Commits for hiram

v245_preview2 to v245_base (2010-12-21 to 2011-01-04) v245

• adding danRer7
  • src/hg/makeDb/schema/all.joiner - lines changed 2, context: html, text, full: html, text
• liftOver from danRer6 to danRer7 and fr2 lastz to danRer7 and preparing for 8-way alignment
  • src/hg/makeDb/doc/danRer6.txt - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/doc/danRer7.txt - lines changed 255, context: html, text, full: html, text
• setting data for fr2 danRer7 chain net
  • src/hg/makeDb/trackDb/fugu/trackDb.chainNet.ra - lines changed 5, context: html, text, full: html, text
• adding 8-way alignment phylo tree for danRer7
  • src/hg/htdocs/images/phylo/danRer7_8way.png - lines changed 0, context: html, text, full: html, text
• running autoMultiz for 8-way
  • src/hg/makeDb/doc/danRer7.txt - lines changed 83, context: html, text, full: html, text
• 8-way done and annotated with Irows
  • src/hg/makeDb/doc/danRer7.txt - lines changed 73, context: html, text, full: html, text
• adding 8-way multiz business
  • src/hg/makeDb/trackDb/zebrafish/danRer7/trackDb.ra - lines changed 35, context: html, text, full: html, text
• enable automatic generation of upstream files for danRer7
  • src/hg/makeDb/genbank/etc/genbank.conf - lines changed 2, context: html, text, full: html, text
• adding denisova track for chimp
  • src/hg/makeDb/trackDb/chimp/trackDb.denisova.ra - lines changed 21, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/chimp/trackDb.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/bamSLDenisova.html - lines changed 2, context: html, text, full: html, text
• adding denisova track for chimp
  • src/hg/makeDb/doc/panTro2.txt - lines changed 5, context: html, text, full: html, text
• completed 8-way phastCons and phyloP
  • src/hg/makeDb/doc/danRer7.txt - lines changed 643, context: html, text, full: html, text
• strand mixup on multiple mappings
  • src/hg/lib/liftOver.c - lines changed 3, context: html, text, full: html, text
• have phastCons and phyloP 8way on danRer7 for vert and fish groups
  • src/hg/makeDb/doc/danRer7.txt - lines changed 297, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg19.txt - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/zebrafish/danRer7/trackDb.ra - lines changed 149, context: html, text, full: html, text
• otherOrg is actually thisOrg
  • src/hg/hgc/hgc.c - lines changed 2, context: html, text, full: html, text
• fixup up comments about tree diagrams
  • src/hg/makeDb/doc/danRer7.txt - lines changed 3, context: html, text, full: html, text
• initial contents pattern from hg19 46-way
  • src/hg/makeDb/trackDb/zebrafish/danRer7/cons8way.html - lines changed 414, context: html, text, full: html, text
• add byte order display
  • src/utils/sizeof/sizeof.c - lines changed 21, context: html, text, full: html, text
• much easier and actually accurate method for byteOrder
  • src/utils/sizeof/sizeof.c - lines changed 14, context: html, text, full: html, text
• adding compile target
  • src/utils/sizeof/makefile - lines changed 4, context: html, text, full: html, text
• pid can be an odd size, cast it to int for printing
  • src/lib/pipeline.c - lines changed 1, context: html, text, full: html, text
• the wikiTrack should be off by default
  • src/product/ex.hg.conf - lines changed 9, context: html, text, full: html, text