Commits for vsmalladi

v245_preview to v245_preview2 (2010-12-14 to 2010-12-21) v245

• Fixed labeling spacing problems that existed.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.ra - lines changed 1, context: html, text, full: html, text
• Fixed hardcoded link to be relative link to downloads page.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.html - lines changed 3, context: html, text, full: html, text
• Revoked changes of previous commit. Didn't correctly remove hardcoded-links.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.html - lines changed 3, context: html, text, full: html, text
• Added 2 new submissions. Updated the meta-data to have lab as Stanford-m instead of Stanford.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeSydhTfbs.ra - lines changed 305, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeSydhTfbs.ra - lines changed 41, context: html, text, full: html, text
• Added 2 submission for TFBS. In addition updated the lab from LICR to LICR-m
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrHistone.ra - lines changed 149, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrTfbs.ra - lines changed 195, context: html, text, full: html, text
• Added 10 submissions Fixed bam files.
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 1457, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.ra - lines changed 179, context: html, text, full: html, text
• Made new trackDb for release 2 with alpha tags that include all data. The original wgEncodeSydhTfbs.ra will only include data that will be released and now has release beta tags.
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeSydhTfbs.newR2.ra - lines changed 702, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeSydhTfbs.ra - lines changed 481, context: html, text, full: html, text
• Removed metadata lines from trackDb.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeSydhHistone.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeSydhTfbs.newR2.ra - lines changed 30, context: html, text, full: html, text
• Fixed typo in track long label. Change Fingerprinting to Footprinting.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDgf.ra - lines changed 2, context: html, text, full: html, text
• Removed Rank from meta-data
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwHistone.ra - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwTfbs.ra - lines changed 220, context: html, text, full: html, text
• Added release notes for Histone and Tfbs tracks.
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeUwHistone.release1.notes - lines changed 1542, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeUwTfbs.release1.notes - lines changed 988, context: html, text, full: html, text
• Updated Default Views to be Tier 1 and Tier 2 cell lines for Replicate 1.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.ra - lines changed 6, context: html, text, full: html, text
• Updated errant mistake in lab variable for Stanford and Ren lab tracks.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrHistone.ra - lines changed 45, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrTfbs.ra - lines changed 45, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeSydhTfbs.ra - lines changed 49, context: html, text, full: html, text
• Added submission 2788, fastq and bam meta-data.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrTfbs.ra - lines changed 105, context: html, text, full: html, text
• Removed Accession from meta-data terms. Moved information into new field dccNotes which will keep this information that is not of use to the DCC, but information the lab provided.
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUwAffyExonArray.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeYaleChIPseq.ra - lines changed 27, context: html, text, full: html, text
• Added back release tags in data inorder to facilitate the removal of 3 experiments.
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.ra - lines changed 231, context: html, text, full: html, text
• Updated new.ra to have release alpha tags.
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.ra - lines changed 242, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.ra - lines changed 235, context: html, text, full: html, text
• Fixed mistake about having release alpha for .ra and beta,public as .new.ra
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.ra - lines changed 235, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.ra - lines changed 235, context: html, text, full: html, text
• Removed reference in trackDb and metaDb for the Jurkat G1 and HIPEpiC Experiments.
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUwDnaseSeq.ra - lines changed 175, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.ra - lines changed 64, context: html, text, full: html, text
• Added 5 ChIP-seq experiments on SK-N-SH_RA cells.
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 1170, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.ra - lines changed 154, context: html, text, full: html, text
• Removed 3 experiments and updated release 4 notes.
  • src/hg/makeDb/doc/encodeDccHg18/wgEncodeUwDnaseSeq.release4.notes.txt - lines changed 752, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.ra - lines changed 186, context: html, text, full: html, text
• Fixed known files paths to be pointing towards release4
  • src/hg/makeDb/doc/encodeDccHg18/wgEncodeUwDnaseSeq.release4.notes.txt - lines changed 370, context: html, text, full: html, text