for slovenia workshop
• src/hg/inc/gtexEqtlCluster.h
  • lines changed 7, context: html, text, full: html, text
    2ffc9d13a7475fbf6eb60a6b50d463ee11e7ff41 Wed Oct 25 18:06:54 2017 -0700
    Implement V2 GTEx eQTL clusters as described in RM as 'permissive with ID'. This adds Ensembl gene ID to schemas. Also adding summary columns to cluster track (maxEffect, maxPvalue, effectType) to provide alternative to parsing comma-sep fields for table filtering. refs #15646
• src/hg/inc/hui.h
  • lines changed 2, context: html, text, full: html, text
    48fb236e9a07a49585fd1ed15f4aaff24dbcf8a2 Thu Oct 26 13:15:57 2017 -0700
    fixing dataVersion for hgTrackUi by libifying printDataVersion and expanding it to cover all possible track data version places that have accumulated over time. refs #20419
• src/hg/inc/versionInfo.h
  • lines changed 1, context: html, text, full: html, text
    ee250cad347b57996f7cc1125d4be37f49c7fd06 Mon Oct 30 10:22:04 2017 -0700
    New version number v357
• src/hg/js/autocomplete.js
  • lines changed 6, context: html, text, full: html, text
    fad9127b4977c8da308a4c972f4a3497dfd695dd Fri Oct 27 16:09:39 2017 -0700
    On load, don't reset position/search input value and add 'enter position, ...' watermark if the input is in focus, i.e. the user is already trying to type something there. refs #20426
• src/hg/js/hgCollection.js
  • lines changed 39, context: html, text, full: html, text
    af76ebc56040c96025f9d5eba0ef0add4e26177f Fri Oct 27 10:31:41 2017 -0700
    dialog for calculation track.
  • lines changed 15, context: html, text, full: html, text
    16f7813a9ec3a414a96077377694fa2ef83a8a1f Fri Oct 27 15:59:33 2017 -0700
    add auto-save to hgCollection
  • lines changed 2, context: html, text, full: html, text
    8bcca0585364c5442e9118a62abdef8eb471379a Sat Oct 28 11:12:44 2017 -0700
    color icons for add and delete tracks
• src/hg/lib/customTrack.c
  • lines changed 2, context: html, text, full: html, text
    a89bf4ec9c46b355183eaa5901a8d01dd3b0c5d5 Wed Oct 25 11:37:26 2017 -0700
    make note that customFactoryTestExistence() in customFactory.c is depending upon the ctTouchLastUse() function here no redmine
• src/hg/lib/gtexEqtl.as
  • lines changed 3, context: html, text, full: html, text
    2ffc9d13a7475fbf6eb60a6b50d463ee11e7ff41 Wed Oct 25 18:06:54 2017 -0700
    Implement V2 GTEx eQTL clusters as described in RM as 'permissive with ID'. This adds Ensembl gene ID to schemas. Also adding summary columns to cluster track (maxEffect, maxPvalue, effectType) to provide alternative to parsing comma-sep fields for table filtering. refs #15646
• src/hg/lib/gtexEqtl.sql
  • lines changed 8, context: html, text, full: html, text
    2ffc9d13a7475fbf6eb60a6b50d463ee11e7ff41 Wed Oct 25 18:06:54 2017 -0700
    Implement V2 GTEx eQTL clusters as described in RM as 'permissive with ID'. This adds Ensembl gene ID to schemas. Also adding summary columns to cluster track (maxEffect, maxPvalue, effectType) to provide alternative to parsing comma-sep fields for table filtering. refs #15646
• src/hg/lib/gtexEqtlCluster.as
  • lines changed 5, context: html, text, full: html, text
    2ffc9d13a7475fbf6eb60a6b50d463ee11e7ff41 Wed Oct 25 18:06:54 2017 -0700
    Implement V2 GTEx eQTL clusters as described in RM as 'permissive with ID'. This adds Ensembl gene ID to schemas. Also adding summary columns to cluster track (maxEffect, maxPvalue, effectType) to provide alternative to parsing comma-sep fields for table filtering. refs #15646
• src/hg/lib/gtexEqtlCluster.c
  • lines changed 33, context: html, text, full: html, text
    2ffc9d13a7475fbf6eb60a6b50d463ee11e7ff41 Wed Oct 25 18:06:54 2017 -0700
    Implement V2 GTEx eQTL clusters as described in RM as 'permissive with ID'. This adds Ensembl gene ID to schemas. Also adding summary columns to cluster track (maxEffect, maxPvalue, effectType) to provide alternative to parsing comma-sep fields for table filtering. refs #15646
• src/hg/lib/gtexEqtlCluster.sql
  • lines changed 9, context: html, text, full: html, text
    2ffc9d13a7475fbf6eb60a6b50d463ee11e7ff41 Wed Oct 25 18:06:54 2017 -0700
    Implement V2 GTEx eQTL clusters as described in RM as 'permissive with ID'. This adds Ensembl gene ID to schemas. Also adding summary columns to cluster track (maxEffect, maxPvalue, effectType) to provide alternative to parsing comma-sep fields for table filtering. refs #15646
• src/hg/lib/hgHgvs.c
  • lines changed 281, context: html, text, full: html, text
    37adcffad6e119b07187ac7659654277a7347450 Fri Oct 27 13:39:28 2017 -0700
    Add support for LRG genomic and protein HGVS search terms.
• src/hg/lib/hui.c
  • lines changed 46, context: html, text, full: html, text
    48fb236e9a07a49585fd1ed15f4aaff24dbcf8a2 Thu Oct 26 13:15:57 2017 -0700
    fixing dataVersion for hgTrackUi by libifying printDataVersion and expanding it to cover all possible track data version places that have accumulated over time. refs #20419
• src/hg/lib/jksql.c
  • lines changed 17, context: html, text, full: html, text
    15eb93c120512b8107f96f1d083663b37b13ef2e Wed Oct 25 14:55:58 2017 -0700
    Fix problem with silently returning FALSE from sqlTableExists() when the error has nothing to do with whether the table exists or not. Reported by Hiram when using namedSession cleaner with custom trash db.
• src/hg/lib/tests/expected/hgvs/validTerms.txt
  • lines changed 3, context: html, text, full: html, text
    37adcffad6e119b07187ac7659654277a7347450 Fri Oct 27 13:39:28 2017 -0700
    Add support for LRG genomic and protein HGVS search terms.
• src/hg/lib/tests/input/hgvs/validTerms.txt
  • lines changed 3, context: html, text, full: html, text
    37adcffad6e119b07187ac7659654277a7347450 Fri Oct 27 13:39:28 2017 -0700
    Add support for LRG genomic and protein HGVS search terms.
• src/hg/makeDb/doc/danRer10/initialBuild.txt
  • lines changed 13, context: html, text, full: html, text
    52c52b7de3078ef92d4126ebbc8fa0fbd4a7d8b2 Wed Oct 25 12:59:21 2017 -0700
    run up liftOvers between danRer10 and danRer11 refs #19459
• src/hg/makeDb/doc/danRer11/initialBuild.txt
  • lines changed 7, context: html, text, full: html, text
    52c52b7de3078ef92d4126ebbc8fa0fbd4a7d8b2 Wed Oct 25 12:59:21 2017 -0700
    run up liftOvers between danRer10 and danRer11 refs #19459
• src/hg/makeDb/doc/hg38/hg38.txt
  • lines changed 6, context: html, text, full: html, text
    4fb8f36b7355d5125677ed33d6f37e92d0cdc0d5 Fri Oct 27 13:50:37 2017 -0700
    loading up the recip best chainNet tracks for primate alignments refs #20216
  • lines changed 1, context: html, text, full: html, text
    80da8468b99e8aa5b321596d767e2bbe7fd78314 Fri Oct 27 14:06:11 2017 -0700
    correct command line refs #19154
• src/hg/makeDb/doc/hg38/lastzRuns.txt
  • lines changed 192, context: html, text, full: html, text
    4fb8f36b7355d5125677ed33d6f37e92d0cdc0d5 Fri Oct 27 13:50:37 2017 -0700
    loading up the recip best chainNet tracks for primate alignments refs #20216
  • lines changed 413, context: html, text, full: html, text
    3dc66b70ef8c94aa79a6f64e50ba6cb598aee4aa Mon Oct 30 10:00:33 2017 -0700
    catching up with loading recip best and syntenic net chainNet tracks refs #20216
• src/hg/makeDb/doc/mm10.txt
  • lines changed 7, context: html, text, full: html, text
    61539541b08175ba16dd5b041b0e28955d7abcc8 Fri Oct 27 16:41:31 2017 -0700
    Jairo noticed that the mm10 refSeqFuncElems track was pointing to an mm10 file in /gbdb/hg38/ -- fixed to use /gbdb/mm10 w/standard filename. Also added a couple suggestions for next time to the mm10.txt doc. refs #19638
• src/hg/makeDb/doc/tarSyr2/lastzRuns.txt
  • lines changed 6, context: html, text, full: html, text
    4fb8f36b7355d5125677ed33d6f37e92d0cdc0d5 Fri Oct 27 13:50:37 2017 -0700
    loading up the recip best chainNet tracks for primate alignments refs #20216
• src/hg/makeDb/schema/all.joiner
  • lines changed 1, context: html, text, full: html, text
    5ea9901fe8b5eb2a58fbf03512f43af63f3d3893 Wed Oct 25 10:17:04 2017 -0700
    update ensGeneDb list to new assemblies refs #20304
  • lines changed 2, context: html, text, full: html, text
    2809eb4a6ac3ae8e845237cc7585365883271d4c Wed Oct 25 10:28:18 2017 -0700
    Adding anaPla1 to all.joiner to fix broken table browser, refs #20304
  • lines changed 16, context: html, text, full: html, text
    7c9cc7c1d95cdcea472310936e7430134eca6205 Wed Oct 25 10:43:26 2017 -0700
    More assemblies to add to all.joiner
  • lines changed 1, context: html, text, full: html, text
    852f03dff84e637829d12e0a3fd243ccdba52225 Wed Oct 25 10:46:02 2017 -0700
    Last database to add
  • lines changed 7, context: html, text, full: html, text
    6d4605b31566016f6679d888799edb6efe8595ec Thu Oct 26 14:53:51 2017 -0700
    fixup the list for notEnsemblTranscriptId to remove dbs with ensGene tracks refs #20393
• src/hg/makeDb/trackDb/chainNet.html
  • lines changed 8, context: html, text, full: html, text
    5da2ec817f50858c6168c650e7c237c4ac43751b Wed Oct 25 13:03:56 2017 -0700
    fixing uniprot hg19 bug and removing dataVersion temporarily, refs #201414
• src/hg/makeDb/trackDb/crispr.html
  • lines changed 3, context: html, text, full: html, text
    2b811e36aa3fcea0b82554539e268e458c42430d Thu Oct 26 10:06:37 2017 -0700
    Fixing broken links for dm6, no Redmine
• src/hg/makeDb/trackDb/drosophila/dm6/cons27way.html
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    2b811e36aa3fcea0b82554539e268e458c42430d Thu Oct 26 10:06:37 2017 -0700
    Fixing broken links for dm6, no Redmine
• src/hg/makeDb/trackDb/drosophila/dm6/refGene.html
  • lines changed 3, context: html, text, full: html, text
    2b811e36aa3fcea0b82554539e268e458c42430d Thu Oct 26 10:06:37 2017 -0700
    Fixing broken links for dm6, no Redmine
• src/hg/makeDb/trackDb/human/chainNetLegacy.ra
  • lines changed 15, context: html, text, full: html, text
    5ebe8e073583b447d578d1c92436fa19dae070d2 Mon Oct 23 13:54:39 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
• src/hg/makeDb/trackDb/human/chainNetPrimate.ra
  • lines changed 491, context: html, text, full: html, text
    4fdfdaf637c86ded702ea684187d9608364eaf25 Mon Oct 23 13:59:48 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
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    679c983dac3ede4d8d57f13fdd49bc7d0117111f Tue Oct 24 07:53:16 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
  • lines changed 1, context: html, text, full: html, text
    4f73a4036b497b359ff20d1396bddc0cbfa6e800 Tue Oct 24 12:11:21 2017 -0700
    correct name of this composite track refs #200216
  • lines changed 78, context: html, text, full: html, text
    e42a11b8bd0471b5856be5275c9e249786dec8df Tue Oct 24 12:49:00 2017 -0700
    composite track is referenced in the sub-tracks, correct name everywhere refs #20216
  • lines changed 32, context: html, text, full: html, text
    7964fdd5f6bc230448d412e7ff90e72a5a0be327 Fri Oct 27 11:00:43 2017 -0700
    working up syntenic and recip best chainNet composites refs #20216
  • lines changed 106, context: html, text, full: html, text
    5c98f02d8d0dabe2cec8ab305b6dee180b1595d5 Sat Oct 28 10:17:11 2017 -0700
    better short labels refs #20216
• src/hg/makeDb/trackDb/human/chainNetRBestPrimate.ra
  • lines changed 530, context: html, text, full: html, text
    7964fdd5f6bc230448d412e7ff90e72a5a0be327 Fri Oct 27 11:00:43 2017 -0700
    working up syntenic and recip best chainNet composites refs #20216
  • lines changed 194, context: html, text, full: html, text
    5c98f02d8d0dabe2cec8ab305b6dee180b1595d5 Sat Oct 28 10:17:11 2017 -0700
    better short labels refs #20216
• src/hg/makeDb/trackDb/human/chainNetSynPrimate.ra
  • lines changed 562, context: html, text, full: html, text
    7964fdd5f6bc230448d412e7ff90e72a5a0be327 Fri Oct 27 11:00:43 2017 -0700
    working up syntenic and recip best chainNet composites refs #20216
  • lines changed 214, context: html, text, full: html, text
    5c98f02d8d0dabe2cec8ab305b6dee180b1595d5 Sat Oct 28 10:17:11 2017 -0700
    better short labels refs #20216
• src/hg/makeDb/trackDb/human/hg19/cons100way.html
  • lines changed 3, context: html, text, full: html, text
    5da2ec817f50858c6168c650e7c237c4ac43751b Wed Oct 25 13:03:56 2017 -0700
    fixing uniprot hg19 bug and removing dataVersion temporarily, refs #201414
• src/hg/makeDb/trackDb/human/hg19/gtexEqtl.ra
  • lines changed 219, context: html, text, full: html, text
    3859b3dff43bb126d2b08b2f3c2d1e4f9bfa14d8 Tue Oct 24 11:11:53 2017 -0700
    Cleanup GTEx eQTL track config; retire v1 designation, remove trackDb settings for non-EQTL tissues. refs #15646
• src/hg/makeDb/trackDb/human/hg19/gtexEqtl.v1.ra
  • lines changed 416, context: html, text, full: html, text
    3859b3dff43bb126d2b08b2f3c2d1e4f9bfa14d8 Tue Oct 24 11:11:53 2017 -0700
    Cleanup GTEx eQTL track config; retire v1 designation, remove trackDb settings for non-EQTL tissues. refs #15646
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
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    7d2f9adebad1e5e6a47f3fcd8f6e5354f5e7b333 Tue Oct 24 10:29:41 2017 -0700
    chainMicMur1 here causes difficlty refs #20216
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    3859b3dff43bb126d2b08b2f3c2d1e4f9bfa14d8 Tue Oct 24 11:11:53 2017 -0700
    Cleanup GTEx eQTL track config; retire v1 designation, remove trackDb settings for non-EQTL tissues. refs #15646
• src/hg/makeDb/trackDb/human/hg38/Bismap.html
  • lines changed 25, context: html, text, full: html, text
    dfabd6401afcd5bce3ae1bbf1fedd69021db44c9 Fri Oct 27 14:33:54 2017 -0700
    Removing the Google Analytics script in the HTML page for the Bismap tracks, refs #19154
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    0271a441e2bc14412e5aa5a443381331f9d67a0d Fri Oct 27 14:42:37 2017 -0700
    Removing leading whitespace left after removing the <BODY> html tag from the last commit, refs #19154
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    075be1825f9faa4adf8afcc1f114a753f44fb985 Fri Oct 27 15:09:55 2017 -0700
    Renaming the track description pages for the Bismap and Umap track to match our styling, refs #19154
• src/hg/makeDb/trackDb/human/hg38/Umap.html
  • lines changed 24, context: html, text, full: html, text
    206ad520491a4ba71b85ec7e0fb5021c1c4f6677 Fri Oct 27 14:50:28 2017 -0700
    Removing the Google Analytics script in the HTML page for the Umap tracks, refs #19154
  • lines changed 0, context: html, text, full: html, text
    96580e7ddbf1996efae0a68fc110c5999701ad45 Fri Oct 27 14:51:40 2017 -0700
    Removing leading whitespace left after removing the <BODY> html tag from the Umap tracks, refs #19154
  • lines changed 39, context: html, text, full: html, text
    075be1825f9faa4adf8afcc1f114a753f44fb985 Fri Oct 27 15:09:55 2017 -0700
    Renaming the track description pages for the Bismap and Umap track to match our styling, refs #19154
• src/hg/makeDb/trackDb/human/hg38/bismap.html
  • lines changed 52, context: html, text, full: html, text
    075be1825f9faa4adf8afcc1f114a753f44fb985 Fri Oct 27 15:09:55 2017 -0700
    Renaming the track description pages for the Bismap and Umap track to match our styling, refs #19154
• src/hg/makeDb/trackDb/human/hg38/cons100way.html
  • lines changed 2, context: html, text, full: html, text
    5da2ec817f50858c6168c650e7c237c4ac43751b Wed Oct 25 13:03:56 2017 -0700
    fixing uniprot hg19 bug and removing dataVersion temporarily, refs #201414
• src/hg/makeDb/trackDb/human/hg38/cons27way.html
  • lines changed 459, context: html, text, full: html, text
    5a204646f2a4a6e1e45bfc0e87a6c4953b2252ec Mon Oct 23 13:56:38 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
• src/hg/makeDb/trackDb/human/hg38/hoffMap.ra
  • lines changed 22, context: html, text, full: html, text
    249a2754d415a294813bbafe4b37bfe7911efb5a Fri Oct 27 15:14:04 2017 -0700
    Updating the trackDb file to point to the updated HTML page name, refs #19154
• src/hg/makeDb/trackDb/human/hg38/knownGeneOld9.html
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    8d06cedadf29ba51b01684a3352d9641a083bc9d Thu Oct 26 10:17:16 2017 -0700
    Fixing missing closing bracket on knownGeneOld9 description page that was causing hgTablesTest to complain.
• src/hg/makeDb/trackDb/human/hg38/trackDb.27way.ra
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    5a204646f2a4a6e1e45bfc0e87a6c4953b2252ec Mon Oct 23 13:56:38 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
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    4fdfdaf637c86ded702ea684187d9608364eaf25 Mon Oct 23 13:59:48 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
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    61539541b08175ba16dd5b041b0e28955d7abcc8 Fri Oct 27 16:41:31 2017 -0700
    Jairo noticed that the mm10 refSeqFuncElems track was pointing to an mm10 file in /gbdb/hg38/ -- fixed to use /gbdb/mm10 w/standard filename. Also added a couple suggestions for next time to the mm10.txt doc. refs #19638
• src/hg/makeDb/trackDb/human/hg38/umap.html
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    075be1825f9faa4adf8afcc1f114a753f44fb985 Fri Oct 27 15:09:55 2017 -0700
    Renaming the track description pages for the Bismap and Umap track to match our styling, refs #19154
• src/hg/makeDb/trackDb/human/trackDb.chainNet.ra
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    0ea5983d4c7361a905b2a050bb41ed784cd1de27 Sat Oct 28 10:22:38 2017 -0700
    working up syntenic and recip best chainNet composites refs #20216
• src/hg/makeDb/trackDb/human/trackDb.ra
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    7964fdd5f6bc230448d412e7ff90e72a5a0be327 Fri Oct 27 11:00:43 2017 -0700
    working up syntenic and recip best chainNet composites refs #20216
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    5c98f02d8d0dabe2cec8ab305b6dee180b1595d5 Sat Oct 28 10:17:11 2017 -0700
    better short labels refs #20216
• src/hg/makeDb/trackDb/marmoset/calJac3/trackDb.chainNet.ra
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    fb093188e27adfbac846c6659421449be6be79b7 Tue Oct 24 07:47:06 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
• src/hg/makeDb/trackDb/marmoset/trackDb.chainNet.ra
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    fb093188e27adfbac846c6659421449be6be79b7 Tue Oct 24 07:47:06 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
• src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra
  • lines changed 13, context: html, text, full: html, text
    61539541b08175ba16dd5b041b0e28955d7abcc8 Fri Oct 27 16:41:31 2017 -0700
    Jairo noticed that the mm10 refSeqFuncElems track was pointing to an mm10 file in /gbdb/hg38/ -- fixed to use /gbdb/mm10 w/standard filename. Also added a couple suggestions for next time to the mm10.txt doc. refs #19638
• src/hg/makeDb/trackDb/refGenePfam.html
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    2b811e36aa3fcea0b82554539e268e458c42430d Thu Oct 26 10:06:37 2017 -0700
    Fixing broken links for dm6, no Redmine
• src/hg/makeDb/trackDb/trackDb.chainNet.ra
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    94d765a1126e6bf7f1f5bbfa8b1fae7dfc5e7965 Mon Oct 23 13:53:33 2017 -0700
    fixing up chainNet composites on hg38 and mm10 refs #20216
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    4de281573b25b449fc527b7af5ae6d286c98fda9 Tue Oct 24 07:17:15 2017 -0700
    release tag needs to be is sub-stanzas fixing up chainNet composites on hg38 and mm10 refs #20216
• src/hg/makeDb/trackDb/trackDb.ra
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    61539541b08175ba16dd5b041b0e28955d7abcc8 Fri Oct 27 16:41:31 2017 -0700
    Jairo noticed that the mm10 refSeqFuncElems track was pointing to an mm10 file in /gbdb/hg38/ -- fixed to use /gbdb/mm10 w/standard filename. Also added a couple suggestions for next time to the mm10.txt doc. refs #19638
• src/hg/makeDb/trackDb/trackDb.uniprot.ra
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    5da2ec817f50858c6168c650e7c237c4ac43751b Wed Oct 25 13:03:56 2017 -0700
    fixing uniprot hg19 bug and removing dataVersion temporarily, refs #201414
• src/hg/makeDb/trackDb/uniprot.html
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    2b811e36aa3fcea0b82554539e268e458c42430d Thu Oct 26 10:06:37 2017 -0700
    Fixing broken links for dm6, no Redmine
• src/hg/utils/automation/doRecipBest.pl
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    8e61a32fe3e5f32981c141fe50c938e8edf36a8e Fri Oct 27 11:07:00 2017 -0700
    extend to allow loading of recip best chainNet tables refs #20216
• src/hg/utils/phyloTrees/chainNetCompositeTrackDb.pl
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    01944b512a611e4336f5ebcb8cd01d302f86cabc Fri Oct 27 11:02:44 2017 -0700
    expand to allow syntenic and recipBest composites refs #20216
• src/lib/font/README
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    88baafd974185837bf265f2b774d86300ab4c039 Thu Oct 26 06:36:53 2017 -0700
    spelling correction, no redmine
• src/utils/qa/weeklybld/buildEnv.csh
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    b70bcbcb35470784e3f675c5292cbda4f3ee1d6c Mon Oct 30 10:21:12 2017 -0700
    v357 final build refs #20358

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