Commits for cricket

v255_preview2 to v255_base (2011-08-02 to 2011-08-08) v255

• Turned viewUi off at request of QA
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.new.ra - lines changed 1, context: html, text, full: html, text
• QA fixes, broken link and viewUi off, Track#2234 notes#31 and #32
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.new.html - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.new.ra - lines changed 1, context: html, text, full: html, text
• Responding to ticket #169. Removed the filter in trackDb and added a clarifying sentance in .html
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunySwitchgear.html - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunySwitchgear.ra - lines changed 10, context: html, text, full: html, text
• Fixing the display issue that Tim found with noInherit on
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunySwitchgear.ra - lines changed 10, context: html, text, full: html, text
• Changeing priorities in the cv so that things are grouped together, added hidden in a few places, the comments in this area are very out of date. This will be another fix.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 21, context: html, text, full: html, text
• Much rewriting under advice of QA, see ticket #169
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunySwitchgear.html - lines changed 24, context: html, text, full: html, text
• Organizing the include statements for easy management
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra - lines changed 156, context: html, text, full: html, text
• In case we want to switch to a redirect in the future, here is a template that is relational.
  • src/hg/encode/encodeValidate/config/redirectTemplateIndex.html - lines changed 31, context: html, text, full: html, text
• Taking empty column out of fileSortOrder
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeBuOrchid.ra - lines changed 1, context: html, text, full: html, text
• This file is not being used
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeCshlRnaSeq.html - lines changed 105, context: html, text, full: html, text
• Another file that is not being used right now
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeCshlShortRnaSeq.new.ra - lines changed 538, context: html, text, full: html, text
• These are all files that are no longer referenced and/or are redundant. I am removing for clarity.
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeDukeAffyExon.new.ra - lines changed 421, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeDukeAffyExonArray.new.html - lines changed 87, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeGisDnaPet.new.ra - lines changed 109, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeGisRnaSeq.new.ra - lines changed 300, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaCnv.new.html - lines changed 101, context: html, text, full: html, text
• More files that are not used in the structure and are copies of other files in the structure.
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncodeYaleRnaSeq.new.ra - lines changed 75, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncodeYaleRnaSeq.ra - lines changed 75, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeAffyRnaChip.new.ra - lines changed 1002, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeHelicosRnaSeq.new.ra - lines changed 60, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeMapability.new.ra - lines changed 177, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeMapabilityOld.html - lines changed 109, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwChIPSeq.new.ra - lines changed 2273, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDGF.new.ra - lines changed 221, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.html - lines changed 113, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.new.ra - lines changed 1648, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeqRelease2.html - lines changed 114, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.new.html - lines changed 178, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleRnaSeq.ra - lines changed 75, context: html, text, full: html, text
• We had pulled this data, I do not know why we still have include file
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra - lines changed 1, context: html, text, full: html, text
• Changing the description and matrix as requested by the lab
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlLongRnaSeq.html - lines changed 110, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlLongRnaSeq.ra - lines changed 1, context: html, text, full: html, text
• Changing the html according to jacob requests, mostly broken links, missing periods and the likesee 1709
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyRipSeq.html - lines changed 20, context: html, text, full: html, text
• Changed index.html to README.txt
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeCaltechRnaSeq.release2.notes - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeCshlLongRnaSeq.release1.notes - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeHaibGenotype.release1.notes - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeRikenCage.release2.notes - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeSunyRipSeq.release1.notes - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeSunySwitchgear.release1.notes - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeSydhHistone.release2.notes - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeUncBsuProt.release1.notes - lines changed 1, context: html, text, full: html, text
• mm9 track in the pushQ needs the index.html changed to README.txt
  • src/hg/makeDb/doc/encodeDccMm9/wgEncodeSydhTfbs.release2.notes - lines changed 1, context: html, text, full: html, text
• Added file sort ourder with a comment
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyAlbanyTiling.ra - lines changed 1, context: html, text, full: html, text
• Staged a leak of the fileSortOrder for this older track. See ticket 3953 item 57
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyAlbanyTiling.new.ra - lines changed 106, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyAlbanyTiling.ra - lines changed 1, context: html, text, full: html, text
• Fixing V4 to have fileSortOrder and for the metaData to line up with the composite name
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGencodeV4.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV4.new.ra - lines changed 5, context: html, text, full: html, text
• Capitals and html file name
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV4.new.ra - lines changed 6, context: html, text, full: html, text
• Final draft from Vanessa, Katrina and Cricket before initial push
  • src/hg/encode/encodeDownloadReadme/downloadsReadmeTemplate.txt - lines changed 36, context: html, text, full: html, text
• Some how there was lots of extra space in that file
  • src/hg/encode/encodeDownloadReadme/downloadsReadmeTemplate.txt - lines changed 2, context: html, text, full: html, text