Commits for hiram

v319_preview to v319_preview2 (2015-06-29 to 2015-07-06) v319

• correct comments on liftOver refs #15209
  
  • src/hg/makeDb/doc/ce11/initialBuild.txt - lines changed 3, context: html, text, full: html, text
• adding search rule for gold;
  
  • src/hg/makeDb/trackDb/worm/caeAng2/trackDb.ra - lines changed 5, context: html, text, full: html, text
• initial files from makeGenomeDb.pl refs #15209
  
  • src/hg/makeDb/trackDb/worm/melInc2/description.html - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/melInc2/gap.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/melInc2/gold.html - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/melInc2/trackDb.ra - lines changed 8, context: html, text, full: html, text
• adding melInc2 refs #15209
  
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
• adding gold table search rule refs #15209
  
  • src/hg/makeDb/trackDb/worm/melInc2/trackDb.ra - lines changed 5, context: html, text, full: html, text
• initial browser instructions refs #15209
  
  • src/hg/makeDb/doc/worms/caeAng2.txt - lines changed 430, context: html, text, full: html, text
  • src/hg/makeDb/doc/worms/melInc2.txt - lines changed 438, context: html, text, full: html, text
• done with masking refs #15209
  
  • src/hg/makeDb/doc/worms/melInc2.txt - lines changed 63, context: html, text, full: html, text
• running up melHap1 lastz refs #15209
  
  • src/hg/makeDb/doc/ce11/lastzRuns.txt - lines changed 59, context: html, text, full: html, text
• running up caeAng2 and melInc2 lastz refs #15209
  
  • src/hg/makeDb/doc/ce11/lastzRuns.txt - lines changed 121, context: html, text, full: html, text
• adding priPac3 to the build refs #15209
  
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/priPac3/description.html - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/priPac3/gap.html - lines changed 31, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/priPac3/gold.html - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/priPac3/trackDb.ra - lines changed 8, context: html, text, full: html, text
• adding gold table search rule refs #15209
  
  • src/hg/makeDb/trackDb/worm/priPac3/trackDb.ra - lines changed 5, context: html, text, full: html, text
• adding panRed1 Panagrellus redivivus to the build refs #15209
  
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/panRed1/description.html - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/panRed1/gap.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/panRed1/gold.html - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/panRed1/trackDb.ra - lines changed 8, context: html, text, full: html, text
• do not always have all classes to construct bigBed refs #15209
  
  • src/hg/utils/automation/doRepeatMasker.pl - lines changed 3, context: html, text, full: html, text
• adding gold track search rule refs #15209
  
  • src/hg/makeDb/trackDb/worm/panRed1/trackDb.ra - lines changed 5, context: html, text, full: html, text
• running up windowMasker refs #15209
  
  • src/hg/makeDb/doc/worms/panRed1.txt - lines changed 471, context: html, text, full: html, text
• running up windowMasker refs #15209
  
  • src/hg/makeDb/doc/worms/priPac3.txt - lines changed 463, context: html, text, full: html, text
• finished with melHap1 caeAng2 melInc2 and running up panRed1 refs #15209
  
  • src/hg/makeDb/doc/ce11/lastzRuns.txt - lines changed 71, context: html, text, full: html, text
• running up priPac3 refs #15209
  
  • src/hg/makeDb/doc/ce11/lastzRuns.txt - lines changed 58, context: html, text, full: html, text
• running up cb4 and caePb3 refs #15209
  
  • src/hg/makeDb/doc/ce11/lastzRuns.txt - lines changed 116, context: html, text, full: html, text
• Added priPac3 - P. pacificus refs #15209
  
  • src/hg/makeDb/genbank/etc/genbank.conf - lines changed 20, context: html, text, full: html, text
• finished up with panRed1 priPac3 cb4 caePb3 refs #15209
  
  • src/hg/makeDb/doc/ce11/lastzRuns.txt - lines changed 28, context: html, text, full: html, text
• adding haeCon2 to the build refs #15209
  
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/haeCon2/description.html - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/haeCon2/gap.html - lines changed 31, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/haeCon2/gold.html - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/worm/haeCon2/trackDb.ra - lines changed 8, context: html, text, full: html, text
• adding gold table search rule refs #15209
  
  • src/hg/makeDb/trackDb/worm/haeCon2/trackDb.ra - lines changed 5, context: html, text, full: html, text
• done with caeRem4 refs #15209
  
  • src/hg/makeDb/doc/ce11/lastzRuns.txt - lines changed 57, context: html, text, full: html, text
• v319 preview2 refs #15624
  
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text