Commits for angie

v246_preview to v246_preview2 (2011-01-11 to 2011-01-18) v246

• Small bugfix and format tweak for SNP details when there are multiplemappings to the genome.
  • src/hg/hgc/hgc.c - lines changed 2, context: html, text, full: html, text
• Moved hgc.c's {begin,end}CollapsibleSection to jsHelper.c:js{Begin,End}CollapsibleSection so I can use in hgTrackUi.
  • src/hg/hgc/hgc.c - lines changed 36, context: html, text, full: html, text
  • src/hg/inc/jsHelper.h - lines changed 8, context: html, text, full: html, text
  • src/hg/lib/jsHelper.c - lines changed 31, context: html, text, full: html, text
• Made several portions of the SNP controls page collapsible.
  • src/hg/hgTrackUi/hgTrackUi.c - lines changed 24, context: html, text, full: html, text
• Added width to <TD> tag in jsBeginCollapsible section. This stabilizes the width in FireFox but unfortunately not IE.
  • src/hg/lib/jsHelper.c - lines changed 1, context: html, text, full: html, text
• Some more polishing for SNP details.
  • src/hg/hgc/hgc.c - lines changed 4, context: html, text, full: html, text
• Added some #ifdef USE_BAM's to fix compile on systems that don't have samtools/USE_BAM.
  • src/hg/hgTracks/cds.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgTracks/cds.h - lines changed 4, context: html, text, full: html, text
• Track #1684 (SNPs 132 (dbSNP)): Added subsets of snp132: Common, Patient, Non-Unique ("Failed" for now as Paul Flicek described them)
  • src/hg/makeDb/doc/hg19.txt - lines changed 76, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 38, context: html, text, full: html, text
• CSS tweak: added class=bigBlue to TD in beginCollapsibleSection
  • src/hg/htdocs/style/HGStyle.css - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/jsHelper.c - lines changed 1, context: html, text, full: html, text
• Just for fun, added HGDP world map icon to collapsible section header in SNP details.
  • src/hg/hgc/hgc.c - lines changed 5, context: html, text, full: html, text
  • src/hg/hgc/hgdpClick.c - lines changed 26, context: html, text, full: html, text
• Use return value from system() to avoid warning/error about ignoring it from gcc 4.4.1-4ubuntu9.
  • src/hg/utils/refreshNamedSessionCustomTracks/refreshNamedSessionCustomTracks.c - lines changed 3, context: html, text, full: html, text
• Oops, thought this was included in 31b56093: Just for fun, added HGDP world map icon to collapsible section header in SNP details.
  • src/hg/hgc/hgc.h - lines changed 4, context: html, text, full: html, text
• Small fix: pass a proper format string to truncatef because the string to be copied can contain '%'.
  • src/hg/lib/hgFind.c - lines changed 1, context: html, text, full: html, text
• Track #1684 (SNPs 132 (dbSNP)): Added search specs for new subset tracks snp132Common, snp132Patient and snp132NonUnique.
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 25, context: html, text, full: html, text
• Track #1684 (SNPs 132 (dbSNP)): registered track handlers for new subset tracks snp132Common, snp132Patient, snp132NonUnique.
  • src/hg/hgTracks/simpleTracks.c - lines changed 3, context: html, text, full: html, text