angie: changes by commit

branch to review (2010-02-16 to 2010-02-23) v226

• Make the link to hgTrackUi for all custom tracks (except those that exit hgCustom() early).
  • src/hg/hgc/bamClick.c 1.17 - lines changed: 1, context: html, text, full: html, text
  • src/hg/hgc/hgc.c 1.1596 - lines changed: 2, context: html, text, full: html, text
  • src/hg/hgc/hgc.h 1.50 - lines changed: 3, context: html, text, full: html, text
• Removed to avoid clash with jaxQtl.sql (QA's preferred name). hgc still uses jaxQTL.[ch].
  • src/hg/lib/jaxQTL.sql 1.4 - lines changed: 20, context: html, text, full: html, text
• Corrected setting for jaxQtlMapped (mm8 table name changed a long time ago).
  • src/hg/makeDb/trackDb/human/trackDb.ra 1.519 - lines changed: 1, context: html, text, full: html, text
• Removed vestigial searchSpec.
  • src/hg/makeDb/trackDb/mouse/trackDb.ra 1.209 - lines changed: 6, context: html, text, full: html, text
• Removing since we no longer have any hgwdev databases with jaxQTL tables (just jaxQtl now), and MarkD found CVS error on Mac's default-case-insensitive filesystem.
  • src/hg/makeDb/trackDb/mouse/jaxQTL.html 1.6 - lines changed: 15, context: html, text, full: html, text
• Removing stray character that made make barf.
  • src/hg/makeDb/makefile 1.44 - lines changed: 1, context: html, text, full: html, text
• Added missing </A> tags, found by hgTablesTest on the description page.
  • src/hg/makeDb/trackDb/human/hg18/pgSnp.html 1.13 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/pgSnp.html 1.2 - lines changed: 6, context: html, text, full: html, text
• Added printCustomUrl -- user noticed its absence.
  • src/hg/hgc/bigBedClick.c 1.8 - lines changed: 2, context: html, text, full: html, text
• Added new required setting assemblyShortLabel, an abbreviated form of the sequencing center's ID for the assembly (which is often more familiar to users), e.g. NCBI36 for hg18.
  • src/hg/utils/automation/makeGenomeDb.pl 1.28 - lines changed: 23, context: html, text, full: html, text
• Instead of dumping out the full BED+ record when there are more than 6 BED fields (we don't subject our users to that on plain BED track details pages), display non-BED fields if there are any.
  • src/hg/hgc/bigBedClick.c 1.9 - lines changed: 26, context: html, text, full: html, text