Commits for angie

v267_base to v268_preview (2012-05-15 to 2012-05-22) v268

• Added a warning note (research use only) before the Go button inthe variant annotation integrator (#6152), per Jim's suggestion.
  
  • src/hg/hgVarAnnogrator/hgVarAnnogrator.c - lines changed 7, context: html, text, full: html, text
• Fixed most jslint warnings - thanks Kate! (#6152)
  • src/hg/js/hgVarAnnogrator.js - lines changed 91, context: html, text, full: html, text
• Moving hgVarAnnogrator's warning note to after the "Go" button per Jim's request. (#6152)
  • src/hg/hgVarAnnogrator/hgVarAnnogrator.c - lines changed 10, context: html, text, full: html, text
• Use safecpy when there are no format args for safef, to avoid stricter gcc compile warnings on Ubuntu.
  • src/hg/hgLogin/hgLogin.c - lines changed 3, context: html, text, full: html, text
• Track #7964 (1000 Genomes Phase 1 Variant Calls) - grabbed VCF fromNCBI using Aspera (ascp) -- 142GB!
  
  • src/hg/lib/bbiChroms.as - lines changed 6, context: html, text, full: html, text
  • src/hg/lib/bbiChroms.sql - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg19.txt - lines changed 38, context: html, text, full: html, text
• Track #34 (dbVar): data update from John Lopez at NCBI.
  • src/hg/makeDb/doc/hg19.txt - lines changed 31, context: html, text, full: html, text
• Track #34 (dbVar for human): added new dataset (nstd45, ISCA Curated).
  • src/hg/makeDb/doc/hg19.txt - lines changed 47, context: html, text, full: html, text
  • src/hg/utils/automation/gvfToBed8Attrs.pl - lines changed 39, context: html, text, full: html, text
• Prevent warning message about lack of special type support for views when type is gvf. (for #34)
  • src/hg/lib/trackDbCustom.c - lines changed 1, context: html, text, full: html, text
• Track #34: Updating hg18 too.
  • src/hg/makeDb/doc/hg18.txt - lines changed 79, context: html, text, full: html, text