markd: changes by commit

review to branch (2009-08-10 to 2009-08-18) v213

• added initial implementation of gff3ToGenePred converter
  • src/hg/utils/makefile 1.14 - lines changed: 5, context: html, text, full: html, text
  • src/inc/gff3.h 1.2 - lines changed: 53, context: html, text, full: html, text
  • src/lib/gff3.c 1.3 - lines changed: 33, context: html, text, full: html, text
• added make test, simplify rules
  • src/hg/utils/automation/makefile 1.14 - lines changed: 4, context: html, text, full: html, text
  • src/hg/utils/makefile 1.15 - lines changed: 56, context: html, text, full: html, text
• fix using variable string where a format should be, detected by gcc 4.3.3
  • src/lib/errCatch.c 1.3 - lines changed: 1, context: html, text, full: html, text
• fixed misuse of AllocVar macro detected by gcc 4.5
  • src/hg/hgc/rnaFoldClick.c 1.8 - lines changed: 1, context: html, text, full: html, text
  • src/hg/lib/altGraphX.c 1.37 - lines changed: 5, context: html, text, full: html, text
  • src/hg/lib/geneGraph.c 1.25 - lines changed: 3, context: html, text, full: html, text
  • src/hg/txGraph/txgAddEvidence/txgAddEvidence.c 1.14 - lines changed: 1, context: html, text, full: html, text
• don't allow chain item to g white with normalize score
  • src/hg/hgTracks/chainTrack.c 1.34 - lines changed: 4, context: html, text, full: html, text
• simplify computer chain normalized score gray scale suggest by jk
  • src/hg/hgTracks/chainTrack.c 1.35 - lines changed: 6, context: html, text, full: html, text
• always get modification time right
  • src/hg/js/cpJsFiles.pl 1.3 - lines changed: 15, context: html, text, full: html, text