Commits for hiram

v244_preview2 to v244_base (2010-11-30 to 2010-12-07) v244

• trying out phoneHome function
  • src/hg/lib/web.c - lines changed 73, context: html, text, full: html, text
• fix usage message about ignored directories and indicate in the log file what the rsync command is
  • src/product/scripts/updateHtml.sh - lines changed 3, context: html, text, full: html, text
• adding danRer7 to alpha build
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/zebrafish/danRer7/description.html - lines changed 129, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/zebrafish/danRer7/gap.html - lines changed 64, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/zebrafish/danRer7/gold.html - lines changed 23, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/zebrafish/danRer7/trackDb.ra - lines changed 40, context: html, text, full: html, text
• did not have enough - on the exclude trash, how did it work before ?
  • src/product/scripts/updateHtml.sh - lines changed 2, context: html, text, full: html, text
• finalize descriptions for gateway page and gold,gap tracks
  • src/hg/makeDb/trackDb/zebrafish/danRer7/description.html - lines changed 121, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/zebrafish/danRer7/gap.html - lines changed 44, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/zebrafish/danRer7/gold.html - lines changed 50, context: html, text, full: html, text
• eliminate the example hg.conf to refer to ex.hg.conf instead
  • src/product/README.mysql.setup - lines changed 102, context: html, text, full: html, text
• version 60 update completed
  • src/hg/makeDb/doc/makeEnsembl.txt - lines changed 316, context: html, text, full: html, text
• adding ctgPos2
  • src/hg/makeDb/trackDb/zebrafish/danRer7/trackDb.ra - lines changed 7, context: html, text, full: html, text
• updated to include chain net discussion
  • src/hg/makeDb/trackDb/human/altSeqComposite.html - lines changed 164, context: html, text, full: html, text
• allow matrix, matrixHeader, chainMinScore and chainLinearGap on psl types because of composites
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 4, context: html, text, full: html, text
• variables for alt sequence html page
  • src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 12, context: html, text, full: html, text
• finishing off repeat masker
  • src/hg/makeDb/doc/danRer7.txt - lines changed 195, context: html, text, full: html, text
• adding Denisova bam tracks
  • src/hg/makeDb/trackDb/human/trackDb.denisova.ra - lines changed 71, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 3, context: html, text, full: html, text