Commits for braney

v294_base to v295_preview (2014-01-13 to 2014-01-20) v295

• changed BIGNUM to be even bigger because it was casuing a bug inbrowsers with chroms bigger than 0x3ffffff
  
  • src/inc/common.h - lines changed 1, context: html, text, full: html, text
• draw the pale yellow for N's in snakes
  • src/hg/hgTracks/snakeTrack.c - lines changed 4, context: html, text, full: html, text
• BIGNUM back to 0x3fffffff per Jim
  • src/inc/common.h - lines changed 1, context: html, text, full: html, text
• color mismatches with N's a pale yellow if the N is in the query, or notat all if there is an N in the reference
  
  • src/hg/hgTracks/snakeTrack.c - lines changed 3, context: html, text, full: html, text
• fill in a db description for assembly hubs even if it's not set in thegenomes.txt file
  
  • src/hg/lib/trackHub.c - lines changed 3, context: html, text, full: html, text
• fix up gff3ToPsl to grok NCBI's mappings from the haplotypes to thereference chroms
  
  • src/hg/utils/gff3ToPsl/gff3ToPsl.c - lines changed 9, context: html, text, full: html, text
  • src/lib/psl.c - lines changed 11, context: html, text, full: html, text
• make gff3ToPsl pass its tests.
  • src/hg/utils/gff3ToPsl/gff3ToPsl.c - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/expected/patch1test.psl - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/input/chrom.sizes - lines changed 26, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/input/locusNameAndSize.txt - lines changed 24, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/input/locusToChrom.sed - lines changed 24, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/makefile - lines changed 2, context: html, text, full: html, text