Commits for braney

origin/v233_branch to v234_preview (2010-06-07 to 2010-06-15) v234

• fix contact email address
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeGisPet.html - lines changed 1, context: html, text, full: html, text
• skip browser and track lines at the beginning of a bedGraph. Add better error message
  • src/utils/bedGraphToBigWig/bedGraphToBigWig.c - lines changed 11, context: html, text, full: html, text
• skip browser and track lines at the begining of bedGraphs and wigs when creating bigWigs (added function in linefile to do this)
  • src/lib/bbiWrite.c - lines changed 3, context: html, text, full: html, text
  • src/lib/bwgCreate.c - lines changed 11, context: html, text, full: html, text
  • src/lib/linefile.c - lines changed 17, context: html, text, full: html, text
• add a function to remove initial browser and track lines
  • src/inc/linefile.h - lines changed 4, context: html, text, full: html, text
• fix labels
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeBuOrchid.ra - lines changed 1, context: html, text, full: html, text
• take out wgEncodeBuOrchid
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra - lines changed 55, context: html, text, full: html, text
• split out into its own include file
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeBuOrchid.ra - lines changed 55, context: html, text, full: html, text
• change validationSettings
  • src/hg/encode/DAFs/2.0/haibMethylRrbs.daf - lines changed 2, context: html, text, full: html, text
• add treatment and growthProtocol
  • src/hg/encode/DAFs/2.0/haibMethylRrbs.daf - lines changed 2, context: html, text, full: html, text
• some little fixups
  • src/hg/encode/validateFiles/validateFiles.c - lines changed 31, context: html, text, full: html, text
• fixed problems with different files. Turns out that both of the release2 files were truncated. Hmm... disk exhaustion?
  • src/hg/makeDb/doc/encodeDccHg18/wgEncodeCaltechRnaSeq.release2.notes.txt - lines changed 4, context: html, text, full: html, text
• update for hg19
  • src/hg/encode/DAFs/2.0/caltechRnaSeq.daf - lines changed 59, context: html, text, full: html, text
• change default view to include all of the K562 and GM12878 tracks
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeCaltechRnaSeq.new.ra - lines changed 143, context: html, text, full: html, text
• add some text about the Plus and Minus Raw Signal views
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeCaltechRnaSeq.html - lines changed 9, context: html, text, full: html, text