Commits for cricket

v274_base to v275_preview (2012-10-09 to 2012-10-16) v275

• Moving RipInput to the Control section. This can be verified in tracks like http://hgwdev.cse.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeSunyAlbanyTiling. This is trying to standardize the confusion between Control and Antibody. We have most Controls listed under Control but accepted as an Antibody term. I know this is confusing, but this is one of the only controls that was different.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 18, context: html, text, full: html, text
• More random changes regarding capitilizations, order of lines, spelling errors
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 18, context: html, text, full: html, text
• Trying to fix the Tenebaum registrations according to an email from Scott Tenebaum in ticket http://redmine.soe.ucsc.edu/issues/9159#note-16
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 42, context: html, text, full: html, text
• Removing the alternative tissue comments, removing the commented out unused cell lines. Trying to clean up the spacing of the comments.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 188, context: html, text, full: html, text
• standardizing more vendorNames, orderurls, and vendorIds
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 37, context: html, text, full: html, text
• Standardizing the antibodyDescription to start with host and type
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 84, context: html, text, full: html, text
• Adding a targetUrl for T7 tag, adding targetClass where it is known for other antibodies of the same target, fixing capitalization for Maf and Max
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 22, context: html, text, full: html, text
• Reconciling the target versus the HGNC symbol by hand using the orderUrl information and HGNC synonyms. There were around 40 mismatches and this is my first round at reconciling
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 53, context: html, text, full: html, text
• Changing target P300 to the approved EP300 and merging the TFIIB with GTF2B which finds a missing validation document
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 28, context: html, text, full: html, text
• Still going through one by one and comparing why we have conflicting target names. Also, changed all entries of Epstein to Bernstein
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 30, context: html, text, full: html, text
• Fixing conflict
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 9, context: html, text, full: html, text
• Fixing things from code review 9305
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 11, context: html, text, full: html, text
• Moving beta to public
  • src/hg/makeDb/trackDb/cv/public/cv.ra - lines changed 11131, context: html, text, full: html, text
• Space changes only
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 1, context: html, text, full: html, text
• Removing stanzas that have no files attached to them, these files are in LicrHistone. This came from a script that QA runs.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrTfbs.ra - lines changed 154, context: html, text, full: html, text
• Still cleaning up the antibodys that did not have target matching the gene AND removed the Novagen reference from from the T7 Tag as specified by Soctt Tenenbaum
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 28, context: html, text, full: html, text