Commits for cricket

v248_preview2 to v248_base (2011-03-01 to 2011-03-08) v248

• Changed long labels at Kate's request
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeUwAffyExonArray.ra - lines changed 136, context: html, text, full: html, text
• Made Changes to clarify the Generation 0 data. 1 - removed all cases of Gen 0 data where we had Generation 1 data to replace. 2 - Clarified in release notes. 3 - Added Gen 0 into labels. 4 - Added 0 into short label.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.html - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 86, context: html, text, full: html, text
• Changing rep 0 to Gen 0, removing 0 from the shortLabels
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 62, context: html, text, full: html, text
• Added missing bioRep info
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra - lines changed 112, context: html, text, full: html, text
• Changed labels, release notes, and release tags, removed replicates 3 and4 to the attic
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeDukeAffyExon.html - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeDukeAffyExon.ra - lines changed 311, context: html, text, full: html, text
• Added fileSortOrder
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeDukeAffyExon.ra - lines changed 1, context: html, text, full: html, text
• Recieved the track description for GisChiaPet
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGisChiaPet.html - lines changed 71, context: html, text, full: html, text
• Changing things so that replicates 3 and 4 are labeled 1 and 2 and the generation 0 data that has no replicate will now be labeled 1. Added a ddcRep field to the CV so that we can track where our replicates vary from the lab, this could have been done with labRep
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra - lines changed 250, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 116, context: html, text, full: html, text
• Changed the last bits of metaData to have now two replicates, the lab replicate and the dccRep, changed the cv.ra to prioritize this dccRep the same as replicate, introduced a bug in that the replicate numbers now click through to tier numbers, will talk to Tim
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra - lines changed 79, context: html, text, full: html, text
• Reordered the composites to Vanessa's request. Labeling not done
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 110, context: html, text, full: html, text
• Changing the replicate labels to dccRep
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 1, context: html, text, full: html, text
• Added a note and a few more references and a commented out paragraph that were requests of the lab
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRbpSuper.html - lines changed 32, context: html, text, full: html, text
• dccRep is not CV defined and needed to be noted in both files
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 1, context: html, text, full: html, text
• Added 2 more elements views
  • src/hg/encode/DAFs/2.0/caltechElements.daf - lines changed 14, context: html, text, full: html, text
• Added downloads files for TSS
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 8168, context: html, text, full: html, text
• Fixed broken links to pubmed
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRbpSuper.html - lines changed 7, context: html, text, full: html, text
• git conflict fix
• Fixed alphabetization
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRbpSuper.html - lines changed 40, context: html, text, full: html, text
• undo the mistake of committing a mdb file over trackDb file
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra - lines changed 862, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 8168, context: html, text, full: html, text
• Changed the labels for dccRep to UCSC Rep and UCSC replicate number
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra - lines changed 1, context: html, text, full: html, text
• Changed the methods section with lab update
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyRipSeq.html - lines changed 13, context: html, text, full: html, text
• This addresses many things in Issue#1664 Note #14, including adding the view capability back into the track
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 20, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGisChiaPet.ra - lines changed 193, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGisChiaPet.ra - lines changed 69, context: html, text, full: html, text