ann: changes by file

review to branch (2009-09-22 to 2009-09-29) v216

• src/hg/makeDb/trackDb/dog/canFam2/trackDb.ra
  • 1.36 lines changed: 12, context: html, text, full: html, text
    added overrides for chain/net monDom4/5
• src/hg/makeDb/trackDb/opossum/monDom5/trackDb.ra
  • 1.19 lines changed: 58, context: html, text, full: html, text
    added chain vars for all orgs
  • 1.15 lines changed: 4, context: html, text, full: html, text
    added details about mm9 chain
  • 1.14 lines changed: 18, context: html, text, full: html, text
    Brooke and Bob want it to be opposite of the Conservation line-up (which I think is incorrect:-)
  • 1.13 lines changed: 71, context: html, text, full: html, text
    ordered chain/net tracks wrt the opossum and each-other.
• src/utils/qa/chain.csh
  • 1.25 lines changed: 3, context: html, text, full: html, text
    added call for new getChainLines script
• src/utils/qa/getChainLines.csh
  • 1.2 lines changed: 2, context: html, text, full: html, text
    we do not need the dollar-sign before the variable
  • 1.1 lines changed: 72, context: html, text, full: html, text
    this script gets the two variables needed for the chain description page ($chainMinScore and $chainLinearGap). similar to the getMatrixLines script which gets the $matrix variable
• src/utils/qa/makefile
  • 1.114 lines changed: 1, context: html, text, full: html, text
    new getChainLines script