All File Changes

v353_preview to v353_preview2 (2017-07-24 to 2017-07-31) v353

• src/hg/cirm/cdw/cdwWebBrowse/cdwWebBrowse.c
  • lines changed 3, context: html, text, full: html, text
    ece274aa3abfd685d2e6d9393bc442855d9e1a82 Thu Jul 27 17:29:21 2017 -0700
    CIRM: fixing dagre broken over https, refs #19855
• src/hg/cirm/gateway/htdocs/cescgOrg.html
  • lines changed 9, context: html, text, full: html, text
    af944166590e9af1575ee158f9b9af219ecc9123 Fri Jul 28 10:16:17 2017 -0700
    Minor formatting changes to cescg organization page, refs #19709
• src/hg/cirm/gateway/htdocs/footer.html
  • lines changed 69, context: html, text, full: html, text
    bc3ff21ae03dcfb551097ba8778607ffa9bc1991 Fri Jul 28 10:07:13 2017 -0700
    Minor changes to header. Added new tools button, moved reference to stylesheet, changed menu bar links. Major changes to footer. Removed a number of items as they were redundant with header menu bar, removed link section titles, moved CIRM social media icons into a little square formation, renamed some footer links to be more succinct. refs #19709
• src/hg/cirm/gateway/htdocs/header.html
  • lines changed 37, context: html, text, full: html, text
    bc3ff21ae03dcfb551097ba8778607ffa9bc1991 Fri Jul 28 10:07:13 2017 -0700
    Minor changes to header. Added new tools button, moved reference to stylesheet, changed menu bar links. Major changes to footer. Removed a number of items as they were redundant with header menu bar, removed link section titles, moved CIRM social media icons into a little square formation, renamed some footer links to be more succinct. refs #19709
• src/hg/cirm/gateway/htdocs/index.html
  • lines changed 12, context: html, text, full: html, text
    3301bcce3caf38854ef1c8ff64843209cb7513f1 Fri Jul 28 10:14:58 2017 -0700
    Minor formatting changes to index and tools pages, refs #19709
• src/hg/cirm/gateway/htdocs/projects.html
  • lines changed 7, context: html, text, full: html, text
    cfa6c1218631e6b21abc806762e4d9e8475d83a5 Fri Jul 28 10:20:56 2017 -0700
    Adding tags for heading text and text body, refs #19709
• src/hg/cirm/gateway/htdocs/style/cirmStyle.css
  • lines changed 70, context: html, text, full: html, text
    27f7e0403a588457b305f6474f493636a86f184d Fri Jul 28 10:18:31 2017 -0700
    Removing some seemingly unnecessary sections, adding a few new classes to allow for proper formatting of page heading text as well as page body, refs #19709
• src/hg/cirm/gateway/htdocs/tools.html
  • lines changed 8, context: html, text, full: html, text
    3301bcce3caf38854ef1c8ff64843209cb7513f1 Fri Jul 28 10:14:58 2017 -0700
    Minor formatting changes to index and tools pages, refs #19709
• src/hg/hgCollection/hgCollection.c
  • lines changed 821, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/hgCollection/makefile
  • lines changed 17, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/hgComposite/hgComposite.c
  • lines changed 1240, context: html, text, full: html, text
    809c73c649a713c1357c72a11cffe018dfa25feb Sat Jul 29 15:32:40 2017 -0700
    remove hgComposite (RIP)
• src/hg/hgComposite/makefile
  • lines changed 17, context: html, text, full: html, text
    809c73c649a713c1357c72a11cffe018dfa25feb Sat Jul 29 15:32:40 2017 -0700
    remove hgComposite (RIP)
• src/hg/hgTracks/gtexEqtlClusterTrack.c
  • lines changed 142, context: html, text, full: html, text
    1445a50dd41d52c33e6c882a0ab4961b20c9752e Tue Jul 25 12:14:48 2017 -0700
    1. Rename, reorder and change signatures of utility functions to clarify code, as per Angie code review. 2. Relabel link to GTEx portal viz, as per feedback from Farhad H. refs #15646
• src/hg/hgTracks/hgTracks.c
  • lines changed 1, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/hgc/gtexEqtlClusterClick.c
  • lines changed 11, context: html, text, full: html, text
    1445a50dd41d52c33e6c882a0ab4961b20c9752e Tue Jul 25 12:14:48 2017 -0700
    1. Rename, reorder and change signatures of utility functions to clarify code, as per Angie code review. 2. Relabel link to GTEx portal viz, as per feedback from Farhad H. refs #15646
• src/hg/htdocs/ENCODE/FAQ/index.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/ENCODE/index.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/ENCODE/news_archive.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/ENCODE/newsarch.html
  • lines changed 2, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/ENCODE/regions.html
  • lines changed 55, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/FAQ/FAQblat.html
  • lines changed 3, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/FAQ/FAQformat.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/FAQ/FAQlicense.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/admin/cvs.html
  • lines changed 3, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/admin/git.html
  • lines changed 7, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/admin/hgFindSpecHowTo.html
  • lines changed 2, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/admin/jk-install.html
  • lines changed 5, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/bigImage.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/cite.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/goldenPath/help/genomeEuro.html
  • lines changed 1, context: html, text, full: html, text
    405f039376a557c348005b6963b170686b64cf31 Thu Jul 27 13:59:47 2017 -0700
    fixing typo on page
• src/hg/htdocs/goldenPath/help/hgCollectionHelp.html
  • lines changed 127, context: html, text, full: html, text
    809c73c649a713c1357c72a11cffe018dfa25feb Sat Jul 29 15:32:40 2017 -0700
    remove hgComposite (RIP)
• src/hg/htdocs/goldenPath/help/hgCompositeHelp.html
  • lines changed 127, context: html, text, full: html, text
    809c73c649a713c1357c72a11cffe018dfa25feb Sat Jul 29 15:32:40 2017 -0700
    remove hgComposite (RIP)
• src/hg/htdocs/goldenPath/help/hgSessionHelp.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/goldenPath/pubs.html
  • lines changed 1, context: html, text, full: html, text
    00b7a29c15d0269d6af705839c184ab240e38d7e Mon Jul 24 13:25:33 2017 -0700
    Fixing bad pubs url, refs #19840
  • lines changed 16, context: html, text, full: html, text
    a252484f3581fd726e2352c15ccc069e5165d562 Mon Jul 24 17:41:43 2017 -0700
    Fixing 16 additional bad pubs urls, refs #19840
  • lines changed 1, context: html, text, full: html, text
    864db4149a5670ca3845391a817a9cfd54268806 Mon Jul 24 17:51:14 2017 -0700
    Fixing 1 more bad pubs url, refs #19840
• src/hg/htdocs/inc/hgCollection.html
  • lines changed 3, context: html, text, full: html, text
    72f33e3f318d92621ce7c1fff0f0c68a6e138e58 Wed Jul 5 10:19:49 2017 -0700
    hgCollection HTML
• src/hg/htdocs/kc.html
  • lines changed 2, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/htdocs/style/jquery.treetable.css
  • lines changed 28, context: html, text, full: html, text
    be450f3975d3b05b8f77b827eb73d0afad2bd14b Sat Jul 29 16:19:19 2017 -0700
    oops.. need treetable
• src/hg/htdocs/style/jquery.treetable.theme.default.css
  • lines changed 87, context: html, text, full: html, text
    be450f3975d3b05b8f77b827eb73d0afad2bd14b Sat Jul 29 16:19:19 2017 -0700
    oops.. need treetable
• src/hg/htdocs/style/makefile
  • lines changed 1, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/htdocs/training/ashg2009/pageAdvTwo.html
  • lines changed 1, context: html, text, full: html, text
    cae4609ba1a4494ad305fd13aa2a88b12fdbe47c Wed Jul 26 15:30:20 2017 -0700
    More cse to soe changes in htdocs, refs #19134
• src/hg/inc/hCommon.h
  • lines changed 1, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/js/dagre-d3.js
  • lines changed 17572, context: html, text, full: html, text
    ece274aa3abfd685d2e6d9393bc442855d9e1a82 Thu Jul 27 17:29:21 2017 -0700
    CIRM: fixing dagre broken over https, refs #19855
• src/hg/js/hgCollection.js
  • lines changed 251, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/js/jquery.treetable.js
  • lines changed 629, context: html, text, full: html, text
    be450f3975d3b05b8f77b827eb73d0afad2bd14b Sat Jul 29 16:19:19 2017 -0700
    oops.. need treetable
• src/hg/js/makefile
  • lines changed 1, context: html, text, full: html, text
    ece274aa3abfd685d2e6d9393bc442855d9e1a82 Thu Jul 27 17:29:21 2017 -0700
    CIRM: fixing dagre broken over https, refs #19855
  • lines changed 3, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/lib/customFactory.c
  • lines changed 2, context: html, text, full: html, text
    9d5b06f905c0e52d661220bcf3815741cc0fb2e8 Wed Jul 26 16:17:39 2017 -0700
    eliminate duplicated ctTouchLastUse() call no redmine
• src/hg/lib/hCommon.c
  • lines changed 3, context: html, text, full: html, text
    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/makeDb/doc/hg19.txt
  • lines changed 31, context: html, text, full: html, text
    2a2bdcac83f874470cd2261b2de752476219b802 Thu Jul 27 12:25:21 2017 -0700
    Adding in documentation for hg19 backlift of GTEx track ,refs #19350
• src/hg/makeDb/doc/mm10.txt
  • lines changed 178, context: html, text, full: html, text
    8ba05119d99c255424d8a1a2eed08bc5488814cc Mon Jul 31 10:07:53 2017 -0700
    add crispr.10K procedure and running up lastz for susScr11 and oreNil3 refs #19874 #19859 #19879
• src/hg/makeDb/doc/mouseStrains/GCA_001624185.1_129S1_SvImJ_v1/GCA_001624185.1_129S1_SvImJ_v1.bigMaf.trackDb.txt
  • lines changed 2, context: html, text, full: html, text
    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624215.1_A_J_v1/GCA_001624215.1_A_J_v1.bigMaf.trackDb.txt
  • lines changed 2, context: html, text, full: html, text
    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624295.1_AKR_J_v1/GCA_001624295.1_AKR_J_v1.bigMaf.trackDb.txt
  • lines changed 2, context: html, text, full: html, text
    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624445.1_CAST_EiJ_v1/GCA_001624445.1_CAST_EiJ_v1.bigMaf.trackDb.txt
  • lines changed 2, context: html, text, full: html, text
    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624475.1_CBA_J_v1/GCA_001624475.1_CBA_J_v1.bigMaf.trackDb.txt
  • lines changed 2, context: html, text, full: html, text
    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624505.1_DBA_2J_v1/GCA_001624505.1_DBA_2J_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624535.1_FVB_NJ_v1/GCA_001624535.1_FVB_NJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624675.1_NOD_ShiLtJ_v1/GCA_001624675.1_NOD_ShiLtJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624745.1_NZO_HlLtJ_v1/GCA_001624745.1_NZO_HlLtJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624775.1_PWK_PhJ_v1/GCA_001624775.1_PWK_PhJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624835.1_WSB_EiJ_v1/GCA_001624835.1_WSB_EiJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624865.1_SPRET_EiJ_v1/GCA_001624865.1_SPRET_EiJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632525.1_BALB_cJ_v1/GCA_001632525.1_BALB_cJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632555.1_C57BL_6NJ_v1/GCA_001632555.1_C57BL_6NJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632575.1_C3H_HeJ_v1/GCA_001632575.1_C3H_HeJ_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632615.1_LP_J_v1/GCA_001632615.1_LP_J_v1.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/hubIndex.html
  • lines changed 1, context: html, text, full: html, text
    7df93009d4fa5fa56601936b787e96abfbb15419 Fri Jul 28 13:47:19 2017 -0700
    Fixing a typo. Changing 'stain' to 'strain', no redmine
• src/hg/makeDb/doc/mouseStrains/mm10/mm10.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/mouseStrains/mouseStrains.html
  • lines changed 1, context: html, text, full: html, text
    dfafedadfdcd5b6a74608a954fb8f634604c6d46 Tue Jul 25 08:40:40 2017 -0700
    Changing progressiveCactus (script name) to Progressive Cactus, CR #19853
• src/hg/makeDb/doc/mouseStrains/rn6/rn6.bigMaf.trackDb.txt
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    0d86757cea7e7fb289b2f6d4104c370d35ff1cc5 Wed Jul 26 09:26:19 2017 -0700
    Captializing 'mice strains' and adding this track to the Comparative Genomics group, refs #13553
• src/hg/makeDb/doc/oreNil3/initialBuild.txt
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    e0d8b75b9c7c35528390d5c16141a1b94a8079f7 Sat Jul 29 10:27:20 2017 -0700
    ready for some pairWise alignments refs #19879
• src/hg/makeDb/doc/susScr11/initialBuild.txt
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    ca0f41c103a9bcfdf3be9c595ae17b7248f3d55e Tue Jul 25 14:51:11 2017 -0700
    running up repeatMasker for susScr11 refs #19859
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    edbdf249d5730d636f46b6fcfe3019988fc2280b Sat Jul 29 11:00:31 2017 -0700
    ready for pair-wise alignments refs #19859
• src/hg/makeDb/genbank/etc/align.dbs
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    a91fb9071ad6a67fb99e3e197bd6120a81051291 Sat Jul 29 09:54:57 2017 -0700
    Added oreNil3 - Nile tilapia refs #19879
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    eec976f8d7ec01f234e41a8b327e0309b0ecd9c1 Sat Jul 29 10:30:58 2017 -0700
    Added susScr11 - pig refs #19859
• src/hg/makeDb/genbank/etc/genbank.conf
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    5d8b22f5b54930bec33cab3f81c8ddf8c33da8aa Thu Jul 27 20:46:47 2017 -0700
    Added susScr11; refs #19879
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    b5a3d8778deb037aecbbc698e4485faf957f1666 Thu Jul 27 20:48:54 2017 -0700
    Added susScr11; refs #19879
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    e25a611e1efa1976bcc0705a1d8b711bbd615f0f Thu Jul 27 20:57:51 2017 -0700
    Added oreNil3; refs #19879
• src/hg/makeDb/genbank/etc/hgwdev.dbs
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    a91fb9071ad6a67fb99e3e197bd6120a81051291 Sat Jul 29 09:54:57 2017 -0700
    Added oreNil3 - Nile tilapia refs #19879
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    eec976f8d7ec01f234e41a8b327e0309b0ecd9c1 Sat Jul 29 10:30:58 2017 -0700
    Added susScr11 - pig refs #19859
• src/hg/makeDb/schema/all.joiner
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    5d0f9197b76d7729cf53cb4a6b394fa842a15f51 Sat Jul 29 10:26:19 2017 -0700
    adding oreNil3 rules refs #19879
• src/hg/makeDb/trackDb/human/cosmicRegions.html
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    6dff70bfa08d5fdf784f50ee76fe35ca806a8051 Wed Jul 26 11:52:10 2017 -0700
    Updating cosmic description page and making cosmic completely unavailable from the table browser, refs #18919
• src/hg/makeDb/trackDb/human/hg19/barCharts.ra
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    5e97017d84ce5ac51b999790459052afbd43312c Thu Jul 27 13:27:45 2017 -0700
    Making the GTEx super track the first item in the Expression group, refs #19350
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    542cacc4f4da10acdf94bca57af77655000a97ea Thu Jul 27 14:51:38 2017 -0700
    Capitalizing the 'e' in expression for the longLabel, refs #19350
• src/hg/makeDb/trackDb/human/hg19/gtexTranscriptExpression.html
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    29d338ee6aa4d80b5a5c0e30ba03d410b27a9aff Thu Jul 27 15:10:33 2017 -0700
    html page for hg19 gtex transcript track, refs #19350
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
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    6dff70bfa08d5fdf784f50ee76fe35ca806a8051 Wed Jul 26 11:52:10 2017 -0700
    Updating cosmic description page and making cosmic completely unavailable from the table browser, refs #18919
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    095f08b40a5296650a52b68a4241344711e42f3c Thu Jul 27 13:56:50 2017 -0700
    Removing old cosmic track from public, making new version public, refs #18919
• src/hg/makeDb/trackDb/human/hg38/barCharts.ra
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    5e97017d84ce5ac51b999790459052afbd43312c Thu Jul 27 13:27:45 2017 -0700
    Making the GTEx super track the first item in the Expression group, refs #19350
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    542cacc4f4da10acdf94bca57af77655000a97ea Thu Jul 27 14:51:38 2017 -0700
    Capitalizing the 'e' in expression for the longLabel, refs #19350
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    901cd01a0b4f5a923220a98c4c5b752bac6a5565 Fri Jul 28 12:27:42 2017 -0700
    Fixing capitalization in the long and short labels, refs #19155
• src/hg/makeDb/trackDb/human/hg38/gtexTranscriptExpression.html
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    932120a95f9d29e26e6e0bf1186a898efe9f6548 Thu Jul 27 14:45:17 2017 -0700
    Removing an old paragraph from the track descriptio, refs #19350
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
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    6dff70bfa08d5fdf784f50ee76fe35ca806a8051 Wed Jul 26 11:52:10 2017 -0700
    Updating cosmic description page and making cosmic completely unavailable from the table browser, refs #18919
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    095f08b40a5296650a52b68a4241344711e42f3c Thu Jul 27 13:56:50 2017 -0700
    Removing old cosmic track from public, making new version public, refs #18919
• src/hg/makeDb/trackDb/human/trackDb.ra
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    095f08b40a5296650a52b68a4241344711e42f3c Thu Jul 27 13:56:50 2017 -0700
    Removing old cosmic track from public, making new version public, refs #18919
• src/hg/makeDb/trackDb/makefile
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    eebd828cfa28186771c8ec257acc99f5cb467089 Tue Jul 25 11:21:39 2017 -0700
    adding susScr11 to the browser and fixup makeGenomeDb.pl to recognize new types of gaps refs #19859
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    e4186ca1bb268888a0ea790c1b5286506955b5a0 Thu Jul 27 11:50:09 2017 -0700
    adding oreNil3 to the browser refs #19879
• src/hg/makeDb/trackDb/oreNil/oreNil3/description.html
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    e4186ca1bb268888a0ea790c1b5286506955b5a0 Thu Jul 27 11:50:09 2017 -0700
    adding oreNil3 to the browser refs #19879
• src/hg/makeDb/trackDb/oreNil/oreNil3/gap.html
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    e4186ca1bb268888a0ea790c1b5286506955b5a0 Thu Jul 27 11:50:09 2017 -0700
    adding oreNil3 to the browser refs #19879
• src/hg/makeDb/trackDb/oreNil/oreNil3/gold.html
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    e4186ca1bb268888a0ea790c1b5286506955b5a0 Thu Jul 27 11:50:09 2017 -0700
    adding oreNil3 to the browser refs #19879
• src/hg/makeDb/trackDb/oreNil/oreNil3/trackDb.ra
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    e4186ca1bb268888a0ea790c1b5286506955b5a0 Thu Jul 27 11:50:09 2017 -0700
    adding oreNil3 to the browser refs #19879
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    f452aafd9d7c900070843984ac1f158b9da0c146 Sat Jul 29 10:02:44 2017 -0700
    Added gold table search rules refs #19879
• src/hg/makeDb/trackDb/pig/susScr11/description.html
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    eebd828cfa28186771c8ec257acc99f5cb467089 Tue Jul 25 11:21:39 2017 -0700
    adding susScr11 to the browser and fixup makeGenomeDb.pl to recognize new types of gaps refs #19859
• src/hg/makeDb/trackDb/pig/susScr11/gap.html
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    eebd828cfa28186771c8ec257acc99f5cb467089 Tue Jul 25 11:21:39 2017 -0700
    adding susScr11 to the browser and fixup makeGenomeDb.pl to recognize new types of gaps refs #19859
• src/hg/makeDb/trackDb/pig/susScr11/gold.html
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    eebd828cfa28186771c8ec257acc99f5cb467089 Tue Jul 25 11:21:39 2017 -0700
    adding susScr11 to the browser and fixup makeGenomeDb.pl to recognize new types of gaps refs #19859
• src/hg/makeDb/trackDb/pig/susScr11/trackDb.ra
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    eebd828cfa28186771c8ec257acc99f5cb467089 Tue Jul 25 11:21:39 2017 -0700
    adding susScr11 to the browser and fixup makeGenomeDb.pl to recognize new types of gaps refs #19859
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    4c3b5c61f1201409474e58ad530969661246b177 Sat Jul 29 10:58:58 2017 -0700
    add gold table search rule refs #19859
• src/hg/makefile
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    809c73c649a713c1357c72a11cffe018dfa25feb Sat Jul 29 15:32:40 2017 -0700
    remove hgComposite (RIP)
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    53a520d17d725ceacf50f5eecead0c75470ce48a Sat Jul 29 16:13:58 2017 -0700
    adding hgCollection, a tool to build custom collections of tracks
• src/hg/mouseStuff/mafToFa/makefile
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    ebd0ff8090407946c1b4208f99dbdf519fed40e9 Tue Jul 25 22:38:09 2017 -0700
    modern makefile allows binary to build no redmine
• src/hg/utils/automation/makeGenomeDb.pl
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    eebd828cfa28186771c8ec257acc99f5cb467089 Tue Jul 25 11:21:39 2017 -0700
    adding susScr11 to the browser and fixup makeGenomeDb.pl to recognize new types of gaps refs #19859
• src/hg/utils/refSeqGet/refSeqGet.c
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    2e07f2a69d3a478be8fc00cffbcf1812a3adeef4 Wed Jul 26 08:10:44 2017 -0700
    fix refSeqGet to use hgFixed
• src/hg/utils/refSeqGet/refSeqVerInfo.c
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    2e07f2a69d3a478be8fc00cffbcf1812a3adeef4 Wed Jul 26 08:10:44 2017 -0700
    fix refSeqGet to use hgFixed
• src/inc/common.mk
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    f04c258e3e27d16905684915df3ba0b611890f30 Wed Jul 26 10:29:41 2017 -0700
    fixup userApps build for Mac OSX build refs #19715
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    9ec5130a97fde5c6855b7d56f39c0d007aa5ff29 Wed Jul 26 10:57:42 2017 -0700
    rearrangement for Mac will not work on hgwdev refs #19715
• src/inc/userApp.mk
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    f04c258e3e27d16905684915df3ba0b611890f30 Wed Jul 26 10:29:41 2017 -0700
    fixup userApps build for Mac OSX build refs #19715
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    9ec5130a97fde5c6855b7d56f39c0d007aa5ff29 Wed Jul 26 10:57:42 2017 -0700
    rearrangement for Mac will not work on hgwdev refs #19715
• src/utils/crisprKmers/crisprKmers.c
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    8bd378fa491b953980381f804c91b6f240697d57 Mon Jul 24 10:00:51 2017 -0700
    change dumpKmers to dumpGuides and properly recognize only -NGG guides not the -NAG decoys refs #18969
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    0e23fd19b0162759909cee1861a70decad3e85f0 Tue Jul 25 22:04:10 2017 -0700
    marking duplicates during first queryVsSelf refs #18969
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    f6154dbb0025a2308f28e584a8cfacf1a68735bd Wed Jul 26 11:34:04 2017 -0700
    correct outage when endsAG was introduced as a filter during rangeScan refs #18969
• src/utils/qa/weeklybld/buildEnv.csh
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    d57b92e71287a64d310eea3185b3642cd33e4751 Mon Jul 31 10:22:59 2017 -0700
    v353 preview2 refs #19846

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