hiram: changes by file

branch to review (2009-02-09 to 2009-02-17) v200

• src/hg/hgTracks/hgTracks.c
  • 1.1554 lines changed: 3, context: html, text, full: html, text
    Straighten out business with fr2ScaffoldEnsemblLink()
• src/hg/makeDb/doc/rn4.txt
  • 1.32 lines changed: 9, context: html, text, full: html, text
    Ran liftOver to rn5 back in December
• src/hg/makeDb/doc/sacCer1.txt
  • 1.7 lines changed: 27, context: html, text, full: html, text
    Ran the liftOver to sacCer2
• src/hg/makeDb/doc/sacCer2.txt
  • 1.4 lines changed: 289, context: html, text, full: html, text
    Finished 7-way conservation business
  • 1.3 lines changed: 165, context: html, text, full: html, text
    Human proteins done by Brian, and multiple alignment in progress, genbank done
  • 1.1 lines changed: 312, context: html, text, full: html, text
    Initial work has genome up and running, sgdGene tracks functioning, running genbank
• src/hg/makeDb/genbank/etc/genbank.conf
  • 1.328 lines changed: 16, context: html, text, full: html, text
    Added sacCer2.
• src/hg/makeDb/outside/yeast/hgSgdGff3/sgdGffToGtf.pl
  • 1.4 lines changed: 1, context: html, text, full: html, text
    If we translate the type five_prime_UTR_intron to 5utr and use the -gtf option to ldHgGene then it seems to work OK.
• src/hg/makeDb/trackDb/sacCer/sacCer2/trackDb.ra
  • 1.3 lines changed: 2, context: html, text, full: html, text
    gap off, and most conserved on pack
  • 1.2 lines changed: 43, context: html, text, full: html, text
    Adding 7-way multiple conservation track