hiram: changes by file

branch to review (2010-01-19 to 2010-01-26) v224

• src/hg/makeDb/doc/ailMel1.txt
  • 1.3 lines changed: 54, context: html, text, full: html, text
    genbank done for ailMel1
• src/hg/makeDb/doc/bosTau4.txt
  • 1.22 lines changed: 61, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/doc/canFam2.txt
  • 1.26 lines changed: 63, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/doc/hg19.txt
  • 1.74 lines changed: 104, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/doc/mm9.txt
  • 1.121 lines changed: 177, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/doc/monDom5.txt
  • 1.17 lines changed: 94, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/doc/oryCun1.txt
  • 1.10 lines changed: 33, context: html, text, full: html, text
    liftOver done to oryCun2
• src/hg/makeDb/doc/oryCun2.txt
  • 1.5 lines changed: 100, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/doc/rn4.txt
  • 1.36 lines changed: 112, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/doc/susScr1.txt
  • 1.4 lines changed: 48, context: html, text, full: html, text
    panda aligned to dog,rat,mouse,human,opossum pig aligned to mouse,human,opossum,cow bosTau4 to rn4, rabbit to rat,mouse,opossum,guineaPig
• src/hg/makeDb/genbank/etc/align.dbs
  • 1.108 lines changed: 1, context: html, text, full: html, text
    Adding ailMel1 - Panda - Ailuropoda melanoleuca
• src/hg/makeDb/genbank/etc/genbank.conf
  • 1.359 lines changed: 1, context: html, text, full: html, text
    no lift file is required for panda
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • 1.112 lines changed: 1, context: html, text, full: html, text
    Adding ailMel1 - Panda - Ailuropoda melanoleuca
• src/hg/makeDb/schema/all.joiner
  • 1.767 lines changed: 16, context: html, text, full: html, text
    adding definitions for oryCun2
• src/hg/makeDb/trackDb/trackDb.chainNet.ra
  • 1.41 lines changed: 98, context: html, text, full: html, text
    adding Panda and Pig chainNet composite tracks
• src/hg/makeDb/trackDb/dog/trackDb.chainNet.ra
  • 1.13 lines changed: 3, context: html, text, full: html, text
    adding Panda and Pig chainNet composite tracks
• src/hg/makeDb/trackDb/guineaPig/trackDb.chainNet.ra
  • 1.6 lines changed: 3, context: html, text, full: html, text
    adding Panda and Pig chainNet composite tracks
• src/hg/makeDb/trackDb/mouse/trackDb.chainNet.ra
  • 1.27 lines changed: 6, context: html, text, full: html, text
    adding Panda and Pig chainNet composite tracks
• src/hg/makeDb/trackDb/opossum/trackDb.chainNet.ra
  • 1.16 lines changed: 5, context: html, text, full: html, text
    adding Panda and Pig chainNet composite tracks
• src/hg/makeDb/trackDb/panda/trackDb.chainNet.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    adding priorities for dog, rat, mouse, human chain nets
• src/hg/makeDb/trackDb/panda/trackDb.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    adding priorities for dog, rat, mouse, human chain nets
• src/hg/makeDb/trackDb/panda/ailMel1/description.html
  • 1.3 lines changed: 1, context: html, text, full: html, text
    some border space around the photo
  • 1.2 lines changed: 24, context: html, text, full: html, text
    updated description with appropriate links
• src/hg/makeDb/trackDb/pig/trackDb.chainNet.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    adding chain net priorities for mouse human and opossum
• src/hg/makeDb/trackDb/pig/trackDb.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    adding chain net priorities for mouse human and opossum
• src/hg/makeDb/trackDb/pig/susScr1/description.html
  • 1.3 lines changed: 1, context: html, text, full: html, text
    some border space around the photo
  • 1.2 lines changed: 23, context: html, text, full: html, text
    updated description with appropriate links
• src/hg/makeDb/trackDb/rabbit/oryCun2/description.html
  • 1.3 lines changed: 22, context: html, text, full: html, text
    fixup sample searches and finalize assembly description
  • 1.2 lines changed: 17, context: html, text, full: html, text
    fixing up Broad links
• src/hg/makeDb/trackDb/rabbit/oryCun2/trackDb.ra
  • 1.2 lines changed: 10, context: html, text, full: html, text
    adjusting some track default visibilities
• src/hg/makeDb/trackDb/rat/trackDb.chainNet.ra
  • 1.16 lines changed: 8, context: html, text, full: html, text
    adding Panda and Pig chainNet composite tracks
• src/hg/utils/phyloTrees/48way.dissect.txt
  • 1.1 lines changed: 0, context: html, text, full: html, text
    update to a 48-way tree while maintaining same priorities for previous 46-way
• src/hg/utils/phyloTrees/48way.nh
  • 1.1 lines changed: 0, context: html, text, full: html, text
    update to a 48-way tree while maintaining same priorities for previous 46-way
• src/hg/utils/phyloTrees/chainNet.pl
  • 1.4 lines changed: 15, context: html, text, full: html, text
    update to a 48-way tree while maintaining same priorities for previous 46-way