Commits for vsmalladi

v271_preview2 to v271_base (2012-07-31 to 2012-08-07) v271

• Fixed the MEL Cell line to be referenced as M rather than U. Redmine #7516, #6703.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 28, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 5, context: html, text, full: html, text
• Fixed sex of G1E and G1E-ER4 cell line to be M. Redmine #6703, #107.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 11, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 253, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.ra - lines changed 126, context: html, text, full: html, text
• Fixed control's that stated None when they should state Input. Redmine #6703.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 49, context: html, text, full: html, text
• Fixed typo in DDF that had control as None instead of Input. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 140, context: html, text, full: html, text
• This primary cell can come from either male or female..
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 1, context: html, text, full: html, text
• Fixed cell line designations from Megakaryocyte and Erythroblast from U to B. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 73, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.ra - lines changed 36, context: html, text, full: html, text
• Redmine #7663
  Q6. Fixed spelling of Facility
  Q7. Made VendorId lowercase for iPS_hFib2_IPS5
  
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
• Redmine #7663. Fixed Description to include line information.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
• Added 6 time course datasets. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 913, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 166, context: html, text, full: html, text
• Added reference to release2 html file and updated short labels. Redmine #6703.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 52, context: html, text, full: html, text
• Added last input controls for time course datasets. Redmin #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 157, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 54, context: html, text, full: html, text
• Fixed default track height and sort order. Redmine #109.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuDnase.ra - lines changed 3, context: html, text, full: html, text
• Fixed sorting order of Treatment Column for blank to be first. Redmine #109.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuDnase.ra - lines changed 5, context: html, text, full: html, text
• Revoked MEL input not used. Updated Sort Order. Redmine #6703."
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuHistone.ra - lines changed 190, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 70, context: html, text, full: html, text
• Updated track defaults and seperated time course data out. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 89, context: html, text, full: html, text
• Updated defaults and seperated time course datasets. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.ra - lines changed 114, context: html, text, full: html, text
• Updated expVars to add readType. Redmone #107.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 2, context: html, text, full: html, text
• Added in control id column. Redmine # 6703.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 1, context: html, text, full: html, text
• Added controlId into the fileSortOrder. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 1, context: html, text, full: html, text
• Forgot to commit makefile for cvValidate.
  • python/programs/cvValidate/makefile - lines changed 27, context: html, text, full: html, text
• Added treatment as an experimental var. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 2, context: html, text, full: html, text
• Moved Time-Course Inputs under the Time-Course G1E-ER4 column. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 6, context: html, text, full: html, text
• Fixed long and short labels. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 64, context: html, text, full: html, text
• Updated long and short labels. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.ra - lines changed 76, context: html, text, full: html, text
• Fixed long and short labels. Also updated signal to be at height 50. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 37, context: html, text, full: html, text
• Modified "Time Course" -> "TC" to be consistent with RNA-seq data set. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 18, context: html, text, full: html, text
• Updated track Description. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.html - lines changed 65, context: html, text, full: html, text
• Updated track defaults and track description. Redmine #6703.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.html - lines changed 24, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 20, context: html, text, full: html, text
• Removed the localization and rnaExtract added to the composite level. Redmine #8659.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 3, context: html, text, full: html, text
• Added release 2 notes of track. Redmine #6703.
  • src/hg/makeDb/doc/encodeDccMm9/wgEncodePsuHistone.release2.notes - lines changed 516, context: html, text, full: html, text
• Added GEO Sample Accession in file sort order.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 1, context: html, text, full: html, text
• Updated sortOrder of view, Short labels for Plus and Minus Signal and added geoSampleAccession for fileSortOrder. Also updated default view ranges for Signal data. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.ra - lines changed 57, context: html, text, full: html, text
• Removed extra rnaExtract information at the composite stanza.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrRnaSeq.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwRnaSeq.ra - lines changed 2, context: html, text, full: html, text
• Updated Credits section for track. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.html - lines changed 5, context: html, text, full: html, text
• Fixed long label for 1 experiment. Added labExpId for experimetns to be an expVar. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 152, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.ra - lines changed 4, context: html, text, full: html, text
• Fixed the default Signal Range for TimeCourse datasets. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 7, context: html, text, full: html, text
• Added labExpId to fileSortOrder, metaDb and expVars. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 44, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 1, context: html, text, full: html, text
• Accidently removked a k for an Pk in an object name. Redmine #6703.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra - lines changed 1, context: html, text, full: html, text
• Fixed typo in the Description of FV-progenitor cells.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 1, context: html, text, full: html, text
• Added UCSC accession numbers. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 301, context: html, text, full: html, text
• Fixed typo in fileSortOrder for replicate. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuRnaSeq.ra - lines changed 1, context: html, text, full: html, text
• Updated credits section. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.html - lines changed 5, context: html, text, full: html, text
• Added release notes. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.html - lines changed 17, context: html, text, full: html, text
• Added ucsc accession numbers and md5sum. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 205, context: html, text, full: html, text
• Added md5sum to metadata. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 133, context: html, text, full: html, text
• Added controlId's for new experiments. Redmine #7516
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuTfbs.ra - lines changed 78, context: html, text, full: html, text
• Added releases 2 notes for track. Redmine #7516.
  • src/hg/makeDb/doc/encodeDccMm9/wgEncodePsuTfbs.release2.notes - lines changed 566, context: html, text, full: html, text
• Added geoSample in fileSortOrder. Redmine #7516.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuTfbs.release2.ra - lines changed 1, context: html, text, full: html, text
• Fixed md5sum error for file. Redmine #107.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodePsuRnaSeq.ra - lines changed 2, context: html, text, full: html, text
• Added release 1 notes for track. Redmine #107
  • src/hg/makeDb/doc/encodeDccMm9/wgEncodePsuRnaSeq.release1.notes - lines changed 443, context: html, text, full: html, text
• Added skeleton of Description Page. Redmine #109.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuDnase.html - lines changed 44, context: html, text, full: html, text