kate: changes by commit

branch to review (2010-03-02 to 2010-03-16) v227

• Merge in wrangler email (will obsolete labs.ra). Add some new labs and remove some aliases to retire
  • src/hg/encode/encodeValidate/config/pi.ra 1.14 - lines changed: 61, context: html, text, full: html, text
• Update DAF version to 2.0, freeze to June 2010, assemblies to hg19 and mm9, table/file name prefix to 'enc'. Add warning for beta testing.
  • src/hg/utils/automation/Encode.pm 1.56 - lines changed: 33, context: html, text, full: html, text
• Add compositeSuffix. Also some edits for readability.
  • src/hg/encode/encodeValidate/config/fields.ra 1.27 - lines changed: 32, context: html, text, full: html, text
• Tweak error msg
  • src/hg/utils/automation/Encode.pm 1.57 - lines changed: 1, context: html, text, full: html, text
• Update for DAF 2.0
  • src/hg/encode/encodeValidate/test/input/chipseq/StanfordChip.DAF 1.10 - lines changed: 7, context: html, text, full: html, text
• Update for pipeline 2.0
  • src/hg/encode/encodeValidate/test/expected/chipseq/README.txt 1.7 - lines changed: 3, context: html, text, full: html, text
  • src/hg/encode/encodeValidate/test/expected/chipseq/load.ra 1.7 - lines changed: 10, context: html, text, full: html, text
  • src/hg/encode/encodeValidate/test/expected/chipseq/trackDb.ra 1.10 - lines changed: 12, context: html, text, full: html, text
• Pipeline 2.0
  • src/hg/encode/DAFs/2.0/:n 1.1 - lines changed: 53, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/affyRnaChip.daf 1.1 - lines changed: 37, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/broadChipSeq.daf 1.1 - lines changed: 40, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/broadMapability.daf 1.1 - lines changed: 23, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/buOrchid.daf 1.1 - lines changed: 23, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/caltechRnaSeq.daf 1.1 - lines changed: 135, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/cshlLongRnaSeq.daf 1.1 - lines changed: 47, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/cshlRnaSeq.daf 1.1 - lines changed: 52, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/cshlShortRnaSeq.daf 1.1 - lines changed: 48, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/dukeDnaseSeq.daf 1.1 - lines changed: 42, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/dukeExonArray.daf 1.1 - lines changed: 23, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/gisDnaPet.daf 1.1 - lines changed: 101, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/gisRnaPet.daf 1.1 - lines changed: 54, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/gisRnaSeq.daf 1.1 - lines changed: 68, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/haibChipSeq.daf 1.1 - lines changed: 42, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/haibCnv.daf 1.1 - lines changed: 0, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/haibMethyl27.daf 1.1 - lines changed: 0, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/haibMethylSeq.daf 1.1 - lines changed: 32, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/haibRnaSeq.daf 1.1 - lines changed: 36, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/helicosRnaSeq.daf 1.1 - lines changed: 54, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/nhgriElnitskiBiPro.daf 1.1 - lines changed: 27, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/nhgriElnitskiNegReg.daf 1.1 - lines changed: 27, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/rikenCageSolexa.daf 1.1 - lines changed: 53, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/sangerGencode.daf 1.1 - lines changed: 0, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordChipSeq.daf 1.1 - lines changed: 41, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordRnaSeq.daf 1.1 - lines changed: 37, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/sunyRipChip.daf 1.1 - lines changed: 45, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uMassDekker5c.daf 1.1 - lines changed: 0, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uMassWengTfbsValid.daf 1.1 - lines changed: 25, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uncFaireSeq.daf 1.1 - lines changed: 48, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/utAustinChipSeq.daf 1.1 - lines changed: 42, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uwChipSeq.daf 1.1 - lines changed: 29, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uwDnaseDgf.daf 1.1 - lines changed: 52, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uwDnaseValid.daf 1.1 - lines changed: 22, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uwExonArray.daf 1.1 - lines changed: 25, context: html, text, full: html, text