Commits for chinhli

v280_base to v281_preview (2013-03-05 to 2013-03-12) v281

• Finished doRepeatMasker
  • src/hg/makeDb/doc/panPan1.txt - lines changed 46, context: html, text, full: html, text
• Should use .allGenes.gp.gz instead of .all.genes.gp.gz.
  • src/hg/utils/automation/doEnsGeneUpdate.pl - lines changed 1, context: html, text, full: html, text
• Ignore all numt* tables for all assemblies.
  • src/hg/makeDb/schema/all.joiner - lines changed 10, context: html, text, full: html, text
• redmine Bug #10358 rebuild rn4.knownToEnsembl using rgdGene2 instead of knownGene.
  • src/hg/makeDb/doc/makeEnsembl.txt - lines changed 3, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/rn4.ensGene.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/rn5.ensGene.ra - lines changed 3, context: html, text, full: html, text
• Change the short lable 'NumtS on mitochondrion' to 'NumtS on chrM'.
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 1, context: html, text, full: html, text
• adding panPan1 bonobo
  • src/hg/makeDb/genbank/etc/genbank.conf - lines changed 15, context: html, text, full: html, text
• adding definition for panPanNames Pan paniscus
  • src/hg/makeDb/genbank/src/lib/gbGenome.c - lines changed 2, context: html, text, full: html, text
• adding definition for panPanNames Pan paniscus
  • src/hg/makeDb/genbank/src/lib/gbGenome.c - lines changed 1, context: html, text, full: html, text
• v281 preview1
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text