All File Changes

v351_base to v352_preview (2017-06-26 to 2017-07-03) v352

• confs/hgwbeta.hg.conf
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    322a93591400e70e5559927803d2339bd94034cf Sun Jul 2 01:11:43 2017 -0700
    Installing updated hg.conf files from UCSC servers
• src/browserbox/root/updateBrowser.sh
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    22ab420d575d277dffbec127b99dc45f52fee784 Thu Jun 29 10:07:13 2017 -0700
    adding gtex hgFixed tables, chrisL figured it all out, I only copied from his suggested code, refs #19587
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    45925b3982176d7aa802d483ea2bb9f426e2ef15 Thu Jun 29 10:18:09 2017 -0700
    Adding another missing gtex table, refs #19587
• src/hca/toHca/hcaStormToBundles/hcaStormToBundles.c
  • lines changed 118, context: html, text, full: html, text
    fb45fbf345b9709180b22cff4dd91749676ad147 Thu Jun 29 06:08:42 2017 -0700
    Adding schema parameter and no longer quoting numerical values in json output.
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    f8cd0641b9d1f22bbbb5661bfe885a446e9da098 Thu Jun 29 07:06:44 2017 -0700
    Handling arrays in schema.
• src/hca/toHca/hcaStormToBundles/test.schema
  • lines changed 50, context: html, text, full: html, text
    fb45fbf345b9709180b22cff4dd91749676ad147 Thu Jun 29 06:08:42 2017 -0700
    Adding schema parameter and no longer quoting numerical values in json output.
  • lines changed 4, context: html, text, full: html, text
    f8cd0641b9d1f22bbbb5661bfe885a446e9da098 Thu Jun 29 07:06:44 2017 -0700
    Handling arrays in schema.
• src/hca/toHca/hcaStormToBundles/testIt
  • lines changed 1, context: html, text, full: html, text
    fb45fbf345b9709180b22cff4dd91749676ad147 Thu Jun 29 06:08:42 2017 -0700
    Adding schema parameter and no longer quoting numerical values in json output.
• src/hg/cirm/cdw/cdwSubmit/cdwSubmit.c
  • lines changed 1, context: html, text, full: html, text
    7e88061abea480d22754f57e5c3dd4b90c196f19 Mon Jun 26 15:50:26 2017 -0700
    adding tsv and csv as allowed formats in cdwSubmit.(CIRM)
• src/hg/cirm/cdw/makefile
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    47defb09f5a0df50af49deabfa2b4bf7bb35289c Mon Jun 26 14:33:52 2017 -0700
    adding missing cdw utils
• src/hg/cirm/gateway/index.php
  • lines changed 286, context: html, text, full: html, text
    9ba2ae1c5ce460487d954994ec080dcf9741462b Wed Apr 19 10:58:31 2017 -0700
    Adding a new gateway page.
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    f452f23bfb9d3943bca89b1f30ab381bd2fcb343 Tue Jun 27 10:59:02 2017 -0700
    Updated, will start committing more regularly with ChrisV and Matt collaborating.
• src/hg/hgHubConnect/hgHubConnect.c
  • lines changed 4, context: html, text, full: html, text
    60cacbe054ec5e515079738fda2f4719d50426ca Tue Jun 27 18:09:16 2017 -0700
    hgHubConnect shouldn't try to return results for hubs that aren't on the server, refs #13625
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    f2f7f19f3be5200723b270369b8c0a2c9f800e58 Wed Jun 28 08:42:42 2017 -0700
    Speeding up addition of missing hubs to hubStatus table, refs #19699
• src/hg/htdocs/goldenPath/help/hgGeneGraph.html
  • lines changed 58, context: html, text, full: html, text
    5f9eab665c6f8d3b3d5f57f0adb9fc5e3919c8cc Mon Jun 26 13:12:18 2017 -0700
    Changes based on CR, refs #19689
• src/hg/htdocs/goldenPath/help/hgSessionHelp.html
  • lines changed 5, context: html, text, full: html, text
    2967bde00c588b7485c20278f0cfd13136000a8f Wed Jun 28 10:20:54 2017 -0700
    Making minor edits as per code review, refs #19688
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 1, context: html, text, full: html, text
    4d51d9de11150b9d62d16a92b7fedb639711ffbc Thu Jun 29 11:16:08 2017 -0700
    adding two more credits to gene interactions announcement
• src/hg/htdocs/goldenPath/pubs.html
  • lines changed 20, context: html, text, full: html, text
    7b63e68485fe4db89146595a37b234594c029b11 Tue Jun 27 08:47:53 2017 -0700
    Truncating pubs page Snail paper, and putting full author list back on 2017 Browser NAR paper.
• src/hg/htdocs/inc/gbFooterHardcoded.html
  • lines changed 58, context: html, text, full: html, text
    2c8179ad9a69dacd5c200efa02b43a041f93fa6a Mon Jun 26 15:40:13 2017 -0700
    Adding new inc/gbFooterHardcoded.html for hgdownload machine downloads.html page to redirect to genome refs #13553 #19626
• src/hg/htdocs/inc/gbPageStartHardcoded.html
  • lines changed 153, context: html, text, full: html, text
    f13cc7bc527bde479959ceee28721ba56a5d3231 Mon Jun 26 15:45:27 2017 -0700
    Adding new inc/gbPageStartHardcoded.html for hgdownload machine downloads.html page to have top blue bar and redirect to genome. refs #13553 #19626
  • lines changed 1, context: html, text, full: html, text
    8271fe0dec8e3783320095b31050102663d3915a Mon Jul 3 08:52:40 2017 -0700
    Adding new Mouse Strains to hgdownload version of blue bar refs #19626
• src/hg/htdocs/inc/globalNavBar.inc
  • lines changed 1, context: html, text, full: html, text
    b9caf1770bd8154dd80f5596c9f2d0fc494de3ea Fri Jun 30 13:52:28 2017 -0700
    adding in mouse strain hub reference refs #13553
• src/hg/htdocs/training/index.html
  • lines changed 40, context: html, text, full: html, text
    7f8acf53c106b8d204d1ca329941b59785e54cdc Fri Jun 30 11:20:26 2017 -0700
    dropping completed TX and WashU workshops. adding Mexico and ASHG
• src/hg/inc/hgHgvs.h
  • lines changed 13, context: html, text, full: html, text
    e6e8263c1a4a85000be7cc4df0797d75dceba589 Fri Jun 30 09:51:18 2017 -0700
    Noncoding introns were not being mapped to the genome correctly, hgvsTranscriptToZeroBasedHalfOpen had a fencepost error for upstream/downstream and mapToDeletion was using q coords instead of t coords for upstream/downstream, doh! helpful testcase: NR_111987:n.-1 . fixes #19702 note-1.
• src/hg/lib/hgHgvs.c
  • lines changed 121, context: html, text, full: html, text
    a476f750f106fbcde8fedeb6488389d728f46396 Thu Jun 29 11:26:34 2017 -0700
    Oops, HGVS n. terms can have intron offsets too (like c. except for no UTR [-*] indicators). fixes #19702
  • lines changed 47, context: html, text, full: html, text
    e6e8263c1a4a85000be7cc4df0797d75dceba589 Fri Jun 30 09:51:18 2017 -0700
    Noncoding introns were not being mapped to the genome correctly, hgvsTranscriptToZeroBasedHalfOpen had a fencepost error for upstream/downstream and mapToDeletion was using q coords instead of t coords for upstream/downstream, doh! helpful testcase: NR_111987:n.-1 . fixes #19702 note-1.
  • lines changed 5, context: html, text, full: html, text
    0926946a1fed476484b175c2c7ce40de2b4f4bf9 Fri Jun 30 10:44:46 2017 -0700
    Prevent mapping warning (e.g. ref mismatch) from causing us to error out after parsing changes.
  • lines changed 67, context: html, text, full: html, text
    1fd5528b8d1ad70d0858fa650e0936a2102cfd0e Fri Jun 30 13:34:00 2017 -0700
    HGVS search was broken for double-sided gaps, i.e. messed up assembly regions where the alignment has to skip over transcript bases. Added pslFromGap to handle it. pslTransMap was already handling cases in which one end of a seach term was skipped but the other wasn't. fixes #19711
• src/hg/lib/tests/expected/hgvs/clinVarHgvs.txt
  • lines changed 1, context: html, text, full: html, text
    e6e8263c1a4a85000be7cc4df0797d75dceba589 Fri Jun 30 09:51:18 2017 -0700
    Noncoding introns were not being mapped to the genome correctly, hgvsTranscriptToZeroBasedHalfOpen had a fencepost error for upstream/downstream and mapToDeletion was using q coords instead of t coords for upstream/downstream, doh! helpful testcase: NR_111987:n.-1 . fixes #19702 note-1.
• src/hg/makeDb/doc/hg38/hg38.txt
  • lines changed 2, context: html, text, full: html, text
    a46c3043562aaf37f228de0460764a2d09f80890 Fri Jun 30 16:11:38 2017 -0700
    Updating the COSMIC trackDb and documentation, refs #18919
• src/hg/makeDb/doc/hg38/lastzRuns.txt
  • lines changed 61, context: html, text, full: html, text
    3ce9ba8ad4f1e34411e3e4d13a4fa8e5a8c00574 Mon Jul 3 10:04:49 2017 -0700
    adding papAnu3 lastz chainNet refs #19660
• src/hg/makeDb/doc/mouseStrains/GCA_001624185.1_129S1_SvImJ_v1/GCA_001624185.1_129S1_SvImJ_v1.bigMaf.trackDb.txt
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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624185.1_129S1_SvImJ_v1/html/GCA_001624185.1_129S1_SvImJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624215.1_A_J_v1/GCA_001624215.1_A_J_v1.bigMaf.trackDb.txt
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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624215.1_A_J_v1/html/GCA_001624215.1_A_J_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624295.1_AKR_J_v1/GCA_001624295.1_AKR_J_v1.bigMaf.trackDb.txt
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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624295.1_AKR_J_v1/html/GCA_001624295.1_AKR_J_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624445.1_CAST_EiJ_v1/GCA_001624445.1_CAST_EiJ_v1.bigMaf.trackDb.txt
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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624445.1_CAST_EiJ_v1/html/GCA_001624445.1_CAST_EiJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624475.1_CBA_J_v1/GCA_001624475.1_CBA_J_v1.bigMaf.trackDb.txt
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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624475.1_CBA_J_v1/html/GCA_001624475.1_CBA_J_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624505.1_DBA_2J_v1/html/GCA_001624505.1_DBA_2J_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624535.1_FVB_NJ_v1/html/GCA_001624535.1_FVB_NJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624675.1_NOD_ShiLtJ_v1/html/GCA_001624675.1_NOD_ShiLtJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624745.1_NZO_HlLtJ_v1/html/GCA_001624745.1_NZO_HlLtJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624775.1_PWK_PhJ_v1/html/GCA_001624775.1_PWK_PhJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001624835.1_WSB_EiJ_v1/html/GCA_001624835.1_WSB_EiJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, 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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632525.1_BALB_cJ_v1/html/GCA_001632525.1_BALB_cJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632555.1_C57BL_6NJ_v1/html/GCA_001632555.1_C57BL_6NJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632575.1_C3H_HeJ_v1/html/GCA_001632575.1_C3H_HeJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #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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    96d8c82bd02527d01aa9b3098fb296502b787453 Fri Jun 30 16:07:21 2017 -0700
    Adding the cactus track description page to the mice strain track, refs #13553
• src/hg/makeDb/doc/mouseStrains/GCA_001632615.1_LP_J_v1/html/GCA_001632615.1_LP_J_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #13553
• src/hg/makeDb/doc/mouseStrains/GCA_900094665.1_CAROLI_EIJ_v1/html/GCA_900094665.1_CAROLI_EIJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #13553
• src/hg/makeDb/doc/mouseStrains/GCA_900095145.1_PAHARI_EIJ_v1/html/GCA_900095145.1_PAHARI_EIJ_v1.augustus.html
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    1fa3b9789f8c31ef5c5c91e481eae47fb9c27971 Wed Jun 28 13:13:57 2017 -0700
    Removing an extra period in the Augustus track description page, hub #13553
• src/hg/makeDb/doc/mouseStrains/hubIndex.html
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    b8082d2f989b62f945408762ba0b3afadcc2455f Wed Jun 28 12:37:34 2017 -0700
    Adding a note that this hub is in our Public Hubs to the landing page. Removing unnesessary whitespace for <p> tags. CR #19688
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    04162b0306c57e6ed7a5ec94889e3f986f137a8f Fri Jun 30 10:16:46 2017 -0700
    Reducing the line length under 100 characters and adding double quotes around attribute values, refs #13553
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    11e66778bc841822468245754ae6af8654ec2997 Fri Jun 30 11:28:01 2017 -0700
    Adding links to each strain's genome browser on the landing page, refs #13553
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    79d467163716b49fa226d204ba6efae2d1bafcab Fri Jun 30 13:30:02 2017 -0700
    Removing the links to each strain's genome browser since it will cause issues with euro and asia users, refs #13553
• src/hg/makeDb/outside/gencode/gencodeGenerateTrackDbs
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    a95feb6d8df05da31cab9de50acc998355dc97f4 Wed Jun 28 16:10:17 2017 -0700
    fixed incorrect specification of 2-way pseudogene track search in human
• src/hg/makeDb/schema/all.joiner
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    c9a9627a486ba6af69b9ed5b2aeb76ba88eb4053 Wed Jun 28 15:28:02 2017 -0700
    updating all.joiner for danRer11, refs #19459
• src/hg/makeDb/trackDb/HBV/hbv1/trackDb.185way.ra
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    b9ccb5fbc99dc33e5a3035a09eafcdab754eac4e Mon Jul 3 10:05:55 2017 -0700
    adding 185-way multiz refs #19533
• src/hg/makeDb/trackDb/HBV/hbv1/trackDb.ra
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    b9ccb5fbc99dc33e5a3035a09eafcdab754eac4e Mon Jul 3 10:05:55 2017 -0700
    adding 185-way multiz refs #19533
• src/hg/makeDb/trackDb/alpaca/vicPac1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/alpaca/vicPac2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/armadillo/dasNov3/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/baboon/papAnu2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/baboon/papAnu3/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/baboon/papHam1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/balAcu/balAcu1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/bats/rouAeg1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/birds/amaVit1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/birds/aptMan1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/birds/aquChr2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/birds/geoFor1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/birds/melUnd1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/bison/bisBis1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/bonobo/panPan1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/bonobo/panPan2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/bushbaby/otoGar3/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/calMil/calMil1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/cat/felCat5/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/cat/felCat8/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/chicken/galGal4/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/chicken/galGal5/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/chimp/panTro4/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/chimp/panTro5/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/chinchilla/chiLan1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/chlorocebus/chlSab2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ciliate/oxyTri2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/cow/bosTau7/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/cow/bosTau8/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/criGri/criGri1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/criGri/criGriChoV1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/dog/canFam3/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/dolphin/turTru2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/drosophila/dm6/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/drosophila/droSim2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/ebola/bunEbo1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ebola/eboVir1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ebola/eboVir2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ebola/eboVir3/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ebola/marVir1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ebola/resEbo1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ebola/sudEbo1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ebola/taiEbo1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/ferret/musFur1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/frog/nanPar1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/gadMor/gadMor1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/galVar/galVar1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/gator/allMis1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/gibbon/nomLeu2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/gibbon/nomLeu3/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/gorilla/gorGor4/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/gorilla/gorGor5/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/hedgehog/eriEur1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/hedgehog/eriEur2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/human/hg19/gtexEqtlCluster.html
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    995b0085df37348da2c33a1112c7f1ca2b90e8bb Wed Jun 28 11:16:28 2017 -0700
    Track description for GTEx eQTL track. refs #15646
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
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    b4f1a6c27e2df99a9be0ec3cb8dd864b8140ef6a Wed Jun 28 09:02:55 2017 -0700
    Add GTEX eQTL track. refs #15646
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    341ed1e40b231d1d742385a585fe169eb23b49ec Wed Jun 28 09:05:11 2017 -0700
    Tweak track label. refs #15646
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    d3a5a310e305a5e16782054b4ad657da3fa6e679 Fri Jun 30 11:17:10 2017 -0700
    Adding urlLabel fields to COSMIC track, refs #14461
• src/hg/makeDb/trackDb/human/hg38/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/human/hg38/description.html.bk
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/human/hg38/description.html.bk2
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/human/hg38/description.mod
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/human/hg38/description.new.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/human/hg38/description.orig
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
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    d3a5a310e305a5e16782054b4ad657da3fa6e679 Fri Jun 30 11:17:10 2017 -0700
    Adding urlLabel fields to COSMIC track, refs #14461
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    a46c3043562aaf37f228de0460764a2d09f80890 Fri Jun 30 16:11:38 2017 -0700
    Updating the COSMIC trackDb and documentation, refs #18919
• src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeSuper.html
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    cb7ededc6adeb23505b385022cf17fadb3703c9a Mon Jun 26 10:20:12 2017 -0700
    Updating broken references link on the All Gencode super track description page, refs #19256
• src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV24.ra
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    3f5dd306a14ad0e28ec5d3e44bd2ea0be83e1515 Thu Jun 29 10:27:00 2017 -0700
    Hiding the previous All Gencode V24 composite from the super track, refs #19256
• src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV26.ra
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    a95feb6d8df05da31cab9de50acc998355dc97f4 Wed Jun 28 16:10:17 2017 -0700
    fixed incorrect specification of 2-way pseudogene track search in human
• src/hg/makeDb/trackDb/kangarooRat/dipOrd1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/lamprey/petMar2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/lancelet/braFlo2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/latCha/latCha1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/macaca/macFas5/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/macaca/macNem1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/manatee/triMan1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/megabat/pteVam1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/micOch/micOch1/description.html
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
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• src/hg/makeDb/trackDb/moleRat/hetGla1/description.html
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• src/hg/makeDb/trackDb/moleRat/hetGla2/description.html
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• src/hg/makeDb/trackDb/mouse/mm10/description.html
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    e37f14056b194ed7b48035ab47c7736d1efc1fa2 Fri Jun 30 13:35:14 2017 -0700
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• src/hg/makeDb/trackDb/mouseLemur/micMur1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/mouseLemur/micMur2/description.html
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• src/hg/makeDb/trackDb/mouseLemur/micMur3/description.html
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
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• src/hg/makeDb/trackDb/oldWorldMonkeys/colAng1/description.html
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• src/hg/makeDb/trackDb/orangutan/ponAbe2/description.html
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• src/hg/makeDb/trackDb/oreNil/oreNil2/description.html
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• src/hg/makeDb/trackDb/pangolin/manPen1/description.html
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• src/hg/makeDb/trackDb/pig/susScr3/description.html
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• src/hg/makeDb/trackDb/pika/ochPri2/description.html
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• src/hg/makeDb/trackDb/pika/ochPri3/description.html
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• src/hg/makeDb/trackDb/plasFalc3D7/plasFalc3D7V12/description.html
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• src/hg/makeDb/trackDb/platypus/ornAna2/description.html
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• src/hg/makeDb/trackDb/poeRet/poeRet1/description.html
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• src/hg/makeDb/trackDb/proboscis/nasLar1/description.html
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• src/hg/makeDb/trackDb/rat/rn5/description.html
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• src/hg/makeDb/trackDb/rat/rn6/description.html
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• src/hg/makeDb/trackDb/reptiles/thaSir1/description.html
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• src/hg/makeDb/trackDb/rhesus/rheMac3/description.html
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• src/hg/makeDb/trackDb/rhesus/rheMac7/description.html
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• src/hg/makeDb/trackDb/rhesus/rheMac8/description.html
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• src/hg/makeDb/trackDb/rhino/cerSim1/description.html
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• src/hg/makeDb/trackDb/rhinopithecus/rhiBie1/description.html
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
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• src/hg/makeDb/trackDb/rhinopithecus/rhiRox1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/rockHyrax/proCap1/description.html
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• src/hg/makeDb/trackDb/saiBol/saiBol1/description.html
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• src/hg/makeDb/trackDb/sheep/oviAri3/description.html
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• src/hg/makeDb/trackDb/shrew/sorAra1/description.html
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• src/hg/makeDb/trackDb/shrew/sorAra2/description.html
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• src/hg/makeDb/trackDb/sloth/choHof1/description.html
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• src/hg/makeDb/trackDb/squirrel/speTri2/description.html
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• src/hg/makeDb/trackDb/squirt/ci3/description.html
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• src/hg/makeDb/trackDb/tarsier/tarSyr1/description.html
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• src/hg/makeDb/trackDb/tarsier/tarSyr2/description.html
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• src/hg/makeDb/trackDb/tasmanianDevil/sarHar1/description.html
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• src/hg/makeDb/trackDb/tenrec/echTel1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/tenrec/echTel2/description.html
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• src/hg/makeDb/trackDb/treeShrew/tupBel1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/treeShrew/tupChi1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
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• src/hg/makeDb/trackDb/turkey/melGal5/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
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• src/hg/makeDb/trackDb/turtle/chrPic1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/turtle/chrPic2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/whale/orcOrc1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/worm/ancCey1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/ascSuu1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/bruMal2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/burXyl1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/caeSp51/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/ce11/description.html
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• src/hg/makeDb/trackDb/worm/dirImm1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/haeCon2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/hetBac1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/loaLoa1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/necAme1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/oncVol1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/panRed1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/priExs1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/strRat1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/strRat2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/triSpi1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/worm/triSui1/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/xenTro/xenLae2/description.html
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    bde35017674c354a9c3b455bd284df54e16c148b Fri Jun 30 10:45:08 2017 -0700
    remove bogus </I> tag on Bio* ID; info lines refs #19704
• src/hg/makeDb/trackDb/xenTro/xenTro7/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/xenTro/xenTro9/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/zebraFinch/taeGut2/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/zebrafish/danRer10/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/makeDb/trackDb/zebrafish/danRer11/description.html
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    b4d9156fb02ed61acd577105a3be6a06dd7491fa Thu Jun 29 00:54:15 2017 -0700
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• src/hg/utils/automation/doCrispr.pl
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    e6f9bb72c960f75055cb33cb4fff01baebe1eb0b Mon Jul 3 10:06:47 2017 -0700
    correctly using tmp directories for large sets of files refs #19514
• src/hg/utils/automation/findEnsFtpNames.sh
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    5a306a209a18b2306b421425cf3d61ad8a96b7af Mon Jul 3 10:07:29 2017 -0700
    FTP server at Ensembl has changed refs #19526
• src/hg/utils/automation/makeGenomeDb.pl
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    b88aaef8cd105d1fed104c90036c6dddf610da7c Fri Jun 30 09:11:47 2017 -0700
    updated with editorial suggestions refs #19704
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    dfa68297f49c4d765765d9a91b368a21c12edefc Fri Jun 30 10:35:52 2017 -0700
    updated with editorial suggestions refs #19704
• src/hg/utils/pslToBigPsl/makefile
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    9d29df9e860337fa07b673cb822e9328e7541eea Mon Jun 26 10:11:27 2017 -0700
    take out install target from pslToBigPsl because the target is defined in userApp.mk
• src/inc/jsonWrite.h
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    ffc338d50d807987ff5a22ccfdd8a59f660e70d2 Sun Jul 2 08:51:10 2017 -0700
    Making JW_SEP not a define any more but a field of he jsonWrite structure.
• src/inc/tagSchema.h
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    da1eb5d7f3bee2a9e2cefea7e57a304de7a5fa26 Wed Jun 28 10:14:11 2017 -0700
    Factoring out a useful structure and routine into a new tagSchema module.
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    9a81d879da51d0973a072b97734a279eb6e8a8c6 Wed Jun 28 21:25:51 2017 -0700
    Adding isArray flag.
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    0ce3985de8c625fbaf819bd6d1de498a0d03d116 Sun Jul 2 08:51:51 2017 -0700
    Adding routine to put schema into a hash.
• src/inc/tagToJson.h
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    f1b52b0e0812f32e9eeb6c00c176aea94b6ebfaf Sun Jul 2 08:53:16 2017 -0700
    Moving a routine that helps turn tagStorm into json into a shared library.
• src/lib/jsonWrite.c
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    ffc338d50d807987ff5a22ccfdd8a59f660e70d2 Sun Jul 2 08:51:10 2017 -0700
    Making JW_SEP not a define any more but a field of he jsonWrite structure.
• src/lib/makefile
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    da1eb5d7f3bee2a9e2cefea7e57a304de7a5fa26 Wed Jun 28 10:14:11 2017 -0700
    Factoring out a useful structure and routine into a new tagSchema module.
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    f1b52b0e0812f32e9eeb6c00c176aea94b6ebfaf Sun Jul 2 08:53:16 2017 -0700
    Moving a routine that helps turn tagStorm into json into a shared library.
• src/lib/tagSchema.c
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    da1eb5d7f3bee2a9e2cefea7e57a304de7a5fa26 Wed Jun 28 10:14:11 2017 -0700
    Factoring out a useful structure and routine into a new tagSchema module.
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    9a81d879da51d0973a072b97734a279eb6e8a8c6 Wed Jun 28 21:25:51 2017 -0700
    Adding isArray flag.
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    0ce3985de8c625fbaf819bd6d1de498a0d03d116 Sun Jul 2 08:51:51 2017 -0700
    Adding routine to put schema into a hash.
• src/lib/tagToJson.c
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    f1b52b0e0812f32e9eeb6c00c176aea94b6ebfaf Sun Jul 2 08:53:16 2017 -0700
    Moving a routine that helps turn tagStorm into json into a shared library.
• src/tagStorm/tagSchemaToJson/description.txt
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    0ab99a411f8853458cd76edc22d91c807542e3da Sun Jul 2 09:13:59 2017 -0700
    Utility to make a jsonSchema out of a tagStorm schema. Perhaps it is a bit hca-specific.
• src/tagStorm/tagSchemaToJson/makefile
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    0ab99a411f8853458cd76edc22d91c807542e3da Sun Jul 2 09:13:59 2017 -0700
    Utility to make a jsonSchema out of a tagStorm schema. Perhaps it is a bit hca-specific.
• src/tagStorm/tagSchemaToJson/oneFile.schema
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    59106647254a927a3824b49fc84c8e679db81532 Sun Jul 2 11:48:51 2017 -0700
    Adding -oneFile option.
• src/tagStorm/tagSchemaToJson/tagSchemaToJson.c
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    610a23db241aabe7681a0f93d50afc9cc4073994 Wed Jun 28 11:48:21 2017 -0700
    First cut of convert from tagStorm schema to JSON schema.
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    194ac34777bf7080d053ff16e26782b2b389cd83 Wed Jun 28 12:01:24 2017 -0700
    Adding in required array.
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    8e6dcbb1f7e059a2c105ebd9f880f2f89e2c7f15 Wed Jun 28 13:55:22 2017 -0700
    Allowing patternProperties (where wildcards in the tag name). Making a separate file that can contain descriptions.
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    a79a8c54828f0c8d1c9173089d1bde771f404dd1 Wed Jun 28 16:53:55 2017 -0700
    Making it deal with subobjects.
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    9200e392e5e41be010d1d41776acd7291c7f7754 Wed Jun 28 21:26:41 2017 -0700
    Writing out enums rather than patterns when possible. Supporting simple arrays.
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    59106647254a927a3824b49fc84c8e679db81532 Sun Jul 2 11:48:51 2017 -0700
    Adding -oneFile option.
• src/tagStorm/tagSchemaToJson/test.schema
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    0ab99a411f8853458cd76edc22d91c807542e3da Sun Jul 2 09:13:59 2017 -0700
    Utility to make a jsonSchema out of a tagStorm schema. Perhaps it is a bit hca-specific.
• src/tagStorm/tagStormCheck/tagStormCheck.c
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    da1eb5d7f3bee2a9e2cefea7e57a304de7a5fa26 Wed Jun 28 10:14:11 2017 -0700
    Factoring out a useful structure and routine into a new tagSchema module.
• src/utils/crisprKmers/crisprKmers.c
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    372f1fef9075019ab06e62e178f7d2df989d0cbd Fri Jun 30 17:19:06 2017 -0700
    working up brute force crispr scoring scheme refs #18969
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    48d09ab3cbb4ce1bb172e0479f1e80f878dac655 Sat Jul 1 00:16:53 2017 -0700
    this is getting close refs #18969
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    7a9f95730b58e1d2eb3fc8dd33c72d9b9c8f07cd Mon Jul 3 10:02:41 2017 -0700
    this is not fast enough for crispr off target calculation it can only do one in 8 seconds or 39 million comparisons per second on hg38 but it can find the crisprs rapidly 85 seconds for hg38 scan over 300 million crisprs at 3.7 million per second refs #18969
• src/utils/crisprKmers/makefile
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    372f1fef9075019ab06e62e178f7d2df989d0cbd Fri Jun 30 17:19:06 2017 -0700
    working up brute force crispr scoring scheme refs #18969
• src/utils/fastqStatsAndSubsample/fastqStatsAndSubsample.c
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    944d721b951ffdb71e8ce7caf7215ee83fbb1045 Wed Jun 28 01:35:47 2017 -0700
    Removing statement about no input pipe limitation from usage message as it got fixed.
• src/utils/qa/weeklybld/buildEnv.csh
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    18cf4bfa9b4687d0a3aad5aa04fa889843ee757a Mon Jul 3 10:25:21 2017 -0700
    v351 final build refs #19715
• src/utils/qa/weeklybld/summaryEmail.sh
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    6a5aa3d7b5ab245f727c0426761517a362430ab0 Mon Jun 26 12:33:09 2017 -0700
    Added --reverse to git command so that changes will be displayed in chronological order
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    50648ef2cbc18f5763d88c7ea6e17032b437321a Mon Jun 26 12:35:43 2017 -0700
    Changing variable name 'victim' to 'author' because it is more accurate.

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• files changed: 269