holmes: changes by commit

branch to review (2009-09-02 to 2009-09-09) v214

• Adding coverage and percent positive
  • src/hg/inc/cddInfo.h 1.1 - lines changed: 71, context: html, text, full: html, text
  • src/hg/lib/cddInfo.c 1.1 - lines changed: 177, context: html, text, full: html, text
  • src/hg/lib/cddInfo.sql 1.1 - lines changed: 21, context: html, text, full: html, text
• Adding filtering
  • src/hg/archaeStuff/scripts/archaeBrowser/ConservedDomains.pm 1.4 - lines changed: 410, context: html, text, full: html, text
• adding seed tracks
  • src/hg/archaeStuff/scripts/archaeBrowser/SEED.pm 1.1 - lines changed: 98, context: html, text, full: html, text
• Adding cmr track
  • src/hg/archaeStuff/scripts/archaeBrowser/tigr.pm 1.1 - lines changed: 261, context: html, text, full: html, text
• GEO microarrays
  • src/hg/archaeStuff/scripts/archaeBrowser/GEOmicroarrays.pm 1.1 - lines changed: 1178, context: html, text, full: html, text
• Fixed file opening failure
  • src/hg/archaeStuff/scripts/archaeBrowser/AlignmentCompare.pm 1.3 - lines changed: 48, context: html, text, full: html, text
• Altered for new conservation files
  • src/hg/archaeStuff/scripts/archaeBrowser/AlignmentCompare.pm 1.4 - lines changed: 32, context: html, text, full: html, text
• Predicted genes
  • src/hg/hgc/lowelab.c 1.33 - lines changed: 171, context: html, text, full: html, text
• Adding alignment and domain tracks
  • src/hg/lib/makefile 1.394 - lines changed: 2, context: html, text, full: html, text
• adding cdd autosql
  • src/hg/lib/cddInfo.as 1.1 - lines changed: 15, context: html, text, full: html, text
• adding aligned features autosql
  • src/hg/lib/alignInfo.as 1.1 - lines changed: 15, context: html, text, full: html, text
• Adding alignment info
  • src/hg/inc/alignInfo.h 1.1 - lines changed: 71, context: html, text, full: html, text
  • src/hg/lib/alignInfo.c 1.1 - lines changed: 177, context: html, text, full: html, text
• removing allpredictions.h
  • src/hg/hgc/lowelab.c 1.34 - lines changed: 55, context: html, text, full: html, text
• adding colors and combining operons
  • src/hg/makeDb/trackDb/lowelab/trackDb.ra 1.81 - lines changed: 123, context: html, text, full: html, text
• adding aligned features color
  • src/hg/makeDb/trackDb/lowelab/trackDb.ra 1.82 - lines changed: 5, context: html, text, full: html, text
• changing prediction color
  • src/hg/makeDb/trackDb/lowelab/trackDb.ra 1.83 - lines changed: 1, context: html, text, full: html, text