Commits for cricket

v235_base to v236_preview (2010-07-06 to 2010-07-13) v236

• Made the changes for the long labels for this track LongPolyA to PolyA+
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeGisPet.ra - lines changed 69, context: html, text, full: html, text
• This is the fix so that the SUNY track reads the Antibody table not the antibody table in cv.ra. Other changes will need to happen with this.
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeSuny.ra - lines changed 1, context: html, text, full: html, text
• Adding the word growthProtocol to fields.ra and HAIB RRBS. I would like to validate this using the esisting growth protocol names in the cell line CV. Currently I am not validating.
  • src/hg/encode/DAFs/2.0/haibMethylRrbs.daf - lines changed 3, context: html, text, full: html, text
  • src/hg/encode/encodeValidate/config/fields.ra - lines changed 5, context: html, text, full: html, text
• This is the attempt at replacing ripTgtProtien with Antibody. I have most of the work done, but it doesn't work with encodeVocab
  • src/hg/encode/encodeValidate/config/cv.ra - lines changed 134, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeSuny.ra - lines changed 25, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeSunyAlbanyTiling.ra - lines changed 1, context: html, text, full: html, text
• have made the changes that Antonio wants, maybe so that longPolyA+ is polyA+
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeGisPet.ra - lines changed 1, context: html, text, full: html, text
• Moved all the old DAfs to 1.0
  • src/hg/encode/DAFs/1.0/AffyRnaChip.daf - lines changed 36, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/AffyRnaChipExample.ddf - lines changed 5, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/BroadChipSeq.daf - lines changed 39, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/BroadChipSeqControl.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/CshlLongRnaSeq.daf - lines changed 41, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/CshlLongRnaSeq.ddf - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/CshlRnaSeq.daf - lines changed 48, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/CshlRnaSeqExample.ddf - lines changed 14, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/DukeDNaseSeq.DAF - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/DukeDNaseSeq.DDF - lines changed 12, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/DukeExons.daf - lines changed 21, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/ElnitskiNRE.DAF - lines changed 25, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/ElnitskiNRE.DDF - lines changed 2, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/GisChiaPet.daf - lines changed 35, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/GisChiaPetExample.ddf - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/GisDnaPet.daf - lines changed 74, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/GisPet.daf - lines changed 42, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/GisPetExample.ddf - lines changed 8, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/GisRnaSeq.daf - lines changed 62, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/HAIBChIPseq.daf - lines changed 38, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/HAIBChIPseqExample.ddf - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/HAIBRnaSeq.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/HelicosRnaSeq.daf - lines changed 48, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/RikenCage.daf - lines changed 53, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/RikenCage.ddf - lines changed 16, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/RikenCageExample.ddf - lines changed 13, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/RikenCageSolexa.daf - lines changed 49, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/SangerGencode.daf - lines changed 28, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/SangerGencode.ddf - lines changed 3, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/SunyRipGeneChip.daf - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/SunyRipGeneChip.ex.ddf - lines changed 3, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UMass5C.DAF - lines changed 27, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UMass5C.DDF - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UMassTfbsAll.daf - lines changed 23, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UMassTfbsAll.ddf - lines changed 2, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UMassTfbsValid.daf - lines changed 22, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UMassTfbsValid.ddf - lines changed 2, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UncFAIREseq.DAF - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UncFAIREseq.DDF - lines changed 12, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UtaChIPseq.DAF - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UtaChIPseq.DDF - lines changed 12, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UtaInput.DAF - lines changed 32, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UtaInput.DDF - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UwChIPseq.daf - lines changed 50, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UwDgf.daf - lines changed 56, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UwDnaseSeq.daf - lines changed 51, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UwDnaseSeqExample.ddf - lines changed 11, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UwDnaseValid.daf - lines changed 20, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UwDnaseValid.ddf - lines changed 7, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/UwExons.daf - lines changed 21, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/WoldRnaSeq.daf - lines changed 97, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/WoldRnaSeq.ex.ddf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YDHChipSeq.daf - lines changed 39, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YDHChipSeqInput.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YDHChipSeqTreatment.daf - lines changed 39, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YDHRnaSeq.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YDHRnaSeqTreatment.daf - lines changed 35, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YaleChipSeq.DAF - lines changed 42, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YaleChipSeq.DDF - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/1.0/YaleChipSeqInput.DAF - lines changed 36, context: html, text, full: html, text
  • src/hg/encode/DAFs/AffyRnaChip.daf - lines changed 36, context: html, text, full: html, text
  • src/hg/encode/DAFs/AffyRnaChipExample.ddf - lines changed 5, context: html, text, full: html, text
  • src/hg/encode/DAFs/BroadChipSeq.daf - lines changed 39, context: html, text, full: html, text
  • src/hg/encode/DAFs/BroadChipSeqControl.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/CshlLongRnaSeq.daf - lines changed 41, context: html, text, full: html, text
  • src/hg/encode/DAFs/CshlLongRnaSeq.ddf - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/DAFs/CshlRnaSeq.daf - lines changed 48, context: html, text, full: html, text
  • src/hg/encode/DAFs/CshlRnaSeqExample.ddf - lines changed 14, context: html, text, full: html, text
  • src/hg/encode/DAFs/DukeDNaseSeq.DAF - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/DukeDNaseSeq.DDF - lines changed 12, context: html, text, full: html, text
  • src/hg/encode/DAFs/DukeExons.daf - lines changed 21, context: html, text, full: html, text
  • src/hg/encode/DAFs/ElnitskiNRE.DAF - lines changed 25, context: html, text, full: html, text
  • src/hg/encode/DAFs/ElnitskiNRE.DDF - lines changed 2, context: html, text, full: html, text
  • src/hg/encode/DAFs/GisChiaPet.daf - lines changed 35, context: html, text, full: html, text
  • src/hg/encode/DAFs/GisChiaPetExample.ddf - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/GisDnaPet.daf - lines changed 74, context: html, text, full: html, text
  • src/hg/encode/DAFs/GisPet.daf - lines changed 42, context: html, text, full: html, text
  • src/hg/encode/DAFs/GisPetExample.ddf - lines changed 8, context: html, text, full: html, text
  • src/hg/encode/DAFs/GisRnaSeq.daf - lines changed 62, context: html, text, full: html, text
  • src/hg/encode/DAFs/HAIBChIPseq.daf - lines changed 38, context: html, text, full: html, text
  • src/hg/encode/DAFs/HAIBChIPseqExample.ddf - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/HAIBRnaSeq.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/HelicosRnaSeq.daf - lines changed 48, context: html, text, full: html, text
  • src/hg/encode/DAFs/RikenCage.daf - lines changed 53, context: html, text, full: html, text
  • src/hg/encode/DAFs/RikenCage.ddf - lines changed 16, context: html, text, full: html, text
  • src/hg/encode/DAFs/RikenCageExample.ddf - lines changed 13, context: html, text, full: html, text
  • src/hg/encode/DAFs/RikenCageSolexa.daf - lines changed 49, context: html, text, full: html, text
  • src/hg/encode/DAFs/SangerGencode.daf - lines changed 28, context: html, text, full: html, text
  • src/hg/encode/DAFs/SangerGencode.ddf - lines changed 3, context: html, text, full: html, text
  • src/hg/encode/DAFs/SunyRipGeneChip.daf - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/SunyRipGeneChip.ex.ddf - lines changed 3, context: html, text, full: html, text
  • src/hg/encode/DAFs/UMass5C.DAF - lines changed 27, context: html, text, full: html, text
  • src/hg/encode/DAFs/UMass5C.DDF - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/UMassTfbsAll.daf - lines changed 23, context: html, text, full: html, text
  • src/hg/encode/DAFs/UMassTfbsAll.ddf - lines changed 2, context: html, text, full: html, text
  • src/hg/encode/DAFs/UMassTfbsValid.daf - lines changed 22, context: html, text, full: html, text
  • src/hg/encode/DAFs/UMassTfbsValid.ddf - lines changed 2, context: html, text, full: html, text
  • src/hg/encode/DAFs/UncFAIREseq.DAF - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/UncFAIREseq.DDF - lines changed 12, context: html, text, full: html, text
  • src/hg/encode/DAFs/UtaChIPseq.DAF - lines changed 44, context: html, text, full: html, text
  • src/hg/encode/DAFs/UtaChIPseq.DDF - lines changed 12, context: html, text, full: html, text
  • src/hg/encode/DAFs/UtaInput.DAF - lines changed 32, context: html, text, full: html, text
  • src/hg/encode/DAFs/UtaInput.DDF - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/DAFs/UwChIPseq.daf - lines changed 50, context: html, text, full: html, text
  • src/hg/encode/DAFs/UwDgf.daf - lines changed 56, context: html, text, full: html, text
  • src/hg/encode/DAFs/UwDnaseSeq.daf - lines changed 51, context: html, text, full: html, text
  • src/hg/encode/DAFs/UwDnaseSeqExample.ddf - lines changed 11, context: html, text, full: html, text
  • src/hg/encode/DAFs/UwDnaseValid.daf - lines changed 20, context: html, text, full: html, text
  • src/hg/encode/DAFs/UwDnaseValid.ddf - lines changed 7, context: html, text, full: html, text
  • src/hg/encode/DAFs/UwExons.daf - lines changed 21, context: html, text, full: html, text
  • src/hg/encode/DAFs/WoldRnaSeq.daf - lines changed 97, context: html, text, full: html, text
  • src/hg/encode/DAFs/WoldRnaSeq.ex.ddf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/YDHChipSeq.daf - lines changed 39, context: html, text, full: html, text
  • src/hg/encode/DAFs/YDHChipSeqInput.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/YDHChipSeqTreatment.daf - lines changed 39, context: html, text, full: html, text
  • src/hg/encode/DAFs/YDHRnaSeq.daf - lines changed 33, context: html, text, full: html, text
  • src/hg/encode/DAFs/YDHRnaSeqTreatment.daf - lines changed 35, context: html, text, full: html, text
  • src/hg/encode/DAFs/YaleChipSeq.DAF - lines changed 42, context: html, text, full: html, text
  • src/hg/encode/DAFs/YaleChipSeq.DDF - lines changed 9, context: html, text, full: html, text
  • src/hg/encode/DAFs/YaleChipSeqInput.DAF - lines changed 36, context: html, text, full: html, text
• Suny GeneST tracks have added more cell lines`
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSunyGeneST.ra - lines changed 127, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeSuny.ra - lines changed 71, context: html, text, full: html, text
• Added noInherit on
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeCaltechRnaSeq.ra - lines changed 1, context: html, text, full: html, text