File Changes for hiram

v284_base to v285_preview (2013-05-27 to 2013-06-04) v285

• src/hg/makeDb/doc/echTel2.txt
  • lines changed 1985, context: html, text, full: html, text
    masked sequence done, ready for genbank and other tracks refs #9693
• src/hg/makeDb/doc/sorAra2.txt
  • lines changed 2029, context: html, text, full: html, text
    initial browser built refs #9348
• src/hg/makeDb/makefile
  • lines changed 2, context: html, text, full: html, text
    adding to the userUtils build refs #9149
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    adding sorAra2 to the build refs #9348
  • lines changed 1, context: html, text, full: html, text
    adding echTel2 to the build refs #9693
• src/hg/makeDb/trackDb/shrew/sorAra2/description.html
  • lines changed 63, context: html, text, full: html, text
    initial set of trackDb files from makeGenomeDb.pl refs #9348
• src/hg/makeDb/trackDb/shrew/sorAra2/gap.html
  • lines changed 30, context: html, text, full: html, text
    initial set of trackDb files from makeGenomeDb.pl refs #9348
• src/hg/makeDb/trackDb/shrew/sorAra2/gold.html
  • lines changed 33, context: html, text, full: html, text
    initial set of trackDb files from makeGenomeDb.pl refs #9348
• src/hg/makeDb/trackDb/shrew/sorAra2/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    initial set of trackDb files from makeGenomeDb.pl refs #9348
• src/hg/makeDb/trackDb/tenrec/echTel2/description.html
  • lines changed 63, context: html, text, full: html, text
    initial files from makeGenomeDb.pl refs #9693
• src/hg/makeDb/trackDb/tenrec/echTel2/gap.html
  • lines changed 30, context: html, text, full: html, text
    initial files from makeGenomeDb.pl refs #9693
• src/hg/makeDb/trackDb/tenrec/echTel2/gold.html
  • lines changed 34, context: html, text, full: html, text
    initial files from makeGenomeDb.pl refs #9693
• src/hg/makeDb/trackDb/tenrec/echTel2/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    initial files from makeGenomeDb.pl refs #9693
• src/hg/makefile
  • lines changed 4, context: html, text, full: html, text
    adding to the userUtils build refs #9149
  • lines changed 2, context: html, text, full: html, text
    adding pslToChain to the userApps refs #9149
• src/hg/mouseStuff/makefile
  • lines changed 6, context: html, text, full: html, text
    adding to the userUtils build refs #9149
• src/hg/pslToChain/makefile
  • lines changed 14, context: html, text, full: html, text
    adding to the userUtils build refs #9149
• src/hg/utils/phyloTrees/103way.commonNames.nh
  • lines changed 103, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
• src/hg/utils/phyloTrees/103way.nh
  • lines changed 103, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
• src/hg/utils/phyloTrees/103way.scientificNames.nh
  • lines changed 103, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
• src/hg/utils/phyloTrees/104way.commonNames.nh
  • lines changed 104, context: html, text, full: html, text
    adding panHod1 Tibetan antelop refs 0272
• src/hg/utils/phyloTrees/104way.nh
  • lines changed 104, context: html, text, full: html, text
    adding panHod1 Tibetan antelop refs 0272
• src/hg/utils/phyloTrees/104way.scientificNames.nh
  • lines changed 104, context: html, text, full: html, text
    adding panHod1 Tibetan antelop refs 0272
• src/hg/utils/phyloTrees/commonNames.sh
  • lines changed 6, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
  • lines changed 1, context: html, text, full: html, text
    adding panHod1 Tibetan antelop refs 0272
• src/hg/utils/phyloTrees/makefile
  • lines changed 8, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
  • lines changed 8, context: html, text, full: html, text
    adding panHod1 Tibetan antelop refs 0272
• src/hg/utils/phyloTrees/placentals.txt
  • lines changed 5, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
  • lines changed 3, context: html, text, full: html, text
    adding panHod1 Tibetan antelop refs 0272
• src/hg/utils/phyloTrees/scientificNames.sh
  • lines changed 6, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
  • lines changed 1, context: html, text, full: html, text
    adding panHod1 Tibetan antelop refs 0272
• src/hg/utils/phyloTrees/vertebrates.txt
  • lines changed 13, context: html, text, full: html, text
    adding mesAur1, lepWed1, zonAlb1, anaPla1, apaSpi1, astMex1 refs #10272
• src/makefile
  • lines changed 2, context: html, text, full: html, text
    adding to the userUtils build refs #9149
• src/parasol/makefile
  • lines changed 2, context: html, text, full: html, text
    make sure bin exists before any of the builds start here refs #9149
• src/userApps/Makefile
  • lines changed 8, context: html, text, full: html, text
    add the update of the actual userApps bits during an update refs #9149
• src/userApps/README
  • lines changed 4, context: html, text, full: html, text
    add note about contacting UCSC refs #9149
• src/userApps/fetchKentSource.sh
  • lines changed 1, context: html, text, full: html, text
    adding pslToChain to the build refs #9149
• src/utils/addCols/addCols.c
  • lines changed 4, context: html, text, full: html, text
    improve usage message to include with userUtils refs #9149
  • lines changed 3, context: html, text, full: html, text
    correct usage message to include with userUtils refs #9149
  • lines changed 0, context: html, text, full: html, text
    improve usage message to include with userUtils refs #9149
• src/utils/aveCols/aveCols.c
  • lines changed 3, context: html, text, full: html, text
    improve usage message to include with userUtils refs #9149
• src/utils/makefile
  • lines changed 2, context: html, text, full: html, text
    adding addCols and aveCols to the userUtils build refs #9149
  • lines changed 12, context: html, text, full: html, text
    adding to the userUtils build refs #9149
• src/utils/toLower/toLower.c
  • lines changed 2, context: html, text, full: html, text
    adding to the userUtils build refs #9149
• src/utils/toUpper/toUpper.c
  • lines changed 2, context: html, text, full: html, text
    adding to the userUtils build refs #9149