hartera: changes by commit

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

• Added vegaPep table to vegaGeneComposite track entry.
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra 1.56 - lines changed: 1, context: html, text, full: html, text
• Added a vegaPep table for the Vega Genes update.
  • src/hg/makeDb/doc/hg18.txt 1.379 - lines changed: 20, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm9.txt 1.108 - lines changed: 23, context: html, text, full: html, text
• Documented reloading tables after reversion to older data during mySQL upgrade.
  • src/hg/makeDb/doc/hg18.txt 1.380 - lines changed: 16, context: html, text, full: html, text
• Documented creation of vega35 directory. Documented reloading tables after some of them reverted to older versions during mySQL upgrade.
  • src/hg/makeDb/doc/mm9.txt 1.109 - lines changed: 19, context: html, text, full: html, text
• Changed code for Ensembl and Vega message given on details page if there is no protein prediction available.
  • src/hg/hgc/hgc.c 1.1570 - lines changed: 7, context: html, text, full: html, text
• Changed colour for vega genes to distinguish them more clearly from the pseudogenes subtrack.
  • src/hg/makeDb/trackDb/human/hg18/trackDb.ra 1.416 - lines changed: 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra 1.57 - lines changed: 1, context: html, text, full: html, text
• Documented code changes and reloaded vegaPep table with only those proteins whose transcripts are in vegaGtp.
  • src/hg/makeDb/doc/hg18.txt 1.381 - lines changed: 47, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm9.txt 1.110 - lines changed: 46, context: html, text, full: html, text