File Changes for cline

v248_preview to v248_preview2 (2011-02-22 to 2011-03-01) v248

• src/hg/lib/genbank.c
  • lines changed 1, context: html, text, full: html, text
    When recording a selenocysteine exception, save the specific information on the exception in the hash. This will be useful later in txCdsPick.c
• src/hg/makeDb/trackDb/cv/alpha/cv.ra
  • lines changed 5, context: html, text, full: html, text
    Accepted a couple provisional stanzas. Drafted a validation regex for md5sums
  • lines changed 2, context: html, text, full: html, text
    Accepted provisional changes, cleaned up one comment
  • lines changed 58, context: html, text, full: html, text
    Renamed several antibodies, in response to Redmine Bug # 2965
  • lines changed 3, context: html, text, full: html, text
    Fixed a broken link introduced wen addressing Redmine bug 2965
  • lines changed 56, context: html, text, full: html, text
    (1) Clarified the comments on expected values, especially concerning the interrelations between stanzas. (2) Added a couple stanzas to document expected values for familiar types (e.g. organism, tier). (3) Added data for one Farnham lab cell type that had been registered provisionally. (4) Fixed the antibody validation line convention of <antibody>_(<validationType>):<filename> as opposed to <antibody>_(<validationType>)_<PI>:<filename>. The reason: adding the name of the lab that validated the antibody adds no information, since it's the same as the lab that first entered the antibody. Having the name displayed in the validation column just adds clutter to the column
• src/hg/makeDb/trackDb/cv/beta/cv.ra
  • lines changed 51, context: html, text, full: html, text
    Copied a bunch of changes from alpha to beta
  • lines changed 29, context: html, text, full: html, text
    Copying a bunch of changes from alpha to beta
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUncBsuProt.ra
  • lines changed 2, context: html, text, full: html, text
    Made a change in capitalization to make this data consistent with the files in the downloads directory
• src/hg/makeDb/trackDb/human/hg19/wgEncodeRIPSuper.html
  • lines changed 88, context: html, text, full: html, text
    Copied a bunch of changes from alpha to beta
• src/hg/makeDb/trackDb/human/hg19/wgEncodeRbpSuper.html
  • lines changed 1, context: html, text, full: html, text
    Set up the ENCODE RNA Binding Protein (RBP) supertrack page. Added the page to the set of ENCODE supertracks, and added the four SUNY RBP tracks to the supertrack
• src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyAlbanyGeneSt.ra
  • lines changed 1, context: html, text, full: html, text
    Set up the ENCODE RNA Binding Protein (RBP) supertrack page. Added the page to the set of ENCODE supertracks, and added the four SUNY RBP tracks to the supertrack
• src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyAlbanyTiling.ra
  • lines changed 1, context: html, text, full: html, text
    Set up the ENCODE RNA Binding Protein (RBP) supertrack page. Added the page to the set of ENCODE supertracks, and added the four SUNY RBP tracks to the supertrack
• src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyRipSeq.ra
  • lines changed 1, context: html, text, full: html, text
    Added this track into the ENCODE RBP supertrack
• src/hg/makeDb/trackDb/human/hg19/wgEncodeSunySwitchgear.ra
  • lines changed 1, context: html, text, full: html, text
    Set up the ENCODE RNA Binding Protein (RBP) supertrack page. Added the page to the set of ENCODE supertracks, and added the four SUNY RBP tracks to the supertrack
• src/hg/makeDb/trackDb/human/hg19/wgEncodeSuper.ra
  • lines changed 7, context: html, text, full: html, text
    Set up the ENCODE RNA Binding Protein (RBP) supertrack page. Added the page to the set of ENCODE supertracks, and added the four SUNY RBP tracks to the supertrack
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUncBsuProt.html
  • lines changed 28, context: html, text, full: html, text
    Minor HTML text editing, for clarity
  • lines changed 59, context: html, text, full: html, text
    Incorporated some feedback from the Giddings lab
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUncBsuProt.ra
  • lines changed 2, context: html, text, full: html, text
    Added the localization to the long labels
• src/hg/txCds/txCdsPick/txCdsPick.c
  • lines changed 3, context: html, text, full: html, text
    When transferring information on a selenocysteine exception, grab the specific information on the exception now stored in the selenocysteine hash
• src/hg/txGene/txGeneValidation/compareModifiedFileSizes.csh
  • lines changed 16, context: html, text, full: html, text
    Simplified the argument list. Now this script takes only three arguments: the old directory (required), the new directory (required), and an optional argument for ctime
  • lines changed 1, context: html, text, full: html, text
    Added one more critical step: removing the temporary directory just created
  • lines changed 3, context: html, text, full: html, text
    Reversed the order of the first two arguments to make them consistent with the documentation