File Changes for tdreszer

v283_base to v284_preview (2013-05-07 to 2013-05-14) v284

• src/hg/hgGene/alleles.c
  • lines changed 95, context: html, text, full: html, text
    Initial check in of new hgGene section: Gene Alleles. The ra file is not being checked in yet.
  • lines changed 1, context: html, text, full: html, text
    A couple of cart vars got screwed up in the last change to no longer support timeout vars.
  • lines changed 1, context: html, text, full: html, text
    Fixed 2 objscure bugs resulting from deletions overlapping each other. Also did some name changing and comment clarification suggested by Angie.
  • lines changed 2, context: html, text, full: html, text
    Fixed Synonymous variant sorting, changed full sequence and all variant cart vars to global (instead of gene specific) and conditionally added the haplotype ID to a hover message at Kate's request.
• src/hg/hgGene/hgGene.c
  • lines changed 15, context: html, text, full: html, text
    Initial check in of new hgGene section: Gene Alleles. The ra file is not being checked in yet.
• src/hg/hgGene/hgGene.h
  • lines changed 9, context: html, text, full: html, text
    Initial check in of new hgGene section: Gene Alleles. The ra file is not being checked in yet.
• src/hg/hgGene/hgGeneData/Human/hg19/section.ra
  • lines changed 9, context: html, text, full: html, text
    Adding the Gene Alleles section with this one ra file. To prevent it from being released this cycle, merely revoke this one file.
• src/hg/hgGene/makefile
  • lines changed 1, context: html, text, full: html, text
    Initial check in of new hgGene section: Gene Alleles. The ra file is not being checked in yet.
• src/hg/htdocs/goldenPath/help/haplotypes.html
  • lines changed 197, context: html, text, full: html, text
    Major organization changes (suggested by Brooke). Also, less important notes have been moved to a table at the bottom. Decisions should be made as to which of these notes really shoud be in the body of the text.
  • lines changed 1, context: html, text, full: html, text
    Fixed 2 objscure bugs resulting from deletions overlapping each other. Also did some name changing and comment clarification suggested by Angie.
  • lines changed 17, context: html, text, full: html, text
    Removed reference to gene specific cart vars which are no longer accurate. Added a note about haplotype IDs which may not be included in the released version.
  • lines changed 13, context: html, text, full: html, text
    Removed the ID note as not ready for prime time and clarified some wording.
• src/hg/inc/cart.h
  • lines changed 5, context: html, text, full: html, text
    Removing cartBooleanTimeout as disappearing cart variables are not really a good idea at this time.
• src/hg/inc/haplotypes.h
  • lines changed 7, context: html, text, full: html, text
    Fixed 2 objscure bugs resulting from deletions overlapping each other. Also did some name changing and comment clarification suggested by Angie.
• src/hg/js/alleles.js
  • lines changed 1, context: html, text, full: html, text
    Fixed minor js warning.
  • lines changed 2, context: html, text, full: html, text
    A couple of cart vars got screwed up in the last change to no longer support timeout vars.
• src/hg/lib/cart.c
  • lines changed 31, context: html, text, full: html, text
    Removing cartBooleanTimeout as disappearing cart variables are not really a good idea at this time.
• src/hg/lib/haplotypes.c
  • lines changed 68, context: html, text, full: html, text
    Removed cart vars timing out and moved some buttons (conditionally).
  • lines changed 204, context: html, text, full: html, text
    Fixed 2 objscure bugs resulting from deletions overlapping each other. Also did some name changing and comment clarification suggested by Angie.
  • lines changed 22, context: html, text, full: html, text
    Fixed Synonymous variant sorting, changed full sequence and all variant cart vars to global (instead of gene specific) and conditionally added the haplotype ID to a hover message at Kate's request.