Commits for vsmalladi

v260_preview to v260_preview2 (2011-11-15 to 2011-11-22) v260

• First pass at generating a DAF. Redmine #5986.
  • src/hg/encode/DAFs/3.0/mm9/wgEncodeCshlLongRnaSeq.daf - lines changed 67, context: html, text, full: html, text
• Added 3 new submissions for track. Redmine #110.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 817, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.ra - lines changed 55, context: html, text, full: html, text
• Added 6 submissions to track. Redmine # 111.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 1441, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.ra - lines changed 110, context: html, text, full: html, text
• Added localization to DAF.
  • src/hg/encode/DAFs/3.0/mm9/wgEncodeCshlLongRnaSeq.daf - lines changed 2, context: html, text, full: html, text
• Added spike-In and meta-data variable spike-in pools.
  • src/hg/encode/DAFs/3.0/mm9/wgEncodeCshlLongRnaSeq.daf - lines changed 11, context: html, text, full: html, text
• Added 4 submissions to track. Redmine #111.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 961, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.ra - lines changed 72, context: html, text, full: html, text
• Added new submission for track. Redmine #111.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 241, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.ra - lines changed 18, context: html, text, full: html, text
• Fixed mistake in label for MCF7 and SH-SY5Y GATA3 experiments. The Label for the matrix and subGroup didn't match meta-data.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhTfbs.new.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhTfbs.ra - lines changed 3, context: html, text, full: html, text
• Added another submissions to track. Redmine #111.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 241, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.ra - lines changed 18, context: html, text, full: html, text
• Added GEO Accession numbers for track. Redmine #2783.
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGisRnaPet.ra - lines changed 63, context: html, text, full: html, text
• Added Mouse and Human tags for Antibody validation documents to clearly indicate when an antibody has been validated for Mouse or Human. Redmine #1012.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 241, context: html, text, full: html, text
• Fixed spacing issues in validation files list.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
• Fixed errors found in Redmine #4154, that were the same inRedmine #4155 1. Changed header size from h2 -> h3 for "Maps of Occupancy by Transcription Factors" 2. Update "Information on antibodies used is available via the hyperlinks in the "Select subtracks" menu." -> "Information on antibodies used is available via the metadata for each sub-track." 3. Added spaces between units and scalars and added period for: "Reads of 32bp, 36bp or 50bp length were generated" 4. Added comma after Thus in "Thus we will be...." 5. Fixed sentence "was used to map reads to the male of female version of the mouse genome" to read "... male or female ... "
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCaltechHist.html - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCaltechTfbs.html - lines changed 6, context: html, text, full: html, text
• Moved over Labels from beta/cv.ra only. Two labels that were modified to not include semicolon are: 1. ELAVL1 (SC-5261) which is ELAVL1 (SC-5261; 07-1735 is recommended replacement for AB5831) beta/cv.ra 2. T7Tag (AB3790) which is T7Tag (AB3790; Nov_69522) in beta/cv.ra Need to discuss with Jeff about those labels, but these should suffice for now.
  • src/hg/makeDb/trackDb/cv/public/cv.ra - lines changed 237, context: html, text, full: html, text
• Fixed the issues found in Redmine #4154 which are relevant to Redmine #4155 1. Added period after Signal View description 2. Updated Sentences about information on Antibodies to read: "Information on the antibodies used is available via the metadata (click the down arrow in the subtrack list) for each subtrack"
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCaltechHist.html - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCaltechTfbs.html - lines changed 2, context: html, text, full: html, text