angie: changes by commit

branch to review (2009-10-13 to 2009-10-20) v218

• Fixing another broken link.
  • src/hg/makeDb/trackDb/human/hg18/pgSnp.html 1.10 - lines changed: 1, context: html, text, full: html, text
• Added enhanced coloring options (user-requested) to hgTrackUi and implemented 3 out of 5 in hgTracks.
  • src/hg/hgTrackUi/hgTrackUi.c 1.504 - lines changed: 60, context: html, text, full: html, text
  • src/hg/hgTracks/bamTrack.c 1.11 - lines changed: 177, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h 1.187 - lines changed: 11, context: html, text, full: html, text
  • src/hg/inc/hui.h 1.140 - lines changed: 23, context: html, text, full: html, text
• Implemented grayscale for base qualities and coloring by user-specified tag.
  • src/hg/hgTrackUi/hgTrackUi.c 1.505 - lines changed: 2, context: html, text, full: html, text
  • src/hg/hgTracks/bamTrack.c 1.12 - lines changed: 136, context: html, text, full: html, text
  • src/hg/inc/bamFile.h 1.12 - lines changed: 5, context: html, text, full: html, text
  • src/hg/lib/bamFile.c 1.11 - lines changed: 50, context: html, text, full: html, text
• Fixed syntax error in case of multiple previous logfiles.
  • src/hg/utils/refreshNamedSessionCustomTracks/refreshSessionCtFilesInner.csh 1.3 - lines changed: 2, context: html, text, full: html, text
• Updated link to Dan Pollard's matrices and email (thx Brooke).
  • src/hg/makeDb/trackDb/drosophila/dm1/flyreg.html 1.7 - lines changed: 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/drosophila/dm2/flyreg2.html 1.2 - lines changed: 4, context: html, text, full: html, text