Commits for fang

v263_preview2 to v263_base (2011-02-07 to 2012-02-14) v263

• add age to short and long labels and make cell line name more numan readable in long labels
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.new.ra - lines changed 226, context: html, text, full: html, text
• set vertical viewing range of H3K27ac to 0-5
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.new.ra - lines changed 56, context: html, text, full: html, text
• changed Sig to Sg, Aln to Al, 8W to 8wk in some short labels
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.new.ra - lines changed 112, context: html, text, full: html, text
• add age, GEO_Accession to fileSortOrder
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.new.ra - lines changed 1, context: html, text, full: html, text
• had merge conflict in wgEncodeLicrHistone.new.ra, this is probably caused by last roll back where the viewLimits 0:5 of H3K27ac was added, now this is removed. Strangely this merge conflict message did not show up yesterday when roll back happened. Nothing has been done to this file today
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.new.ra - lines changed 55, context: html, text, full: html, text
• re-add viewLimit 0:5 for H3K27ac after rollback
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.new.ra - lines changed 65, context: html, text, full: html, text
• add expId, dccAccession to entries with ages other than adult-8wks
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrRnaSeq.ra - lines changed 223, context: html, text, full: html, text
• try to fix failed merge
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrRnaSeq.ra - lines changed 162, context: html, text, full: html, text
• renaming wgEncodeLicrRnaSeq.new.ra to wgEncodeLicrRnaSeq.release2.ra, update trackDb.wgEncode.ra for this change
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.new.ra - lines changed 797, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.ra - lines changed 797, context: html, text, full: html, text
• change wrangler from Venkat to Fang, renaming wgEncodeLicrHistone.new.ra to wgEncodeLicrHistone.release2.ra, update trackDb.wgEncode.ra for this change
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.new.ra - lines changed 930, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.release2.ra - lines changed 930, context: html, text, full: html, text
• change wrangler from Venkat to Fang, renaming wgEncodeLicrTfbs.new.ra to wgEncodeLicrTfbs.release2.ra, update trackDb.wgEncode.ra for this change
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrTfbs.new.ra - lines changed 702, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrTfbs.release2.ra - lines changed 702, context: html, text, full: html, text
• re-add strain to long lable which probably got removed after roll back
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.ra - lines changed 76, context: html, text, full: html, text
• turn off autoScale
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.ra - lines changed 1, context: html, text, full: html, text
• add age information to long label, modified short label to <=17 char long
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.release2.ra - lines changed 150, context: html, text, full: html, text
• remove strain from fileSorOrder as all the samples have the same strain
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.release2.ra - lines changed 1, context: html, text, full: html, text
• add age to sortOrder
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.release2.ra - lines changed 1, context: html, text, full: html, text
• modified shortLabel to have it's length<=17, add age information to long labels
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrTfbs.release2.ra - lines changed 125, context: html, text, full: html, text
• remove #autogenerated comment
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.release2.ra - lines changed 41, context: html, text, full: html, text
• remove #autogenerated comment
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrTfbs.release2.ra - lines changed 13, context: html, text, full: html, text
• add empty GEO_accession column, Morgan will request GEO_accession in batch later
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.release2.ra - lines changed 1, context: html, text, full: html, text
• added age to sortOrder in tracking setting page; removed strain column from fileSortOrder in Downloads page as the experiments uses the same strain; added empty GEO_accession column to fileSortOrder in Downloads page, Morgan will request GEO_accession number in batch later
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrTfbs.release2.ra - lines changed 2, context: html, text, full: html, text
• add Caltech desription page which is downloaded from redmine (Caltech_mouse_RNA-Seq_Track_Description_2011-09-01.html)
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCaltechRnaSeq.html - lines changed 146, context: html, text, full: html, text
• changed 'the precise' to 'their precise' in 'In general, these are associated with gene activity, but the precise relationships remain to be established.' which is a bit vague
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCaltechRnaSeq.html - lines changed 1, context: html, text, full: html, text
• added file wgEncodeLicrRnaSeq.release2.html which is a copy of wgEncodeLicrRnaSeq.html
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.html - lines changed 115, context: html, text, full: html, text
• added 'html wgEncodeLicrRnaSeq.release2' to the composite stanza (top stanza)
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.ra - lines changed 1, context: html, text, full: html, text
• In the Description paragraph, changed C57Bl/6 to C57BL/6added detailed mouse tissue, primary cell and their age group information.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.html - lines changed 5, context: html, text, full: html, text
• added release note for release2
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.html - lines changed 8, context: html, text, full: html, text
• remove the space in the end of the release note
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.html - lines changed 1, context: html, text, full: html, text
• modified the release note to reflect the new experiments added since release 1
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.html - lines changed 3, context: html, text, full: html, text
• added the following notes to the Release Notes :\nThe row is changed to the subtrack list which is right below the configuration box in the Track Settings page.\nAge column is added to the subtrack list which is right below the configuration box in the Track Settings page.\nAge and GEO Accession columns are added to the downloadable file list in the Downloads page
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.release2.html - lines changed 3, context: html, text, full: html, text