Commits for vsmalladi

v245_base to v246_preview (2011-01-04 to 2010-01-11) v246

• Updated track short labels for views. Also update age for cell lines to immortalized.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwDnase.ra - lines changed 16, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 63, context: html, text, full: html, text
• Added 2 strains B6D2F1/J and RIII, which are associated to 416B and 3134 Mouse cell lines, respectivley. Fixed the meta-data to accomadate with updated information.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 10, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwDnase.ra - lines changed 16, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 10, context: html, text, full: html, text
• Updated track description. Removing reference to hg18 and replaced with hg19 reference.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylSeq.html - lines changed 2, context: html, text, full: html, text
• Used new DDF to update hg19 Methyl Seq data. Update meta-data to match when the submission was first accepted into our pipeline.
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibMethylSeq.ra - lines changed 929, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylSeq.ra - lines changed 189, context: html, text, full: html, text
• Fixed typo in subgroup.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylSeq.ra - lines changed 1, context: html, text, full: html, text
• Added release alpha to View.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylSeq.ra - lines changed 1, context: html, text, full: html, text
• made Release 4 html and added line in .new.ra to make the new html file.
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.html - lines changed 108, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.ra - lines changed 1, context: html, text, full: html, text
• First pieces of code to deal with new variable obtainedBy.
  • src/hg/encode/encodeValidate/doEncodeValidate.pl - lines changed 16, context: html, text, full: html, text
• Added typeofTerm for obtainedBy in CV.ra
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 8, context: html, text, full: html, text
• Added comments trying to figure out how subGroups is printed out.
  • src/hg/encode/encodeValidate/doEncodeValidate.pl - lines changed 2, context: html, text, full: html, text
• Replaced dccNotes with dccInternalNotes.
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUwAffyExonArray.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeYaleChIPseq.ra - lines changed 14, context: html, text, full: html, text
• Added code in encodeDownlaodsPage to not show dccNotes and added description in cv.ra as type of term.
  • src/hg/encode/encodeDownloadsPage/encodeDownloadsPage.pl - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 8, context: html, text, full: html, text
• Added PythonLib directory and started styleGuide.
  • src/hg/pythonLib/styleGuide.txt - lines changed 2, context: html, text, full: html, text
• Updated notes with what should be done with track configuration, labels, display conventions.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.ra - lines changed 24, context: html, text, full: html, text
• Updated notes with what should be done with track configuration, labels, display conventions. Need confirmation of long labels.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.ra - lines changed 20, context: html, text, full: html, text
• Updated notes with what should be done with track configuration, labels, display conventions. Need confirmation of long labels.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.ra - lines changed 16, context: html, text, full: html, text
• Added Provional tag for 2 new strains.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
• Added track name that was accidently deleted.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.ra - lines changed 1, context: html, text, full: html, text
• Updated notes of possible shortlabels.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 2, context: html, text, full: html, text
• Updated Encode specific trackDb to clearly layout tracks with comments about tracks. Also improve orginization of track specific includes to make easy readability.
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra - lines changed 14, context: html, text, full: html, text
• Implemented new release tags at compsosite level rather than subTrack level.
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeSydhTfbs.newR2.ra - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeSydhTfbs.ra - lines changed 20, context: html, text, full: html, text
• Added 7 Chip-seq submissions for the Jan freeze.
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 1259, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.ra - lines changed 247, context: html, text, full: html, text