Commits for kent

v248_base to v249_preview (2011-03-08 to 2011-03-15) v249

• Adding hgBotDelay call to hgGene to avoid bot damage like we got yesterday.
  • src/hg/hgGene/hgGene.c - lines changed 2, context: html, text, full: html, text
• Work on wgEncodeReg track.
  • src/hg/makeDb/doc/hg19.txt - lines changed 119, context: html, text, full: html, text
  • src/hg/regulate/regClusterAttachMetadataToTableOfTables/makefile - lines changed 18, context: html, text, full: html, text
  • src/hg/regulate/regClusterAttachMetadataToTableOfTables/regClusterAttachMetadataToTableOfTables.c - lines changed 177, context: html, text, full: html, text
  • src/hg/regulate/regClusterMakeTableOfTables/regClusterMakeTableOfTables.c - lines changed 147, context: html, text, full: html, text
• Some last bits of mouse UCSC genes redo I hope.
  • src/hg/makeDb/doc/ucscGenes/mm9.ucscGenes12.csh - lines changed 63, context: html, text, full: html, text
• Doubling max queue size since we seem to actually sometimes be hitting limit and memory has more than doubled since this was set.
  • src/parasol/para/para.c - lines changed 2, context: html, text, full: html, text
• More work on new TFBS clustering stuff.
  • src/hg/lib/clusterInputTrackTable2.as - lines changed 8, context: html, text, full: html, text
  • src/hg/lib/clusterInputTrackTable2.sql - lines changed 17, context: html, text, full: html, text
  • src/hg/regulate/regClusterBedExpCfg/cellLetter2.tab - lines changed 95, context: html, text, full: html, text
• Updating protein column description in knownCanonical to reflect UCSC IDs instead of SwissProt.
  • src/hg/lib/knownCanonical.as - lines changed 1, context: html, text, full: html, text
• Adding some comments.
  • src/hg/regulate/regClusterAttachMetadataToTableOfTables/regClusterAttachMetadataToTableOfTables.c - lines changed 5, context: html, text, full: html, text
• Further work on wgEncodeReg.
  • src/hg/makeDb/doc/hg19.txt - lines changed 79, context: html, text, full: html, text
• First cut of cell clusterer. Runs and produces output, but output isn't making a bunch of sense. Need to develop some test cases.
  • src/hg/regulate/regClusterTreeCells/makefile - lines changed 18, context: html, text, full: html, text
  • src/hg/regulate/regClusterTreeCells/regClusterTreeCells.c - lines changed 349, context: html, text, full: html, text