File Changes for wong

v265_preview to v265_preview2 (2012-03-13 to 2012-03-20) v265

• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • lines changed 11, context: html, text, full: html, text
    fixed a bug where a cvDefined=no term was still trying to be validated against the cv
  • lines changed 31, context: html, text, full: html, text
    added in a new subroutine to validate the ddf header against the cv instead of fields.ra
  • lines changed 4, context: html, text, full: html, text
    i forgot about the perl hash bug where you need to confirm values in an intermediate nested hash, becuase if you don't, it get automatically created, and that creates phantom entries in the cv term hash
  • lines changed 1, context: html, text, full: html, text
    removed unecessary comment
  • lines changed 1, context: html, text, full: html, text
    pushQDescription is no longer used, however a blank value isn't allowed in load.ra, so i put a fake '1' in place of it
• src/hg/makeDb/doc/encodeDccHg19/wgEncodeGisChiaPet.release1.notes
  • lines changed 232, context: html, text, full: html, text
    willy's chia pet fixes
• src/hg/makeDb/trackDb/cv/alpha/cv.ra
  • lines changed 10, context: html, text, full: html, text
    added files as a cv typeOfTerm
  • lines changed 18, context: html, text, full: html, text
    added in parent hpc-l cell line (WIlly)
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeCshlLongRnaSeq.ra
  • lines changed 42, context: html, text, full: html, text
    fixing the cell lines names caused by the perl hash bug.
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromDnase.ra
  • lines changed 387, context: html, text, full: html, text
    added in replacement tracks and new tracks for open chrom dnase
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlLongRnaSeq.release2.ra
  • lines changed 258, context: html, text, full: html, text
    added in new track (Willy)
  • lines changed 4, context: html, text, full: html, text
    added in defaults
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGisChiaPet.html
  • lines changed 21, context: html, text, full: html, text
    willy's chia pet fixes
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGisChiaPet.ra
  • lines changed 1, context: html, text, full: html, text
    willy's chia pet fixes
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.release2.html
  • lines changed 11, context: html, text, full: html, text
    added in Terry's release notes for open chrom DNAse
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.release2.ra
  • lines changed 109, context: html, text, full: html, text
    added in replacement tracks and new tracks for open chrom dnase
• src/hg/utils/automation/Encode.pm
  • lines changed 6, context: html, text, full: html, text
    chnged it so that validateFieldList dones't allow ddf's to be processed with fields.ra
  • lines changed 3, context: html, text, full: html, text
    fixed daf version to allow 2.0 and 3.0 for now, will need to remove once all labs are up to date
  • lines changed 3, context: html, text, full: html, text
    changed Encode.pm to allow two daf versions, 2.0 and 3.0, correctly this time, unless is the right conditional