tdreszer: changes by file

review to branch (2009-06-30 to 2009-07-07) v210

• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • 1.186 lines changed: 1, context: html, text, full: html, text
    submittedDataVersion=Vn needed to be added to metadata
• src/hg/hgTracks/hgTracks.c
  • 1.1580 lines changed: 6, context: html, text, full: html, text
    Very minor work towards making the imgBox portal. Mostly just want to check in some format changes before too much dust gathers
• src/hg/hgTracks/imageV2.c
  • 1.4 lines changed: 194, context: html, text, full: html, text
    Very minor work towards making the imgBox portal. Mostly just want to check in some format changes before too much dust gathers
• src/hg/hgTracks/imageV2.h
  • 1.3 lines changed: 99, context: html, text, full: html, text
    Very minor work towards making the imgBox portal. Mostly just want to check in some format changes before too much dust gathers
• src/hg/hgTracks/simpleTracks.c
  • 1.89 lines changed: 3, context: html, text, full: html, text
    Added filterBy using 'score' so that ENCODE NHGRI BiPs can filter on annotations
• src/hg/inc/hui.h
  • 1.133 lines changed: 11, context: html, text, full: html, text
    Added vaule|label to 'filterBy' and allowed filterBy to work with score for ENCODE NHGRI Bips
• src/hg/lib/hui.c
  • 1.220 lines changed: 2, context: html, text, full: html, text
    Removed an extra .. from a help link
  • 1.219 lines changed: 68, context: html, text, full: html, text
    Added value|label to 'filterBy' and allowed filterBy to work with score for ENCODE NHGRI Bips
• src/hg/lib/encode/wgEncodeGencodeClasses.as
  • 1.1 lines changed: 14, context: html, text, full: html, text
    Inital check-in of Encode Gencode Classes table
• src/hg/lib/encode/wgEncodeGencodeClasses.sql
  • 1.1 lines changed: 23, context: html, text, full: html, text
    Inital check-in of Encode Gencode Classes table
• src/hg/makeDb/trackDb/wgEncodeNhgriBip.html
  • 1.3 lines changed: 55, context: html, text, full: html, text
    Last minute addition of another reference.
• src/hg/makeDb/trackDb/chimp/panTro2/trackDb.ra
  • 1.37 lines changed: 2, context: html, text, full: html, text
    Elnitski BiPs have no score filter at all since all scores are 800 for this species
  • 1.36 lines changed: 2, context: html, text, full: html, text
    ENCODE NHGRI Bidirectional promoters has no '-'.
• src/hg/makeDb/trackDb/cow/bosTau4/trackDb.ra
  • 1.12 lines changed: 2, context: html, text, full: html, text
    Elnitski BiPs have no score filter at all since all scores are 800 for this species
  • 1.11 lines changed: 2, context: html, text, full: html, text
    ENCODE NHGRI Bidirectional promoters has no '-'.
• src/hg/makeDb/trackDb/dog/canFam2/trackDb.ra
  • 1.31 lines changed: 2, context: html, text, full: html, text
    Elnitski BiPs have no score filter at all since all scores are 800 for this species
  • 1.30 lines changed: 2, context: html, text, full: html, text
    ENCODE NHGRI Bidirectional promoters has no '-'.
• src/hg/makeDb/trackDb/human/trackDb.ra
  • 1.465 lines changed: 18, context: html, text, full: html, text
    Moving Rosetta uniqueness track into Mapability
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.405 lines changed: 10, context: html, text, full: html, text
    Cleanup for Mapability. BiPs now use new 'filterBy score'.
  • 1.403 lines changed: 2, context: html, text, full: html, text
    ENCODE NHGRI Bidirectional promoters has no '-'.
  • 1.402 lines changed: 1, context: html, text, full: html, text
    Laura Elnotski wishes BiP to be Bi-Pro
  • 1.398 lines changed: 270, context: html, text, full: html, text
    Snyder wanted some cell line order changes
  • 1.391 lines changed: 1, context: html, text, full: html, text
    Rosetta uniqueness should be consistent
  • 1.390 lines changed: 25, context: html, text, full: html, text
    Moving Rosetta uniqueness track into Mapability
  • 1.389 lines changed: 6, context: html, text, full: html, text
    Also collapsed HepG2 and HepG2b into a single column.
  • 1.388 lines changed: 28, context: html, text, full: html, text
    Collapsed K562 and K562b into a single column. Not the best solution, but neither was 2 columns quite right.
  • 1.387 lines changed: 299, context: html, text, full: html, text
    Resubmitted Yale/K562 peaks, input. Fixed some metadata, standardized ChIP-seq
• src/hg/makeDb/trackDb/human/hg18/wgEncodeMapability.html
  • 1.12 lines changed: 10, context: html, text, full: html, text
    Cleaned up.
  • 1.11 lines changed: 29, context: html, text, full: html, text
    Moving Rosetta uniqueness track into Mapability
• src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra
  • 1.54 lines changed: 2, context: html, text, full: html, text
    Elnitski BiPs have no score filter at all since all scores are 800 for this species
  • 1.53 lines changed: 2, context: html, text, full: html, text
    ENCODE NHGRI Bidirectional promoters has no '-'.
• src/hg/makeDb/trackDb/rat/rn4/trackDb.ra
  • 1.37 lines changed: 2, context: html, text, full: html, text
    Elnitski BiPs have no score filter at all since all scores are 800 for this species
  • 1.36 lines changed: 2, context: html, text, full: html, text
    ENCODE NHGRI Bidirectional promoters has no '-'.
• src/hg/makeDb/trackDb/rhesus/rheMac2/trackDb.ra
  • 1.42 lines changed: 2, context: html, text, full: html, text
    Elnitski BiPs have no score filter at all since all scores are 800 for this species
  • 1.41 lines changed: 2, context: html, text, full: html, text
    ENCODE NHGRI Bidirectional promoters has no '-'.