File Changes for angie

v286_preview to v286_preview2 (2013-06-24 to 2013-07-02) v286

• src/hg/htdocs/goldenPath/help/hgVaiHelpText.html
  • lines changed 322, context: html, text, full: html, text
    First draft of hgVai documentation. refs #6152
  • lines changed 2, context: html, text, full: html, text
    minor tweak: put tool's short/common name first, followed by long name.
• src/hg/makeDb/doc/hg19.txt
  • lines changed 33, context: html, text, full: html, text
    Added a cautionary note for the next dbSNP build, to look for rs IDs that havebeen mapped to assembly patch contigs but not the primary reference, because
    in at least some of those cases, mappings to the primary assembly show up on
    dbSNP's website but not in the download files. refs #8360
    
• src/hg/makeDb/trackDb/human/hg19/pgSnp.html
  • lines changed 78, context: html, text, full: html, text
    Updating Complete Genomics samples and references. refs #683
  • lines changed 5, context: html, text, full: html, text
    Clarifying which Genome Variants subtracks are native to hg19 and whichwere lifted. Unfortunately the per-subtrack origAssembly/pennantIcon
    settings aren't reflected in the hgTrackUi table of subtracks; that
    would be a nice feature.
    
  • lines changed 80, context: html, text, full: html, text
    Updating links & small fixes - thanks Brooke! refs #683
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 28, context: html, text, full: html, text
    Clarifying which Genome Variants subtracks are native to hg19 and whichwere lifted. Unfortunately the per-subtrack origAssembly/pennantIcon
    settings aren't reflected in the hgTrackUi table of subtracks; that
    would be a nice feature.
    
• src/hg/makeDb/trackDb/human/trackDb.pgSnp.ra
  • lines changed 1, context: html, text, full: html, text
    Shortening too-longLabel per Brooke's suggestion. refs #683