Commits for hiram

v280_base to v281_preview (2013-03-05 to 2013-03-12) v281

• photograph from Alfredo Gutiérrez and Wikimedia Commons
  • src/hg/htdocs/images/Mustela_putorius_furo.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
• initial files from makeGenomeDb.ra
  • src/hg/makeDb/trackDb/ferret/musFur1/description.html - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/ferret/musFur1/gap.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/ferret/musFur1/gold.html - lines changed 33, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/ferret/musFur1/trackDb.ra - lines changed 8, context: html, text, full: html, text
• running repeat masker simple repeats and window masker
  • src/hg/makeDb/doc/musFur1.txt - lines changed 74, context: html, text, full: html, text
• avoid the *.ori.out files with a custom library
  • src/hg/utils/automation/doRepeatMasker.pl - lines changed 2, context: html, text, full: html, text
• done with masking, running genscan and cpgIslands getting ready for genbank
  • src/hg/makeDb/doc/musFur1.txt - lines changed 92, context: html, text, full: html, text
• adding definition for musFurNames redmine 6352
  • src/hg/makeDb/genbank/src/lib/gbGenome.c - lines changed 2, context: html, text, full: html, text
• adding musFur1 ferret redmine 6352
  • src/hg/makeDb/genbank/etc/genbank.conf - lines changed 17, context: html, text, full: html, text
• Added musFur1/ferret to the daily build
  • 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
• adding musFur1 redmine 6342
  • src/hg/makeDb/schema/all.joiner - lines changed 7, context: html, text, full: html, text
• add quality track redmine 10350
  • src/hg/makeDb/doc/anoCar2.txt - lines changed 51, context: html, text, full: html, text
• working up the larger tree
  • src/hg/utils/phyloTrees/70way.nh - lines changed 70, context: html, text, full: html, text
• adding new assemblies redmine 7482
  • src/hg/utils/phyloTrees/placentals.txt - lines changed 27, context: html, text, full: html, text
  • src/hg/utils/phyloTrees/vertebrates.txt - lines changed 5, context: html, text, full: html, text
• fixup name for allMis1 in 62way and update petMar1 to petMar2 in 65way, redmine 7482
  • src/hg/utils/phyloTrees/62way.nh - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/phyloTrees/65way.nh - lines changed 2, context: html, text, full: html, text
• done and in the pushQ redmine 6352 pushQ 06988
  • src/hg/makeDb/doc/musFur1.txt - lines changed 1509, context: html, text, full: html, text
• common names for 70-way, redmine 10272
  • src/hg/utils/phyloTrees/70way.commonNames.nh - lines changed 1, context: html, text, full: html, text