tdreszer: changes by commit

branch to review (2009-06-09 to 2009-06-16) v208

• Missing Restricted Until link
  • src/hg/lib/hui.c 1.209 - lines changed: 3, context: html, text, full: html, text
• Added a bunch of Yale treatments which necessitated breaking the composite between alpha nad beta and creating a 3D matrix for on alpha
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.341 - lines changed: 3393, context: html, text, full: html, text
• Yale's many subtracks outgrew the 8 bit counter that I was using
  • src/hg/lib/hui.c 1.210 - lines changed: 2, context: html, text, full: html, text
• Bryan updated his uniqueness methods
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeMapability.html 1.6 - lines changed: 12, context: html, text, full: html, text
• It appears that these changes were committed in January, then stepped on in February
  • src/hg/hgTracks/wigTrack.c 1.91 - lines changed: 10, context: html, text, full: html, text
• Added K562b and HepG2b alternate cell lines because Yale and UCDavis can't agree
  • src/hg/encode/encodeValidate/config/cv.ra 1.112 - lines changed: 32, context: html, text, full: html, text
• Added new Yale treatments, split out 'b' versions of K562 and HepG2, reworked some metadata
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.343 - lines changed: 288, context: html, text, full: html, text
• Added E2F6 antibody for Yale
  • src/hg/encode/encodeValidate/config/cv.ra 1.113 - lines changed: 8, context: html, text, full: html, text
• Typo on of of the billion tablenames
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.344 - lines changed: 1, context: html, text, full: html, text
• More Yale Tables K562b/E2F2 and HepG2b/TR4
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.345 - lines changed: 231, context: html, text, full: html, text
• Yale is one massive 2D array
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.346 - lines changed: 247, context: html, text, full: html, text
• Huge Yale matrix requires right buttons and bottom buttons
  • src/hg/lib/hui.c 1.212 - lines changed: 240, context: html, text, full: html, text
• Moved Excluded Regions to the Mapability track
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.347 - lines changed: 31, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeChromatinMap.html 1.10 - lines changed: 17, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeMapability.html 1.7 - lines changed: 11, context: html, text, full: html, text
• Fixed metadata associated with moving excluded regions from open chramatin to mapability
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.348 - lines changed: 1, context: html, text, full: html, text
• I removed js file versioning by fake get variable, as it has led to some browsers/configurations reacquiring the file from the server every time a function is called. Versioning solution still remains to be done.
  • src/hg/lib/jsHelper.c 1.26 - lines changed: 2, context: html, text, full: html, text
• Changed the wording for Duke excludable regions
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeMapability.html 1.8 - lines changed: 4, context: html, text, full: html, text
• Minor wording change
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeChromatinMap.html 1.11 - lines changed: 1, context: html, text, full: html, text
• Kate didn't like colons, count occupied rows and columns in matrix, composteViewControlNameFromTdb didn't support ClosestToHome.
  • src/hg/lib/hui.c 1.213 - lines changed: 14, context: html, text, full: html, text
• Added Yale/UCD K562b E2F6 and Setdb1
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.351 - lines changed: 81, context: html, text, full: html, text