File Changes for larrym

v243_base to v244_preview (2010-11-02 to 2010-11-16) v244

• src/hg/hgTracks/cds.c
  • lines changed 30, context: html, text, full: html, text
    support codon numbering in genePred tracks
• src/hg/hgTracks/cds.h
  • lines changed 1, context: html, text, full: html, text
    support codon numbering in genePred tracks
• src/hg/hgTracks/hgTracks.h
  • lines changed 1, context: html, text, full: html, text
    support codon numbering in genePred tracks
• src/hg/hgTracks/imageV2.h
  • lines changed 1, context: html, text, full: html, text
    turn on CONTEXT_MENU
• src/hg/hgTracks/searchTracks.c
  • lines changed 1, context: html, text, full: html, text
    strip-out double quotes from description search string
• src/hg/hgTracks/simpleTracks.c
  • lines changed 5, context: html, text, full: html, text
    support codon numbering in genePred tracks
  • lines changed 1, context: html, text, full: html, text
    support codon numbering checkbox in hgTrackUi
• src/hg/inc/hui.h
  • lines changed 1, context: html, text, full: html, text
    support codon numbering checkbox in hgTrackUi
• src/hg/js/hgTracks.js
  • lines changed 5, context: html, text, full: html, text
    make sure openLink links contain chrom
  • lines changed 19, context: html, text, full: html, text
    add makeImgTag to fix FireFox problem
  • lines changed 1, context: html, text, full: html, text
    fix typo
• src/hg/js/utils.js
  • lines changed 7, context: html, text, full: html, text
    add codonColoringChanged
• src/hg/lib/hui.c
  • lines changed 9, context: html, text, full: html, text
    support codon numbering checkbox in hgTrackUi
• src/hg/utils/mutationClassifier/mutationClassifier.c
  • lines changed 55, context: html, text, full: html, text
    add geneModel option to accomodate using alternate gene models; use nibTwoCache to read DNA sequences (much faster than using hFetchSeqMixed)
  • lines changed 157, context: html, text, full: html, text
    start adding support for discovery of de novo binding site mutations