Commits for chinhli

v253_preview2 to v253_base (2011-06-21 to 2011-06-28) v253

• Shorten shortlabel for numtSeq tracks, change track name from NumtSeq to numtSeq, rephrase the note in README
  • src/hg/makeDb/trackDb/README - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 9, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra - lines changed 7, context: html, text, full: html, text
• Use 'NumtS Sequence' as label for the composite track numtSeq
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra - lines changed 1, context: html, text, full: html, text
• Fixed Bug #1232 Unaligned mRNA Search Results problem.
  • src/hg/hgc/hgc.c - lines changed 3, context: html, text, full: html, text
• Change NumtS SNP track default
  • src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra - lines changed 3, context: html, text, full: html, text
• Track #4036 remove score field from item detail page
  • src/hg/hgc/hgc.c - lines changed 10, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra - lines changed 3, context: html, text, full: html, text
• redmine track #4036: Consolidate numtSeq item display logic for hg18, hg19 amd mm9.
  • src/hg/hgc/hgc.c - lines changed 79, context: html, text, full: html, text
• redmine track #4036 Put back score field of item detail page.
  • src/hg/hgc/hgc.c - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra - lines changed 3, context: html, text, full: html, text
• redmine #4036: per data provider's request, skip printing sequence quality score in the bam file
  • src/hg/hgc/bamClick.c - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text
• redmine #4036: per data provider's request, skip printing alignment quality for NumtS item bam detail page
  • src/hg/hgc/bamClick.c - lines changed 1, context: html, text, full: html, text
• redmine #4036: No need to have Verification section in mm9's Numt Sequence track detail html description
  • src/hg/makeDb/trackDb/mouse/mm9/numtSeqMm9.html - lines changed 5, context: html, text, full: html, text