rhead: changes by commit

review to branch (2010-01-26 to 2010-02-02) v224

• Removed individual chain and net settings for chicken, now that they have been moved into composite tracks.
  • src/hg/makeDb/trackDb/mouse/mm8/trackDb.ra 1.64 - lines changed: 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/xenTro/xenTro2/trackDb.ra 1.23 - lines changed: 18, context: html, text, full: html, text
• Replaced hard-coded galGal2 with o_db variable.
  • src/hg/makeDb/trackDb/xenTro/xenTro2/trackDb.chainNet.ra 1.3 - lines changed: 1, context: html, text, full: html, text
• Adding chain and net shortLabel overrides to match the chainNet shortLabel overrides.
  • src/hg/makeDb/trackDb/human/hg18/trackDb.chainNet.ra 1.11 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm8/trackDb.chainNet.ra 1.11 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/opossum/monDom4/trackDb.chainNet.ra 1.10 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/rat/trackDb.chainNet.ra 1.17 - lines changed: 6, context: html, text, full: html, text
• Removing override for chainNetMonDom4 shortLabel, as this is also done at the dog level.
  • src/hg/makeDb/trackDb/dog/canFam2/trackDb.chainNet.ra 1.4 - lines changed: 3, context: html, text, full: html, text
• Adding chain and net shortLabel overrides for opossum to match the chainNet overrides.
  • src/hg/makeDb/trackDb/chicken/galGal3/trackDb.chainNet.ra 1.3 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/chimp/trackDb.chainNet.ra 1.11 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/trackDb.chainNet.ra 1.14 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg17/trackDb.chainNet.ra 1.14 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.chainNet.ra 1.12 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.chainNet.ra 1.5 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/platypus/trackDb.chainNet.ra 1.11 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/xenTro/xenTro2/trackDb.chainNet.ra 1.4 - lines changed: 6, context: html, text, full: html, text
• Removed commented-out lines.
  • src/hg/makeDb/trackDb/trackDb.chainNet.ra 1.53 - lines changed: 2, context: html, text, full: html, text
• Adding chain and net shortLabel overrides for chimp that match the chainNet overrides.
  • src/hg/makeDb/trackDb/human/trackDb.chainNet.ra 1.31 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm7/trackDb.chainNet.ra 1.11 - lines changed: 6, context: html, text, full: html, text
• Removed lingering release beta on panTro2 chain and net.
  • src/hg/makeDb/trackDb/human/hg17/trackDb.ra 1.442 - lines changed: 24, context: html, text, full: html, text
• Added o_db shortLabels to panTro2 chainNet and chain and net.
  • src/hg/makeDb/trackDb/human/hg17/trackDb.chainNet.ra 1.15 - lines changed: 9, context: html, text, full: html, text
• Removed release alpha/beta from rheMac1 nets, chains, chainNets and adjusted priority to match rheMac2.
  • src/hg/makeDb/trackDb/human/trackDb.chainNet.ra 1.32 - lines changed: 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm7/trackDb.ra 1.61 - lines changed: 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/trackDb.ra 1.192 - lines changed: 26, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/trackDb.chainNet.ra 1.57 - lines changed: 3, context: html, text, full: html, text
• Added o_Organism shortLabel override to match the chainNet override.
  • src/hg/makeDb/trackDb/mouse/mm7/trackDb.chainNet.ra 1.12 - lines changed: 6, context: html, text, full: html, text
• Removing trackDb.ra refs to ponAbe2 nets and chains -- these are in composites now.
  • src/hg/makeDb/trackDb/chicken/trackDb.ra 1.19 - lines changed: 7, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/chimp/panTro2/trackDb.ra 1.51 - lines changed: 6, context: html, text, full: html, text
• Removed redundant shortLabel on chainNetEquCab1.
  • src/hg/makeDb/trackDb/mouse/trackDb.chainNet.ra 1.30 - lines changed: 1, context: html, text, full: html, text
• Removed trackDb.ra refs to equCab1 net and chain -- these are in composites now.
  • src/hg/makeDb/trackDb/dog/canFam2/trackDb.ra 1.48 - lines changed: 10, context: html, text, full: html, text
• Changed horse chain and net shortLabels to match chainNet shortLabels.
  • src/hg/makeDb/trackDb/chicken/galGal3/trackDb.chainNet.ra 1.4 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam2/trackDb.chainNet.ra 1.5 - lines changed: 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.chainNet.ra 1.14 - lines changed: 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.chainNet.ra 1.6 - lines changed: 7, context: html, text, full: html, text
• Fixed broken links to wustl.
  • src/hg/makeDb/trackDb/worm/ce4/description.html 1.9 - lines changed: 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/ce4/gap.html 1.6 - lines changed: 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/ce4/gold.html 1.7 - lines changed: 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/ce5/description.html 1.4 - lines changed: 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/ce5/gap.html 1.4 - lines changed: 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/ce5/gold.html 1.4 - lines changed: 1, context: html, text, full: html, text
• Changed bosTau2 chain and net shortLabels to match chainNet shortLabels.
  • src/hg/makeDb/trackDb/human/hg17/trackDb.chainNet.ra 1.17 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm7/trackDb.chainNet.ra 1.13 - lines changed: 6, context: html, text, full: html, text
• Changed bosTau3 chain and net shortLabels to match chainNet shortLabels.
  • src/hg/makeDb/trackDb/human/trackDb.chainNet.ra 1.33 - lines changed: 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.chainNet.ra 1.7 - lines changed: 6, context: html, text, full: html, text