Commits for kate

v298_preview2 to v298_base (2014-03-31 to 2014-04-07) v298

• Add SPP single-end peak-calling (first cut, prior to info from Anshul)
  • src/hg/encode3/eap/eapAddStep/eapAddStep.c - lines changed 7, context: html, text, full: html, text
• Adding initial cut of SPP ChIP-seq peak calling from bams (exploratory work ahead of spec from DAC)
  • src/hg/encode3/eap/eapAddStep/eapAddStep.c - lines changed 2, context: html, text, full: html, text
  • src/hg/encode3/eap/eapSchedule/eapSchedule.c - lines changed 77, context: html, text, full: html, text
• Adding initial cut of SPP ChIP-seq peak calling from bams (exploratory work ahead of spec from DAC)
  • src/hg/encode3/eap/lib/resetDb - lines changed 2, context: html, text, full: html, text
• Merge
  • src/hg/encode3/eap/eapAddStep/eapAddStep.c - lines changed 65, context: html, text, full: html, text
  • src/hg/encode3/eap/eapSchedule/eapSchedule.c - lines changed 4, context: html, text, full: html, text
  • src/hg/encode3/eap/lib/resetDb - lines changed 11, context: html, text, full: html, text
• Rscript is 3rdparty
  • src/hg/encode3/eap/lib/resetDb - lines changed 2, context: html, text, full: html, text
• Tweaks for ChIP scheduling
  • src/hg/encode3/eap/eapSchedule/eapSchedule.c - lines changed 4, context: html, text, full: html, text
• Merge branch 'master' into eap
• Remove obsolete tool
  • src/hg/encode3/eap/makefile - lines changed 1, context: html, text, full: html, text
• Merge branch 'master' into eap
• Move eapRunAddJson to oneShot dir
  • src/hg/encode3/eap/eapRunAddJson/eapRunAddJson.c - lines changed 366, context: html, text, full: html, text
  • src/hg/encode3/eap/eapRunAddJson/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/encode3/eap/oneShot/eapRunAddJson/eapRunAddJson.c - lines changed 366, context: html, text, full: html, text
  • src/hg/encode3/eap/oneShot/eapRunAddJson/makefile - lines changed 4, context: html, text, full: html, text