baertsch: changes by commit

branch to review (2009-08-18 to 2009-08-25) v213

• fix bug with non pass thru mode. alignments are now removed if there are multiple hits that are less than minDiff cutoff. removed commented code and tweaked logging messages.
  • src/hg/pslCDnaGenomeMatch/pslCDnaGenomeMatch.c 1.23 - lines changed: 46, context: html, text, full: html, text
• fix counter
  • src/hg/pslCDnaGenomeMatch/pslCDnaGenomeMatch.c 1.24 - lines changed: 3, context: html, text, full: html, text
• bug in filtering alignments
  • src/hg/pslCDnaGenomeMatch/pslCDnaGenomeMatch.c 1.25 - lines changed: 1, context: html, text, full: html, text
• remove commented code
  • src/hg/pslCDnaGenomeMatch/pslCDnaGenomeMatch.c 1.26 - lines changed: 1, context: html, text, full: html, text