hiram: changes by commit

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

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