kent: changes by commit

review to branch (2009-09-09 to 2009-09-15) v215

• Removing nonfunctional clip option.
  • src/utils/bedGraphToBigWig/bedGraphToBigWig.c 1.15 - lines changed: 6, context: html, text, full: html, text
  • src/utils/bedToBigBed/bedToBigBed.c 1.9 - lines changed: 5, context: html, text, full: html, text
• Checking end coordinate for off-chromosome.
  • src/lib/apacheLog.c 1.5 - lines changed: 29, context: html, text, full: html, text
  • src/lib/bbiWrite.c 1.6 - lines changed: 2, context: html, text, full: html, text
• The bedClip utility seems to work.
  • src/utils/bedClip/bedClip.c 1.1 - lines changed: 85, context: html, text, full: html, text
  • src/utils/bedClip/makefile 1.1 - lines changed: 18, context: html, text, full: html, text
• Seems to work. You need to edit source code to change filter parameters though.
  • src/hg/logCrawl/accessLogFilter/accessLogFilter.c 1.1 - lines changed: 74, context: html, text, full: html, text
  • src/hg/logCrawl/accessLogFilter/makefile 1.1 - lines changed: 18, context: html, text, full: html, text
• Seeing if preinitializing things to zero gets rid of an off-by-one problem.
  • src/hg/oneShot/freen/freen.c 1.89 - lines changed: 1, context: html, text, full: html, text
• Adding functions involving timestamps to apacheLog.
  • src/inc/apacheLog.h 1.4 - lines changed: 7, context: html, text, full: html, text
  • src/inc/common.mk 1.69 - lines changed: 1, context: html, text, full: html, text
• Backing out a change I didn't mean to commit.
  • src/inc/common.mk 1.70 - lines changed: 1, context: html, text, full: html, text