File Changes for braney

v247_base to v248_preview (2011-02-14 to 2011-02-22) v248

• src/hg/encode/autoSql/bedRnaElements.as
  • lines changed 13, context: html, text, full: html, text
    hmm... thought I'd moved this into place
• src/hg/encode/autoSql/rnaElements.as
  • lines changed 13, context: html, text, full: html, text
    this is called bedRnaElements.as now
• src/hg/encode/docId/docIdSubmitDir/docIdSubmitDir.c
  • lines changed 4, context: html, text, full: html, text
    add cell name to names. This needs to be fixed to use the tag instead of the term to remove the special characters
• src/hg/encode/docId/docIdView/docIdView.c
  • lines changed 4, context: html, text, full: html, text
    add cell name to names. This needs to be fixed to use the tag instead of the term to remove the special characters
• src/hg/encode/docId/inc/docId.h
  • lines changed 1, context: html, text, full: html, text
    add cell name to names. This needs to be fixed to use the tag instead of the term to remove the special characters
• src/hg/encode/docId/lib/docIdSub.c
  • lines changed 2, context: html, text, full: html, text
    add cell name to names. This needs to be fixed to use the tag instead of the term to remove the special characters
• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • lines changed 5, context: html, text, full: html, text
    let bedRnaElements have a NULL field
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • lines changed 1, context: html, text, full: html, text
    add bedRnaElements
  • lines changed 1, context: html, text, full: html, text
    make check for GTF not look into the hierarchy. This is stop-gap until we get GTF validation into validateFiles
• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 2, context: html, text, full: html, text
    handle bamWigs
• src/hg/hgTracks/bamTrack.c
  • lines changed 116, context: html, text, full: html, text
    a complicated commit to support the arrows in decipher tracks, next item buttons on bigBeds, and the beginnings of BAM wiggles
• src/hg/hgTracks/bedTrack.c
  • lines changed 2, context: html, text, full: html, text
    a complicated commit to support the arrows in decipher tracks, next item buttons on bigBeds, and the beginnings of BAM wiggles
• src/hg/hgTracks/bigBedTrack.c
  • lines changed 1, context: html, text, full: html, text
    a complicated commit to support the arrows in decipher tracks, next item buttons on bigBeds, and the beginnings of BAM wiggles
• src/hg/hgTracks/hgTracks.h
  • lines changed 4, context: html, text, full: html, text
    a complicated commit to support the arrows in decipher tracks, next item buttons on bigBeds, and the beginnings of BAM wiggles
• src/hg/hgTracks/simpleTracks.c
  • lines changed 68, context: html, text, full: html, text
    a complicated commit to support the arrows in decipher tracks, next item buttons on bigBeds, and the beginnings of BAM wiggles
• src/hg/hgTracks/snakeTrack.c
  • lines changed 1, context: html, text, full: html, text
    a complicated commit to support the arrows in decipher tracks, next item buttons on bigBeds, and the beginnings of BAM wiggles
• src/hg/makeDb/hgLoadBed/hgLoadBed.c
  • lines changed 9, context: html, text, full: html, text
    add an option to convert a '.' into a NULL in the specified field
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 10, context: html, text, full: html, text
    add a bamWig track
• src/hg/utils/gtfToGenePred/gtfToGenePred.c
  • lines changed 5, context: html, text, full: html, text
    add an option to do simple checking on input as stop-gap for GTF acceptance in ENCODE pipeline
• src/utils/bigWigSummary/bigWigSummary.c
  • lines changed 1, context: html, text, full: html, text
    add a note about start and end coordinates being in BED format
• src/utils/git-reports/git-reports.c
  • lines changed 2, context: html, text, full: html, text
    take out the generic Merge commits
• src/utils/qa/weeklybld/buildEnv.csh
  • lines changed 2, context: html, text, full: html, text
    v248 preview