Commits for cline

v259_base to v260_preview (2011-11-07 to 2011-11-15) v260

• Fixing some bugs that turned up in joinerCheck, where knownTo* tables were built against the wrong version of UCSC Genes. This came from something in the buildscript using the hg19 version of UCSC Genes rather than the new version being built in the temporary database
  • src/hg/makeDb/doc/ucscGenes/hg19.ucscGenes13.csh - lines changed 5, context: html, text, full: html, text
• Added a command to drop the chromInfo table from the temporary database before all the tables are copied from the temporary database to hg19.
  • src/hg/makeDb/doc/ucscGenes/hg19.ucscGenes13.csh - lines changed 2, context: html, text, full: html, text
• Addressing feedback from Lauren: Redmine #20, Question #6
  • src/hg/makeDb/trackDb/human/hg19/knownGene.html - lines changed 1, context: html, text, full: html, text
• Responding to excellent code review feedback from Dr. Raney, Code Review # 5910
  • src/hg/makeDb/doc/ucscGenes/hg19.ucscGenes13.csh - lines changed 1, context: html, text, full: html, text
• Removing hg19 dependencies involving a couple tables that are exclusive to the proteome browser, given that those tables are presenting joinerCheck problems and we're not supporting the proteome browser anymore
  • src/hg/makeDb/schema/all.joiner - lines changed 2, context: html, text, full: html, text
• added a track description page for the old known genes track, and included a breakdown of the correspondence between the old and new builds
  • src/hg/makeDb/trackDb/human/hg19/knownGeneOld5.html - lines changed 25, context: html, text, full: html, text
• Cleaning up based on feedback from Brooke
  • src/hg/makeDb/trackDb/human/hg19/knownGeneOld5.html - lines changed 4, context: html, text, full: html, text