Commits for hiram

v237_base to v238_preview (2010-08-03 to 2010-08-10) v238

• updated with v59 definitions
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 168, context: html, text, full: html, text
• removed older trashCleaning.sh script
  • src/product/scripts/trashCleaning.sh - lines changed 124, context: html, text, full: html, text
• remove the safety exit 0, this is now live
  • src/product/scripts/trashCleanMonitor.csh - lines changed 2, context: html, text, full: html, text
• finalized versions ready to go
  • src/product/scripts/trashCleanMonitor.csh - lines changed 35, context: html, text, full: html, text
  • src/product/scripts/trashCleaner.csh - lines changed 49, context: html, text, full: html, text
• omit reference to my location
  • src/product/scripts/trashCleanMonitor.csh - lines changed 1, context: html, text, full: html, text
• trash cleaner now in two parts to verify OK
  • src/product/scripts/trashCleanMonitor.csh - lines changed 50, context: html, text, full: html, text
  • src/product/scripts/trashCleaner.csh - lines changed 27, context: html, text, full: html, text
• add db setting to table browser custom tracks
  • src/hg/lib/customFactory.c - lines changed 2, context: html, text, full: html, text
• was missing wibFile setting on track line for cts from table browser
  • src/hg/lib/customTrack.c - lines changed 1, context: html, text, full: html, text
• initial contents of single trash cleaner all in one
  • src/product/scripts/trashCleaner.csh - lines changed 225, context: html, text, full: html, text
• adding the two chrM sequences to haplotype track
  • src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 8, context: html, text, full: html, text
• should be oviAri not oviAra on newAssembliesList
  • src/hg/utils/phyloTrees/chainNet.pl - lines changed 1, context: html, text, full: html, text
• checking incoming bed files for legal coordinates
  • src/hg/lib/customFactory.c - lines changed 4, context: html, text, full: html, text
• using an overlap of 500 bases during the 5K split
  • src/hg/utils/automation/doSameSpeciesLiftOver.pl - lines changed 2, context: html, text, full: html, text
• adding haplotype position tracks to hg19 and hg18 and lift over chain experiments
  • src/hg/makeDb/trackDb/human/hg18/haplotypeLocations.html - lines changed 9, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.ra - lines changed 23, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 2, context: html, text, full: html, text
• use proper dateTime result string
  • src/hg/useCount/useCount.c - lines changed 3, context: html, text, full: html, text
• adding difference tracks hg18 to hg19 to hg18
  • src/hg/makeDb/trackDb/human/hg18/hg19ContigDiff.html - lines changed 31, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/hg18ContigDiff.html - lines changed 31, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 7, context: html, text, full: html, text