braney: changes by file

branch to review (2010-04-19 to 2010-04-27) v230

• src/hg/encode/DAFs/2.0/gisRnaPet.daf
  • 1.3 lines changed: 19, context: html, text, full: html, text
    add Clusters, make bam the alignment file type, only include fastq with read 1/2
• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • 1.76 lines changed: 9, context: html, text, full: html, text
    add info about files.txt and md5sum to preamble
• src/hg/makeDb/doc/encodeDccHg18/wgEncodeBuOrchid.release1.notes.txt
  • 1.2 lines changed: 10, context: html, text, full: html, text
    fix up some problems
  • 1.1 lines changed: 54, context: html, text, full: html, text
    release1 notes
• src/hg/makeDb/doc/encodeDccHg18/wgEncodeGisPet.release1.notes.txt
  • 1.1 lines changed: 220, context: html, text, full: html, text
    notes for relase1
• src/hg/makeDb/doc/encodeDccHg18/wgEncodeHudsonalphaRnaSeq.release1.notes.txt
  • 1.1 lines changed: 74, context: html, text, full: html, text
    notes for release1
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.955 lines changed: 143, context: html, text, full: html, text
    make hudsonalphaRnaSeq a separate include file
• src/hg/makeDb/trackDb/human/hg18/wgEncodeCaltechRnaSeq.alpha.ra
  • 1.9 lines changed: 1, context: html, text, full: html, text
    take out "Map Algorithm"
  • 1.8 lines changed: 138, context: html, text, full: html, text
    use our standard RNA-seq
• src/hg/makeDb/trackDb/human/hg18/wgEncodeGisPet.alpha.ra
  • 1.13 lines changed: 80, context: html, text, full: html, text
    make long labels fit in 80 chars
• src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaRnaSeq.alpha.ra
  • 1.6 lines changed: 5, context: html, text, full: html, text
    changed long labels from "No Treatment" to w/None
  • 1.5 lines changed: 20, context: html, text, full: html, text
    fix long labels
  • 1.4 lines changed: 1, context: html, text, full: html, text
    small change
  • 1.3 lines changed: 12, context: html, text, full: html, text
    fix up long labels
  • 1.2 lines changed: 34, context: html, text, full: html, text
    some edits
  • 1.1 lines changed: 144, context: html, text, full: html, text
    separate it out
• src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaRnaSeq.html
  • 1.2 lines changed: 61, context: html, text, full: html, text
    make into HTML
  • 1.1 lines changed: 26, context: html, text, full: html, text
    first pass