Commits for cricket

v251_preview2 to v251_base (2011-05-03 to 2011-05-10) v251

• Correcting two mdbPrint's gone wrong. This is an attempt to return the status of these files to having the dccAccession numbers
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeAffyRnaChip.ra - lines changed 5308, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGisDnaPet.ra - lines changed 70, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeAffyRnaChip.new.ra - lines changed 247, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGisRnaSeq.new.ra - lines changed 174, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeMapability.new.ra - lines changed 86, context: html, text, full: html, text
• Adding .new files for the trackDb so that we can add fileSortOrder to these tracks
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeAffyRnaChip.new.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGisDnaPet.new.ra - lines changed 81, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGisRnaSeq.new.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeMapability.new.ra - lines changed 2, context: html, text, full: html, text
• Changed the expVars
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibMethylRrbs.ra - lines changed 2, context: html, text, full: html, text
• began the cleanup of the metaData for this track including adding fileSortOrder to the trackDb
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibMethylSeq.ra - lines changed 168, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylSeq.ra - lines changed 1, context: html, text, full: html, text
• Adding new submissions, mostly clusters and some replacement GM12878, cleaning up metaData so that the table looks clear byt filiing in missing information
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra - lines changed 174, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.new.ra - lines changed 702, context: html, text, full: html, text
• Adding rnaExtract as an expVar to work with hg19 data
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeYaleRNAseq.ra - lines changed 2, context: html, text, full: html, text
• Adding a composite stanza with my first draft of expVars
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeSangerGencode.ra - lines changed 6, context: html, text, full: html, text
• massive rename to make sure Signals were not called Clusters or Raw
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra - lines changed 1060, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.new.ra - lines changed 286, context: html, text, full: html, text
• Adding UCSC accesion to the fileSortOrder
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.new.ra - lines changed 1, context: html, text, full: html, text
• DoubleChecking that the realease notes got the last few fastqs
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeHaibMethylRrbs.release2.notes - lines changed 12, context: html, text, full: html, text
• Combined the .new and the .html and added contact information
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyRipSeq.html - lines changed 102, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyRipSeq.new.html - lines changed 136, context: html, text, full: html, text
• Final clean up for the pushQ, added the antibody information, changed to mean+whiskers, changed the Input to being off, cleaned up the fileSortOrder
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSunyRipSeq.ra - lines changed 41, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSunyRipSeq.ra - lines changed 26, context: html, text, full: html, text
• removed 2 suspicious geoAccession numbers
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibMethylRrbs.ra - lines changed 2, context: html, text, full: html, text
• Adding differentiation as a treatment for Wold
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 5, context: html, text, full: html, text
• Dropping all datasets that are suspect and replaceing in the pushQ
  • src/hg/makeDb/doc/encodeDccHg19/wgEncodeYaleRnaSeq.release1.notes - lines changed 52, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeYaleRnaSeq.ra - lines changed 228, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeYaleRnaSeq.html - lines changed 26, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeYaleRnaSeq.ra - lines changed 93, context: html, text, full: html, text
• Made a lot of changes according to the labs spreadsheet, issue 55
  • src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaMethylSeq.ra - lines changed 108, context: html, text, full: html, text
• Adding the expVars
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUmassDekker5C.ra - lines changed 6, context: html, text, full: html, text
• Changing the release tags to be with the include statement
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeYaleRnaSeq.ra - lines changed 11, context: html, text, full: html, text
• adding the Clusters for the I40
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra - lines changed 26, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 1, context: html, text, full: html, text
• Adding the new submissions, some of which are replacements
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGisRnaPet.ra - lines changed 1277, context: html, text, full: html, text
• Added the GM12878 back in with the new file
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibGenotype.ra - lines changed 9, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibGenotype.ra - lines changed 4, context: html, text, full: html, text
• Added the A549 cell line as defualt on
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibRnaSeq.ra - lines changed 16, context: html, text, full: html, text
• Fixed the parent name and cell line to merge properly
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibGenotype.ra - lines changed 2, context: html, text, full: html, text
• Added md5sums
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSunyRipSeq.ra - lines changed 54, context: html, text, full: html, text
• Changed the defualt on and off and the celltype for ordering
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlLongRnaSeq.ra - lines changed 258, context: html, text, full: html, text
• Changed the default on/off
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeCaltechRnaSeq.new.ra - lines changed 36, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlShortRnaSeq.new.ra - lines changed 22, context: html, text, full: html, text
• Changed the cellline names to improve the sort
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGisRnaPet.ra - lines changed 67, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylSeq.ra - lines changed 11, context: html, text, full: html, text
• Changed the labels and the defualt on tracks
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.new.ra - lines changed 237, context: html, text, full: html, text