File Changes for hiram

v288_preview2 to v288_base (2013-08-13 to 2013-08-19) v288

• src/hg/checkTableCoords/tests/input/fakeChromInfo.sql
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    MySQL 5.6 uses the ENGINE variable in place of TYPE refs #8875
• src/hg/hgGetAnn/tests/makefile
  • lines changed 6, context: html, text, full: html, text
    fixup sorting of outputs and expected to avoid MySQL sorting differences refs #9149
• src/hg/inc/versionInfo.h
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    New version number v288
• src/hg/lib/encode/unused/shortFrags.as
  • lines changed 31, context: html, text, full: html, text
    eliminate duplcated named file that has outlived usefulness refs #8875
• src/hg/lib/tests/makefile
  • lines changed 1, context: html, text, full: html, text
    missing the build of the sqlCheck binary for the testing refs #8875
• src/hg/lib/ucscToINSDC.as
  • lines changed 8, context: html, text, full: html, text
    adding track INSDC name refs #11348
• src/hg/lib/ucscToINSDC.sql
  • lines changed 9, context: html, text, full: html, text
    adding track INSDC name refs #11348
• src/hg/makeDb/doc/gorGor3.txt
  • lines changed 81, context: html, text, full: html, text
    adding ucscToINSDC track refs #11348
• src/hg/makeDb/doc/hg19.txt
  • lines changed 28, context: html, text, full: html, text
    update cosmic to v66 refs #10158
  • lines changed 48, context: html, text, full: html, text
    adding track INSDC name refs #11348
• src/hg/makeDb/doc/mm10.txt
  • lines changed 38, context: html, text, full: html, text
    adding ucscToINSDC track refs #11348
• src/hg/makeDb/doc/nomLeu3.txt
  • lines changed 88, context: html, text, full: html, text
    adding ucscToINSDC track refs #11348
• src/hg/makeDb/doc/oviAri3.txt
  • lines changed 1, context: html, text, full: html, text
    fixup comments about path name refs #9409
• src/hg/makeDb/doc/panPan1.txt
  • lines changed 57, context: html, text, full: html, text
    adding ucscToINSDC track refs #11348
• src/hg/makeDb/doc/panTro4.txt
  • lines changed 43, context: html, text, full: html, text
    adding ucscToINSDC track refs #11348
• src/hg/makeDb/doc/vicPac2.txt
  • lines changed 1, context: html, text, full: html, text
    fixup comments about path name refs #10833
• src/hg/makeDb/trackDb/makefile
  • lines changed 3, context: html, text, full: html, text
    reenable trix building in San Diego refs #8132
  • lines changed 1, context: html, text, full: html, text
    forget trix annulment clause, refs #8132
• src/hg/makeDb/trackDb/trackDb.ra
  • lines changed 9, context: html, text, full: html, text
    adding track INSDC name refs #11348
  • lines changed 8, context: html, text, full: html, text
    adding search rule and html doc for ucscToINSDC track refs #11348
• src/hg/makeDb/trackDb/ucscToINSDC.html
  • lines changed 16, context: html, text, full: html, text
    adding search rule and html doc for ucscToINSDC track refs #11348
• src/hg/makefile
  • lines changed 5, context: html, text, full: html, text
    proper clean target for TEST_DIRS refs #9149
• src/hg/utils/cpAndLinkToResourceFiles.pl
  • lines changed 1, context: html, text, full: html, text
    do not need the host hgwdevSD refs #8875
• src/hg/utils/phyloTrees/vertebrates.txt
  • lines changed 3, context: html, text, full: html, text
    adding Ostrich - Struthio camelus refs #10272
• src/inc/cgi_build_rules.mk
  • lines changed 4, context: html, text, full: html, text
    install move should remove target first refs #9149
• src/product/scripts/fetchMinimalGbdb.sh
  • lines changed 1, context: html, text, full: html, text
    inform messages about where log file exists for script results and echo messages to stederr refs #9104
• src/product/scripts/kentSrcUpdate.sh
  • lines changed 9, context: html, text, full: html, text
    inform messages about where log file exists for script results and echo messages to stederr refs #9104
• src/product/scripts/minimal.db.list.txt
  • lines changed 64, context: html, text, full: html, text
    inform messages about where log file exists for script results and echo messages to stederr refs #9104
• src/product/scripts/updateHtml.sh
  • lines changed 9, context: html, text, full: html, text
    inform messages about where log file exists for script results and echo messages to stederr refs #9104
• src/utils/qa/weeklybld/buildEnv.csh
  • lines changed 6, context: html, text, full: html, text
    v288 final build