All File Changes

v359_preview2 to v359_base (2017-12-11 to 2017-12-18) v359

• confs/preview.hg.conf
  • lines changed 244, context: html, text, full: html, text
    302f1f9289ba9421428a7dce386f4c83b5cdf2f6 Sun Dec 17 01:13:43 2017 -0800
    Installing updated hg.conf files from UCSC servers
• src/hg/cirm/cdw/cdwFindSymlinkable/cdwFindSymlinkable.c
  • lines changed 115, context: html, text, full: html, text
    11016cceed225b61fc829f7c4ca10062ae153b2e Mon Dec 11 13:44:03 2017 -0800
    Finding files that have been submitted via multiple paths using an inode report. refs#20653
• src/hg/cirm/cdw/cdwUnlockSubmittedFile/cdwUnlockSubmittedFile.c
  • lines changed 75, context: html, text, full: html, text
    9f1b0843eadf1668c6ab83cd6eaad47e7d447a40 Thu Dec 14 17:29:00 2017 -0800
    Making cdwUnloackSubmittedFile be a proper c program that uses the library functions we already developed for handling symlinks. Turns a symlinked file to the readonly submitted file under cdw/ back into a real writable file under submit/ or whereever the last symlink in the chain is.
• src/hg/cirm/cdw/cdwUnlockSubmittedFile/cdwUnlockSubmittedFile.csh
  • lines changed 19, context: html, text, full: html, text
    9f1b0843eadf1668c6ab83cd6eaad47e7d447a40 Thu Dec 14 17:29:00 2017 -0800
    Making cdwUnloackSubmittedFile be a proper c program that uses the library functions we already developed for handling symlinks. Turns a symlinked file to the readonly submitted file under cdw/ back into a real writable file under submit/ or whereever the last symlink in the chain is.
• src/hg/cirm/cdw/cdwUnlockSubmittedFile/makefile
  • lines changed 11, context: html, text, full: html, text
    9f1b0843eadf1668c6ab83cd6eaad47e7d447a40 Thu Dec 14 17:29:00 2017 -0800
    Making cdwUnloackSubmittedFile be a proper c program that uses the library functions we already developed for handling symlinks. Turns a symlinked file to the readonly submitted file under cdw/ back into a real writable file under submit/ or whereever the last symlink in the chain is.
• src/hg/cirm/cdw/cdwUnlockSubmittedFiles/cdwUnlockSubmittedFiles.c
  • lines changed 96, context: html, text, full: html, text
    7fa7e5b82acc6ccdf582ea2a9bdaa96d6104668b Tue Dec 12 13:05:12 2017 -0800
    Adding new utility for unlocking submitted files. This turns symlinks from submit/ to cdw/ back into real files. Requires fileIds be known to use.
• src/hg/cirm/cdw/cdwUnlockSubmittedFiles/makefile
  • lines changed 4, context: html, text, full: html, text
    7fa7e5b82acc6ccdf582ea2a9bdaa96d6104668b Tue Dec 12 13:05:12 2017 -0800
    Adding new utility for unlocking submitted files. This turns symlinks from submit/ to cdw/ back into real files. Requires fileIds be known to use.
• src/hg/cirm/cdw/inc/cdwLib.h
  • lines changed 7, context: html, text, full: html, text
    9f1b0843eadf1668c6ab83cd6eaad47e7d447a40 Thu Dec 14 17:29:00 2017 -0800
    Making cdwUnloackSubmittedFile be a proper c program that uses the library functions we already developed for handling symlinks. Turns a symlinked file to the readonly submitted file under cdw/ back into a real writable file under submit/ or whereever the last symlink in the chain is.
• src/hg/cirm/cdw/lib/cdwLib.c
  • lines changed 1, context: html, text, full: html, text
    9f1b0843eadf1668c6ab83cd6eaad47e7d447a40 Thu Dec 14 17:29:00 2017 -0800
    Making cdwUnloackSubmittedFile be a proper c program that uses the library functions we already developed for handling symlinks. Turns a symlinked file to the readonly submitted file under cdw/ back into a real writable file under submit/ or whereever the last symlink in the chain is.
• src/hg/cirm/cdw/makefile
  • lines changed 1, context: html, text, full: html, text
    7fa7e5b82acc6ccdf582ea2a9bdaa96d6104668b Tue Dec 12 13:05:12 2017 -0800
    Adding new utility for unlocking submitted files. This turns symlinks from submit/ to cdw/ back into real files. Requires fileIds be known to use.
• src/hg/cirm/cdw/oneShot/checkSymlinkTargetType/checkSymlinkTargetType.c
  • lines changed 144, context: html, text, full: html, text
    7c875b486c8767dc095cfa756031aabe33c8f4e8 Tue Dec 12 13:37:08 2017 -0800
    Utility for finding symlink structure. How many symlinks go to files, to dirs, or are broken. Can use to discover maximum symlink depth.
• src/hg/cirm/cdw/oneShot/checkSymlinkTargetType/countSymlinkDepth.csh
  • lines changed 14, context: html, text, full: html, text
    7c875b486c8767dc095cfa756031aabe33c8f4e8 Tue Dec 12 13:37:08 2017 -0800
    Utility for finding symlink structure. How many symlinks go to files, to dirs, or are broken. Can use to discover maximum symlink depth.
• src/hg/cirm/cdw/oneShot/checkSymlinkTargetType/makefile
  • lines changed 3, context: html, text, full: html, text
    7c875b486c8767dc095cfa756031aabe33c8f4e8 Tue Dec 12 13:37:08 2017 -0800
    Utility for finding symlink structure. How many symlinks go to files, to dirs, or are broken. Can use to discover maximum symlink depth.
• src/hg/hgCollection/hgCollection.c
  • lines changed 10, context: html, text, full: html, text
    a9ef87ba7d8b726b83b81adafb931e3e44c15998 Wed Dec 13 18:54:16 2017 -0800
    ongoing work on hgCollection
• src/hg/hgCustom/hgCustom.c
  • lines changed 11, context: html, text, full: html, text
    83981f86e707d9432c16723208f4c92fa3d5d753 Wed Dec 13 11:36:13 2017 -0800
    send hgCustom error messages to apache error log and commify the number of lines refs #20695
• src/hg/hgTablesTest/hgTablesTest.c
  • lines changed 4, context: html, text, full: html, text
    02c2bb1121d068e60621c3429ec0929371788cd7 Thu Dec 14 13:00:25 2017 -0800
    The change to count blank lines as output caused trouble in the absence of results because the 'no results' message included blank lines for emphasis. If output starts with the 'no results' message then skip it so its blank lines aren't counted. refs #20534 note-9
• src/hg/hgTracks/makefile
  • lines changed 1, context: html, text, full: html, text
    cd77fe9cfc5d64ab7ba0bb0a759f9ebdb77037c5 Sat Dec 16 08:44:24 2017 -0800
    do not need the -lm since libm.a is now available in the hgwdev environment no redmine
• src/hg/hgc/hgc.c
  • lines changed 1, context: html, text, full: html, text
    3fbd21cfd516b2b1bcf734e36f613f213f166c5a Mon Dec 11 17:24:43 2017 -0800
    Score is property of interaction, not endpoint. Responds to Hiram code review.
• src/hg/htdocs/goldenPath/help/bigBed.html
  • lines changed 3, context: html, text, full: html, text
    d0d2f49de4e6d4b712570747a1e828bea4667314 Tue Dec 12 15:59:58 2017 -0800
    Adding hint that fetchChromSizes not needed in older bigBed.html and bigWig.html pages
• src/hg/htdocs/goldenPath/help/bigNarrowPeak.html
  • lines changed 2, context: html, text, full: html, text
    148090e3c780c6cfdec2e43711f9a32b7b5db9f0 Tue Dec 12 15:40:27 2017 -0800
    Correcting code review input refs #20686
• src/hg/htdocs/goldenPath/help/bigWig.html
  • lines changed 6, context: html, text, full: html, text
    d0d2f49de4e6d4b712570747a1e828bea4667314 Tue Dec 12 15:59:58 2017 -0800
    Adding hint that fetchChromSizes not needed in older bigBed.html and bigWig.html pages
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.css
  • lines changed 3, context: html, text, full: html, text
    689fb8319f8f550ba83402f7b11c85b7a4bbc7ca Thu Dec 14 16:08:33 2017 -0800
    Changes to trackDbHub/Library/.css to change background to white, correct some html, add class levels to items so they show up in Table Of Contents column and add filter settings to bigNarrowPeak -an example should be added later refs #20655
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html
  • lines changed 1, context: html, text, full: html, text
    689fb8319f8f550ba83402f7b11c85b7a4bbc7ca Thu Dec 14 16:08:33 2017 -0800
    Changes to trackDbHub/Library/.css to change background to white, correct some html, add class levels to items so they show up in Table Of Contents column and add filter settings to bigNarrowPeak -an example should be added later refs #20655
• src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v2.html
  • lines changed 26, context: html, text, full: html, text
    689fb8319f8f550ba83402f7b11c85b7a4bbc7ca Thu Dec 14 16:08:33 2017 -0800
    Changes to trackDbHub/Library/.css to change background to white, correct some html, add class levels to items so they show up in Table Of Contents column and add filter settings to bigNarrowPeak -an example should be added later refs #20655
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 1, context: html, text, full: html, text
    689fb8319f8f550ba83402f7b11c85b7a4bbc7ca Thu Dec 14 16:08:33 2017 -0800
    Changes to trackDbHub/Library/.css to change background to white, correct some html, add class levels to items so they show up in Table Of Contents column and add filter settings to bigNarrowPeak -an example should be added later refs #20655
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 1, context: html, text, full: html, text
    148090e3c780c6cfdec2e43711f9a32b7b5db9f0 Tue Dec 12 15:40:27 2017 -0800
    Correcting code review input refs #20686
  • lines changed 34, context: html, text, full: html, text
    a55aafcab193c0afb93158fa6b3264e8d2b982dc Wed Dec 13 15:57:31 2017 -0800
    Announcing the release of the NCBI Functional Elements tracks for hg38 and mm10, refs #19638
  • lines changed 1, context: html, text, full: html, text
    baa449a061113e02e8c3a0420f4ffbe3ee2dae5e Wed Dec 13 16:05:51 2017 -0800
    Fixing a minor typo in the announcement, refs #19638
• src/hg/htdocs/images/phylo/cavPor3_6way.png
  • lines changed 0, context: html, text, full: html, text
    601b8695a7fb926e8019bff9d73d74ccddc4fc4a Sat Dec 16 20:49:10 2017 -0800
    cavPor3 6-way alignment no redmine
• src/hg/htdocs/images/phylo/hg38_5way.png
  • lines changed 0, context: html, text, full: html, text
    bd30e8ea58cec93fae6d5c2e1f100ecac40143d6 Sun Dec 17 09:07:50 2017 -0800
    hg38 5 way alignment no redmine;
• src/hg/htdocs/inc/hgCollection.html
  • lines changed 13, context: html, text, full: html, text
    a9ef87ba7d8b726b83b81adafb931e3e44c15998 Wed Dec 13 18:54:16 2017 -0800
    ongoing work on hgCollection
• src/hg/htdocs/indexNews.html
  • lines changed 13, context: html, text, full: html, text
    a55aafcab193c0afb93158fa6b3264e8d2b982dc Wed Dec 13 15:57:31 2017 -0800
    Announcing the release of the NCBI Functional Elements tracks for hg38 and mm10, refs #19638
• src/hg/inc/versionInfo.h
  • lines changed 1, context: html, text, full: html, text
    a918c18ac10288dfd3c9e8742358ccd8dc890f18 Mon Dec 18 09:53:40 2017 -0800
    New version number v359
• src/hg/js/hgCollection.js
  • lines changed 36, context: html, text, full: html, text
    a9ef87ba7d8b726b83b81adafb931e3e44c15998 Wed Dec 13 18:54:16 2017 -0800
    ongoing work on hgCollection
• src/hg/lib/hgHgvs.c
  • lines changed 2, context: html, text, full: html, text
    467f4d3064ca7f047614ce75ebc8eb48b156ae4d Mon Dec 11 15:36:25 2017 -0800
    Support NT_ and NW_ accessions in genomic HGVS terms (not just NC; some alts are NT/NW).
• src/hg/makeDb/doc/aotNan1/initialBuild.txt
  • lines changed 43, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/cavPor3.txt
  • lines changed 64, context: html, text, full: html, text
    c691f61b66a5040f3eb41babb1f8ef5f37a12300 Sat Dec 16 08:35:12 2017 -0800
    lastz chainNet tupChi1 to cavPor3 no redmine
  • lines changed 1509, context: html, text, full: html, text
    0fbc37d8eca80218c7af2a7a03c6964d4837e9d6 Sun Dec 17 20:59:41 2017 -0800
    running up 6-way alignment no redmine
• src/hg/makeDb/doc/cebCap1/initialBuild.txt
  • lines changed 42, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/cerAty1/initialBuild.txt
  • lines changed 47, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/colAng1/initialBuild.txt
  • lines changed 35, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/danRer10/drBlastTab.txt
  • lines changed 28, context: html, text, full: html, text
    95a4e63664fb67eff044cf38bcbb9abfcebf2a2a Sat Dec 16 08:37:25 2017 -0800
    ensGene build v89 completed refs #19526
• src/hg/makeDb/doc/eulFla1/initialBuild.txt
  • lines changed 4, context: html, text, full: html, text
    3fdba4b89cc6b806d11c0040f4aadc77bf338f45 Sat Dec 16 08:32:06 2017 -0800
    done with build QA ready refs #20265
• src/hg/makeDb/doc/felCat8/initialBuild.txt
  • lines changed 36, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/gorGor4/initialBuild.txt
  • lines changed 99, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/hg38/hg38Patch11.txt
  • lines changed 21, context: html, text, full: html, text
    4bf397ff14cd06a9714f6fd89c530a6eecab7f86 Sat Dec 16 08:36:14 2017 -0800
    catching up a couple of result outputs refs #19665
• src/hg/makeDb/doc/macFas5/initialBuild.txt
  • lines changed 121, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/macNem1/initialBuild.txt
  • lines changed 30, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/makeEnsembl.txt
  • lines changed 104, context: html, text, full: html, text
    c501813df9f6a642b5523c817da4930ebb052b78 Fri Dec 15 14:49:22 2017 -0800
    ensGene v91 update procedure refs #20696
• src/hg/makeDb/doc/manLeu1/initialBuild.txt
  • lines changed 31, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/micMur3/initialBuild.txt
  • lines changed 31, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/mm10.txt
  • lines changed 31, context: html, text, full: html, text
    7c46ac53d770f319b80cd70e33f7d21ad36827f4 Sun Dec 17 18:22:05 2017 -0800
    import of GENCODE mouse VM16
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    c474dbc5167adc912e589bbd92ba7aaa3ddd2c59 Sun Dec 17 19:04:01 2017 -0800
    automatically generate list of gencode tables for redmine
• src/hg/makeDb/doc/neoSch1/initialBuild.txt
  • lines changed 57, context: html, text, full: html, text
    5920f716b5c80b2430580c6241e618494303d417 Sat Dec 16 08:33:07 2017 -0800
    build in progress refs #19883
• src/hg/makeDb/doc/nomLeu3.txt
  • lines changed 74, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/panPan2/initialBuild.txt
  • lines changed 31, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/panTro5/initialBuild.txt
  • lines changed 39, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/proCoq1/initialBuild.txt
  • lines changed 42, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/rhiBie1/initialBuild.txt
  • lines changed 35, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/rhiRox1/initialBuild.txt
  • lines changed 73, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/saiBol1.txt
  • lines changed 64, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/doc/staAur1/initialBuild.txt
  • lines changed 268, context: html, text, full: html, text
    8a4b1dbd2b586657fce97abec548578f8bbd4313 Sat Dec 16 08:34:35 2017 -0800
    QA ready refs #19937
• src/hg/makeDb/doc/tarSyr2/initialBuild.txt
  • lines changed 43, context: html, text, full: html, text
    d66c4e262de72e7ec06e5c24dce10dd69a600505 Fri Dec 15 14:37:35 2017 -0800
    fixing up chromAlias tables for new Ensembl v91 release refs #20696
• src/hg/makeDb/hgLoadBed/hgLoadBed.c
  • lines changed 3, context: html, text, full: html, text
    83981f86e707d9432c16723208f4c92fa3d5d753 Wed Dec 13 11:36:13 2017 -0800
    send hgCustom error messages to apache error log and commify the number of lines refs #20695
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    56511591e22f84aa3d52b7170c08f6f0bd44c6dc Thu Dec 14 10:53:48 2017 -0800
    use actual URLs in the error message for data line limit refs #20541
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    04bb3e4f6b8dc30d3c2b659d03a15e6d3980255b Fri Dec 15 09:36:20 2017 -0800
    the error message URLs to help doc should be relative references refs #20541
• src/hg/makeDb/outside/gencode/gencodeLoad.mk
  • lines changed 3, context: html, text, full: html, text
    7c46ac53d770f319b80cd70e33f7d21ad36827f4 Sun Dec 17 18:22:05 2017 -0800
    import of GENCODE mouse VM16
  • lines changed 15, context: html, text, full: html, text
    c474dbc5167adc912e589bbd92ba7aaa3ddd2c59 Sun Dec 17 19:04:01 2017 -0800
    automatically generate list of gencode tables for redmine
• src/hg/makeDb/schema/all.joiner
  • lines changed 91, context: html, text, full: html, text
    7c46ac53d770f319b80cd70e33f7d21ad36827f4 Sun Dec 17 18:22:05 2017 -0800
    import of GENCODE mouse VM16
• src/hg/makeDb/trackDb/bacteria/staAur1/trackDb.ra
  • lines changed 17, context: html, text, full: html, text
    69c0748fd0bb62b57cb9e7588ee086263f7fe955 Sat Dec 16 08:49:30 2017 -0800
    add gold table search rule and ncbiGene track refs #19937
• src/hg/makeDb/trackDb/guineaPig/cavPor3/cons6way.html
  • lines changed 424, context: html, text, full: html, text
    a6114beb5f9f5f73737c47c4db6efdf5c2437b38 Sat Dec 16 23:45:20 2017 -0800
    adding 6-way alignment no redmine
• src/hg/makeDb/trackDb/guineaPig/cavPor3/trackDb.5way.ra
  • lines changed 1, context: html, text, full: html, text
    a6114beb5f9f5f73737c47c4db6efdf5c2437b38 Sat Dec 16 23:45:20 2017 -0800
    adding 6-way alignment no redmine
• src/hg/makeDb/trackDb/guineaPig/cavPor3/trackDb.6way.ra
  • lines changed 102, context: html, text, full: html, text
    a6114beb5f9f5f73737c47c4db6efdf5c2437b38 Sat Dec 16 23:45:20 2017 -0800
    adding 6-way alignment no redmine
• src/hg/makeDb/trackDb/guineaPig/cavPor3/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    b72a30eddc43cd4470521e6b40556004a1b8ec50 Sat Dec 16 23:47:47 2017 -0800
    adding 6-way alignment no redmine
• src/hg/makeDb/trackDb/human/hg38/cons30way.html
  • lines changed 12, context: html, text, full: html, text
    474418266211df04b9aa4b5c77bc3471ded6908d Tue Dec 12 16:17:05 2017 -0800
    Removing duplicate blurb in cons30way.html
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    6ece42621050b346c4fcadaceb7ee36bc0cd7e74 Tue Dec 12 16:38:41 2017 -0800
    updating table to newer style border, refs #20216
• src/hg/makeDb/trackDb/human/hg38/trackDb.30way.ra
  • lines changed 2, context: html, text, full: html, text
    03b26a3c014e6d0d63d26779dd41539e10e3cd75 Fri Dec 15 16:26:22 2017 -0800
    Turning on subtrack wiggles for cons30way, refs #20216
• src/hg/makeDb/trackDb/mouse/mm10/trackDb.gencode.ra
  • lines changed 1, context: html, text, full: html, text
    7c46ac53d770f319b80cd70e33f7d21ad36827f4 Sun Dec 17 18:22:05 2017 -0800
    import of GENCODE mouse VM16
• src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeSuper.html
  • lines changed 2, context: html, text, full: html, text
    7c46ac53d770f319b80cd70e33f7d21ad36827f4 Sun Dec 17 18:22:05 2017 -0800
    import of GENCODE mouse VM16
• src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM16.html
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    7c46ac53d770f319b80cd70e33f7d21ad36827f4 Sun Dec 17 18:22:05 2017 -0800
    import of GENCODE mouse VM16
• src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM16.ra
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    7c46ac53d770f319b80cd70e33f7d21ad36827f4 Sun Dec 17 18:22:05 2017 -0800
    import of GENCODE mouse VM16
• src/hg/makeDb/trackDb/primate/cebCap1/trackDb.ra
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    8f6e01ecbc95a96dc24b64f027fbfcbf327e0537 Sat Dec 16 08:46:05 2017 -0800
    adding gold table search rule refs @20237
• src/hg/makeDb/trackDb/rabbit/oryCun2/gap.html
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    b47af60c7ed24b6419504fb54a59ecaacfb5554a Thu Dec 14 08:16:31 2017 -0800
    Fixing broken links found by the broken link report, no Redmine.
• src/hg/makeDb/trackDb/rabbit/oryCun2/gold.html
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    b47af60c7ed24b6419504fb54a59ecaacfb5554a Thu Dec 14 08:16:31 2017 -0800
    Fixing broken links found by the broken link report, no Redmine.
• src/hg/makeDb/trackDb/trackDb.ra
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    a67134845693100c593f9479bc0a7c707c498f03 Wed Dec 13 14:01:32 2017 -0800
    Releasing the RefSeq Functional Elements, refs #19638
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    826f0b8ad6adf835c59c1753e30d4ef823eff450 Wed Dec 13 14:04:36 2017 -0800
    Updating the date released to the RR, refs #19638
• src/hg/makeDb/trackDb/worm/ce11/cons26way.html
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    c46482a62f47c9ca9af39e2cc6fbddce3a533baa Tue Dec 12 08:36:39 2017 -0800
    Fixing broken links for ce11, no Redmine.
• src/hg/makeDb/trackDb/worm/ws245Genes.html
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    c46482a62f47c9ca9af39e2cc6fbddce3a533baa Tue Dec 12 08:36:39 2017 -0800
    Fixing broken links for ce11, no Redmine.
• src/hg/pslFilterPrimers/pslFilterPrimers.c
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    d63897007e6ea85ec4fd1d0d5f827ce08295a3fa Sat Dec 16 08:52:38 2017 -0800
    tweaking for hg38 stsMap build refs #15524
• src/hg/utils/automation/EnsGeneAutomate.pm
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    93cb2e7253ed63c45e098f4d94ba873c18a29363 Tue Dec 12 13:43:36 2017 -0800
    adding v91 definitions refs #20696
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    7fadab3508b2b27ef03c1e60259e8c6a564483eb Tue Dec 12 13:51:57 2017 -0800
    correcting v91 definitions refs #20696
• src/hg/utils/automation/doBlastzChainNet.pl
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    8acb7920b83dc4ab19a7ea3f4d6fe6e00b40c40a Mon Dec 11 19:03:11 2017 -0800
    working fairly well outside UCSC environment refs #18874
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    760729304e81fdf6c338f81203a1735f2dffb5bb Sat Dec 16 08:40:30 2017 -0800
    fixup manual featureBits calculation and fixing recip best procedures refs #18874
• src/hg/utils/automation/doIdKeys.pl
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    5b084725369bcf0eab67fe011aa031de2e12d71d Thu Dec 14 09:53:41 2017 -0800
    check for 2bit file at the beginning refs #20696
• src/hg/utils/automation/doRecipBest.pl
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    760729304e81fdf6c338f81203a1735f2dffb5bb Sat Dec 16 08:40:30 2017 -0800
    fixup manual featureBits calculation and fixing recip best procedures refs #18874
• src/hg/utils/automation/prepConfig.pl
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    a478c5eddb546a8a6c683f529b74e3567deedb2c Sat Dec 16 08:51:03 2017 -0800
    better recognition of common name refs #18706
• src/hg/utils/hubCheck/hubCheck.c
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    9750c7ed378b07103f52d76e6499bffc341d8d4d Mon Dec 11 15:35:18 2017 -0800
    recognize bigNarrowPeak
• src/hg/utils/phyloTrees/commonNames.sh
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    7605a5c48a00769c900cd8d9485e368de1c837d3 Sat Dec 16 08:47:00 2017 -0800
    catching up with some new assemblies no redmine
• src/hg/utils/phyloTrees/vertebrates.txt
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    7605a5c48a00769c900cd8d9485e368de1c837d3 Sat Dec 16 08:47:00 2017 -0800
    catching up with some new assemblies no redmine
• src/inc/srcVersion.h
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    a918c18ac10288dfd3c9e8742358ccd8dc890f18 Mon Dec 18 09:53:40 2017 -0800
    New version number v359
• src/utils/crisprKmers/crisprKmers.c
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    7aa626855041b85534cfa3855a924583e553d3c7 Sat Dec 16 08:48:21 2017 -0800
    improve output format refs #18969
• src/utils/qa/weeklybld/buildEnv.csh
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    ff47ba19daadc0b6608d6069750d559b6c880af2 Mon Dec 18 09:52:54 2017 -0800
    v359 final build refs #20654

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