kuhn: changes by commit

branch to review (2009-05-12 to 2009-05-19) v206

• made it work for RR. allowed optional arguments to be used singly. allowed use of hgwbeta or hgsqlbeta. simplified logic for doing randoms last. removed tableName variable
  • src/utils/qa/countPerChrom.csh 1.8 - lines changed: 65, context: html, text, full: html, text
• made dir group writeable
  • src/utils/qa/backupCentral.csh 1.14 - lines changed: 1, context: html, text, full: html, text
• added exit after error detect. thanks, brooke.
  • src/utils/qa/getChromFieldName.csh 1.4 - lines changed: 1, context: html, text, full: html, text
• simplified and dropped some variables. caught error state where table does not exist either split or unsplit
  • src/utils/qa/getSplit.csh 1.10 - lines changed: 25, context: html, text, full: html, text
• dropped declaration of varialbe no longer used
  • src/utils/qa/getSplit.csh 1.11 - lines changed: 1, context: html, text, full: html, text
• reset to accept hgwbeta as input. dropped machineName checking as redundant. thanks, brooke
  • src/utils/qa/getSplit.csh 1.12 - lines changed: 11, context: html, text, full: html, text
• refactored handling of single chrom. removed extra steps in txStart-assignment pipe. put all rm statements together using else clause. thanks, brooke
  • src/utils/qa/checkCoverage.csh 1.9 - lines changed: 43, context: html, text, full: html, text
• dropped commas in usage statement to conform to norm
  • src/utils/qa/compareWholeColumn.csh 1.10 - lines changed: 1, context: html, text, full: html, text
• a few cosmetic or typo changes
  • src/utils/qa/copyExtSeqRows.csh 1.6 - lines changed: 10, context: html, text, full: html, text
• put quotes around rm *.out to get rid of annoying error message
  • src/utils/qa/checkSync.csh 1.17 - lines changed: 1, context: html, text, full: html, text
• improved debugging a little and fixed the case where larrym was being converted to larrymm by adding a space after the substitution
  • src/utils/qa/alertBqueue.csh 1.10 - lines changed: 12, context: html, text, full: html, text
• removed sessionIDs to expose IP itself for getting location of user
  • src/utils/qa/checkBOT.csh 1.13 - lines changed: 5, context: html, text, full: html, text
• fixed a parameter to sort that was throwing an error
  • src/utils/qa/catchBot.csh 1.20 - lines changed: 1, context: html, text, full: html, text