Commits for hiram

v256_base to v257_preview (2011-08-29 to 2011-09-06) v257

• Added sacCer3 - S. cerevisiae
  • src/hg/makeDb/genbank/etc/align.dbs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/etc/hgwdev.dbs - lines changed 1, context: html, text, full: html, text
• genbank run done, well into the sgdGene construction
  • src/hg/makeDb/doc/sacCer3.txt - lines changed 140, context: html, text, full: html, text
• adding comments from Thorgeir
  • src/hg/makeDb/trackDb/human/decodeRmap.html - lines changed 14, context: html, text, full: html, text
• adding sacCer3
  • src/hg/makeDb/schema/all.joiner - lines changed 10, context: html, text, full: html, text
• adding HapMap recomb rate data to decode tracks
  • src/hg/makeDb/trackDb/human/decode.rmap.ra - lines changed 39, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/decodeRmap.html - lines changed 5, context: html, text, full: html, text
• adding HapMap recombination maps to deCODE track
  • src/hg/makeDb/doc/hg18.txt - lines changed 68, context: html, text, full: html, text
• very initial experiment for progress meter, long way to go
  • src/hg/hgCustom/hgCustom.c - lines changed 30, context: html, text, full: html, text
• turning on sgdGene details page for sacCer3
  • src/hg/hgGene/hgGeneData/S_cerevisiae/sacCer3/otherOrgs.ra - lines changed 17, context: html, text, full: html, text
• adding clone location track
  • src/hg/makeDb/doc/sacCer3.txt - lines changed 18, context: html, text, full: html, text
• adding simpleRepeats
  • src/hg/makeDb/doc/sacCer3.txt - lines changed 11, context: html, text, full: html, text
• liftOver to sacCer3 completed
  • src/hg/makeDb/doc/sacCer2.txt - lines changed 13, context: html, text, full: html, text
• liftOver to sacCer3 completed
  • src/hg/makeDb/doc/sacCer1.txt - lines changed 12, context: html, text, full: html, text
• adding Regulatory Code, Oreganno track and Regulatory Module
  • src/hg/makeDb/doc/sacCer3.txt - lines changed 102, context: html, text, full: html, text
• initial file contents ready to go
  • src/hg/makeDb/trackDb/sacCer/sacCer3/description.html - lines changed 120, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/sacCer/sacCer3/gap.html - lines changed 11, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/sacCer/sacCer3/gold.html - lines changed 21, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/sacCer/sacCer3/trackDb.ra - lines changed 18, context: html, text, full: html, text
• adding sacCer3 to the build
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
• starting the multiple alignment
  • src/hg/makeDb/doc/sacCer3.txt - lines changed 149, context: html, text, full: html, text
• pairwise maf alignments are done for the 32 query sequences
  • src/hg/makeDb/doc/sacCer3.txt - lines changed 106, context: html, text, full: html, text
• turning on the 7-way conservation track
  • src/hg/makeDb/trackDb/sacCer/sacCer3/multiz7way.html - lines changed 223, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/sacCer/sacCer3/sgdGene.html - lines changed 14, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/sacCer/sacCer3/sgdOther.html - lines changed 14, context: html, text, full: html, text
• turning on the 7-way conservation track
  • src/hg/makeDb/trackDb/sacCer/sacCer3/trackDb.ra - lines changed 34, context: html, text, full: html, text
• adding sacCer3 to the ensGeneDb list
  • src/hg/makeDb/schema/all.joiner - lines changed 1, context: html, text, full: html, text
• build complete
  • src/hg/makeDb/doc/sacCer3.txt - lines changed 572, context: html, text, full: html, text