File Changes for hiram

v384_base to v385_preview (2019-07-01 to 2019-07-08) v385

• src/hg/htdocs/goldenPath/help/api.html
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    e01863f5b65ac24827ae2f471f6a1a9491dae454 Tue Jul 2 16:13:41 2019 -0700
    adding /list/schema/ function refs #23589
• src/hg/hubApi/apiUtils.c
  • lines changed 95, context: html, text, full: html, text
    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
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    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
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    8a4758bc9826bad352cbce19052b01f28fb7171c Fri Jul 5 11:25:55 2019 -0700
    now allowing getData for any table in the database refs #23589
• src/hg/hubApi/dataApi.h
  • lines changed 3, context: html, text, full: html, text
    54cccf0e82a201f625bd5e4fcd90b87ffb6ba593 Mon Jul 1 14:13:36 2019 -0700
    eliminate one of the isSupportedType definitions refs #23760
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    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
  • lines changed 8, context: html, text, full: html, text
    8a4758bc9826bad352cbce19052b01f28fb7171c Fri Jul 5 11:25:55 2019 -0700
    now allowing getData for any table in the database refs #23589
• src/hg/hubApi/getData.c
  • lines changed 86, context: html, text, full: html, text
    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
  • lines changed 39, context: html, text, full: html, text
    8a4758bc9826bad352cbce19052b01f28fb7171c Fri Jul 5 11:25:55 2019 -0700
    now allowing getData for any table in the database refs #23589
• src/hg/hubApi/hubApi.c
  • lines changed 1, context: html, text, full: html, text
    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
  • lines changed 6, context: html, text, full: html, text
    1340926c015448621f1896176dbb3107f5468b28 Fri Jul 5 15:33:42 2019 -0700
    adding supported types altGraphX, barChart, chain refs #23589
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/list.c
  • lines changed 252, context: html, text, full: html, text
    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
  • lines changed 86, context: html, text, full: html, text
    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
  • lines changed 9, context: html, text, full: html, text
    8a4758bc9826bad352cbce19052b01f28fb7171c Fri Jul 5 11:25:55 2019 -0700
    now allowing getData for any table in the database refs #23589
• src/hg/hubApi/tests/expected/altGraphX.gz
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    1340926c015448621f1896176dbb3107f5468b28 Fri Jul 5 15:33:42 2019 -0700
    adding supported types altGraphX, barChart, chain refs #23589
• src/hg/hubApi/tests/expected/barChart.gz
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    1340926c015448621f1896176dbb3107f5468b28 Fri Jul 5 15:33:42 2019 -0700
    adding supported types altGraphX, barChart, chain refs #23589
• src/hg/hubApi/tests/expected/chain.gz
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    1340926c015448621f1896176dbb3107f5468b28 Fri Jul 5 15:33:42 2019 -0700
    adding supported types altGraphX, barChart, chain refs #23589
• src/hg/hubApi/tests/expected/ctgPos.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/expRatio.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/factorSource.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/gvf.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/interact.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/list03.gz
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    9d5d89799225fb953a151a1857c13face8cfa274 Fri Jul 5 10:18:52 2019 -0700
    updated refSeq statistics for ce11 refs #23589
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    77c41ea0e794895ff4c259162ca00ffcc61733d1 Fri Jul 5 12:48:28 2019 -0700
    NCBI RefSeq track has changed its trackDb organization refs #23589
• src/hg/hubApi/tests/expected/list09.gz
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    9d5d89799225fb953a151a1857c13face8cfa274 Fri Jul 5 10:18:52 2019 -0700
    updated refSeq statistics for ce11 refs #23589
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    77c41ea0e794895ff4c259162ca00ffcc61733d1 Fri Jul 5 12:48:28 2019 -0700
    NCBI RefSeq track has changed its trackDb organization refs #23589
• src/hg/hubApi/tests/expected/netAlign.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/notSup03.gz
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    37de39f5a143219fcff375001349725305707144 Fri Jul 5 12:51:53 2019 -0700
    eliminate some debugging output in error message refs #23589
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/notSup04.gz
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    37de39f5a143219fcff375001349725305707144 Fri Jul 5 12:51:53 2019 -0700
    eliminate some debugging output in error message refs #23589
• src/hg/hubApi/tests/expected/notSup05.gz
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    37de39f5a143219fcff375001349725305707144 Fri Jul 5 12:51:53 2019 -0700
    eliminate some debugging output in error message refs #23589
• src/hg/hubApi/tests/expected/notSup06.gz
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    37de39f5a143219fcff375001349725305707144 Fri Jul 5 12:51:53 2019 -0700
    eliminate some debugging output in error message refs #23589
• src/hg/hubApi/tests/expected/notSup09.gz
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    1340926c015448621f1896176dbb3107f5468b28 Fri Jul 5 15:33:42 2019 -0700
    adding supported types altGraphX, barChart, chain refs #23589
• src/hg/hubApi/tests/expected/notSup10.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/peptideMapping.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/pgSnp.gz
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    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/hubApi/tests/expected/schema01.gz
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    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
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    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
• src/hg/hubApi/tests/expected/schema02.gz
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    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
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    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
• src/hg/hubApi/tests/expected/schema03.gz
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    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
  • lines changed 0, context: html, text, full: html, text
    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
• src/hg/hubApi/tests/expected/schema04.gz
  • lines changed 0, context: html, text, full: html, text
    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
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    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
• src/hg/hubApi/tests/expected/schema05.gz
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    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
• src/hg/hubApi/tests/makefile
  • lines changed 29, context: html, text, full: html, text
    d1e16597846fc15d4388fc0625ce265aec2cd490 Tue Jul 2 16:02:00 2019 -0700
    adding new list function to show schema for a table with row count refs #23739
  • lines changed 7, context: html, text, full: html, text
    9d54db29580e26c13688de88701c61eae1aca9ce Wed Jul 3 10:55:21 2019 -0700
    add trackDb output to the list schema and allow tables without trackDb refs #23589
  • lines changed 50, context: html, text, full: html, text
    1340926c015448621f1896176dbb3107f5468b28 Fri Jul 5 15:33:42 2019 -0700
    adding supported types altGraphX, barChart, chain refs #23589
  • lines changed 76, context: html, text, full: html, text
    b419b8deda078f3e9aa2c245622f20b3bb2d2cb5 Fri Jul 5 16:17:44 2019 -0700
    adding support for track types ctgPos, expRatio, factorSource, gvf, interact, netAlign, peptideMapping, pgSnp refs #23589
• src/hg/makeDb/doc/rheMac10/initialBuild.txt
  • lines changed 1002, context: html, text, full: html, text
    c856e12e25aa93d1ec5095fbb720b6b564f4a550 Wed Jul 3 11:35:38 2019 -0700
    ready to start genbank run refs #23771
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 17, context: html, text, full: html, text
    24622f8a66ac8b9d69027bb98f83f8c1476f0454 Wed Jul 3 11:33:58 2019 -0700
    Added rheMac10 rhesus/Macaca mulatta; refs #23771
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • lines changed 2, context: html, text, full: html, text
    a4540ad0810c27409d7ab0dd87b107282515a565 Wed Jul 3 11:35:00 2019 -0700
    Added rheMac10 - rhesus/Macaca mulatta refs #23771
• src/hg/makeDb/schema/all.joiner
  • lines changed 10, context: html, text, full: html, text
    64ca0b57ba8357a2a2f402a182eda252d6cbfb70 Wed Jul 3 15:45:28 2019 -0700
    adding rules for rheMac10 and regenRn0 refs #23771 #21578
• src/hg/makeDb/trackDb/crisprAll.ra
  • lines changed 1, context: html, text, full: html, text
    f932e15b7bc03cc0361bf39bd0021c34b378a660 Wed Jul 3 09:58:14 2019 -0700
    score filter max is 100 for MIT scores refs #23514
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    6f7f63b1f00e2c5d0191eca41a8de1c130f654ee Mon Jul 1 10:47:04 2019 -0700
    adding rheMac10 to the browesr refs #23751
• src/hg/makeDb/trackDb/rat/regenRn0/description.html
  • lines changed 64, context: html, text, full: html, text
    c1ef4d35073f984c5f6ebdf1383d935658ec0586 Mon Jul 1 13:50:41 2019 -0700
    initial files for regenRn0 refs #21579
• src/hg/makeDb/trackDb/rat/regenRn0/gap.html
  • lines changed 31, context: html, text, full: html, text
    c1ef4d35073f984c5f6ebdf1383d935658ec0586 Mon Jul 1 13:50:41 2019 -0700
    initial files for regenRn0 refs #21579
• src/hg/makeDb/trackDb/rat/regenRn0/gold.html
  • lines changed 33, context: html, text, full: html, text
    c1ef4d35073f984c5f6ebdf1383d935658ec0586 Mon Jul 1 13:50:41 2019 -0700
    initial files for regenRn0 refs #21579
• src/hg/makeDb/trackDb/rat/regenRn0/trackDb.chainNet.ra
  • lines changed 13, context: html, text, full: html, text
    470a11901c5a64af10f55df2b2cad2a81ee03b82 Tue Jul 2 10:52:38 2019 -0700
    display rn6 liftOver chain refs #21579
• src/hg/makeDb/trackDb/rat/regenRn0/trackDb.ra
  • lines changed 33, context: html, text, full: html, text
    c1ef4d35073f984c5f6ebdf1383d935658ec0586 Mon Jul 1 13:50:41 2019 -0700
    initial files for regenRn0 refs #21579
• src/hg/makeDb/trackDb/rat/rn6/trackDb.chainNet.ra
  • lines changed 14, context: html, text, full: html, text
    16f35703c1c1f8fbdf06e09ec90aa01326f39b33 Tue Jul 2 10:44:54 2019 -0700
    show liftOver chain for regenRn0 assembly refs #23771
• src/hg/makeDb/trackDb/rhesus/rheMac10/description.html
  • lines changed 64, context: html, text, full: html, text
    6f7f63b1f00e2c5d0191eca41a8de1c130f654ee Mon Jul 1 10:47:04 2019 -0700
    adding rheMac10 to the browesr refs #23751
• src/hg/makeDb/trackDb/rhesus/rheMac10/gap.html
  • lines changed 32, context: html, text, full: html, text
    6f7f63b1f00e2c5d0191eca41a8de1c130f654ee Mon Jul 1 10:47:04 2019 -0700
    adding rheMac10 to the browesr refs #23751
• src/hg/makeDb/trackDb/rhesus/rheMac10/gold.html
  • lines changed 35, context: html, text, full: html, text
    6f7f63b1f00e2c5d0191eca41a8de1c130f654ee Mon Jul 1 10:47:04 2019 -0700
    adding rheMac10 to the browesr refs #23751
• src/hg/makeDb/trackDb/rhesus/rheMac10/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    6f7f63b1f00e2c5d0191eca41a8de1c130f654ee Mon Jul 1 10:47:04 2019 -0700
    adding rheMac10 to the browesr refs #23751
  • lines changed 8, context: html, text, full: html, text
    05c5734e6f4612a0d1309dc976e0c1786230cd19 Wed Jul 3 11:36:23 2019 -0700
    turn on NCBI RefSeq track and add search rule for gold/assembly track refs #23771
• src/hg/utils/automation/HgAutomate.pm
  • lines changed 3, context: html, text, full: html, text
    ee52e0807335ddc96c4455fbcb693140e2f82ce0 Wed Jul 3 09:34:49 2019 -0700
    remove kolossus from the list of machines to check for workhorse no redmine
• src/utils/qa/weeklybld/buildEnv.csh
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    0f3d52e435190fed54683e910af936fccaa24991 Mon Jul 8 09:54:57 2019 -0700
    v385 preview1, refs #23695