File Changes for cricket

v259_preview to v259_preview2 (2011-10-25 to 2011-11-01) v259

• python/lib/ucscgenomics/qa.py
  • lines changed 1, context: html, text, full: html, text
    added timeout to error message
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • lines changed 1, context: html, text, full: html, text
    This is not a package that we have installed
  • lines changed 1, context: html, text, full: html, text
    I do not think this line should have been commented out
• src/hg/encode/qaInit/qaInit
  • lines changed 2, context: html, text, full: html, text
    Changing the error message and made it not fatal
• src/hg/htdocs/ENCODE/experiment_guidelines.html
  • lines changed 2, context: html, text, full: html, text
    Relating to ticket 5523
• src/hg/htdocs/ENCODE/platform_characterization.html
  • lines changed 2, context: html, text, full: html, text
    Relating to ticket 5523
• src/hg/htdocs/ENCODE/pubs.html
  • lines changed 38, context: html, text, full: html, text
    This is related to ticket 5526 adding the publications
  • lines changed 88, context: html, text, full: html, text
    The first 2 sections of this are ordered.
  • lines changed 754, context: html, text, full: html, text
    Large amounts of citations were added and sorted.
• src/hg/makeDb/doc/encodeDccHg19/wgEncodeRikenCage.release2.notes
  • lines changed 1418, context: html, text, full: html, text
    Fixing the long labels and removing the preamble from the notes file
• src/hg/makeDb/trackDb/cv/alpha/cv.ra
  • lines changed 434, context: html, text, full: html, text
    A was trying to change the antibodies to have the target description, see ticket #1017, I ended up having a very difficult merge conflict surrounding the doner IDs. I think Jeff needs to look at this
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeCaltechRnaSeq.ra
  • lines changed 59, context: html, text, full: html, text
    Removing duplicate objects
  • lines changed 2, context: html, text, full: html, text
    Wrong subIDs
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGencodeV4.ra
  • lines changed 1, context: html, text, full: html, text
    Related to ticket 5577, removing some obsolete objects and changing a table name
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGisChiaPet.ra
  • lines changed 43, context: html, text, full: html, text
    Related to ticket 5577, removing some obsolete objects and changing a table name
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra
  • lines changed 3, context: html, text, full: html, text
    Removing to incoorect geoNumbers
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeReg.ra
  • lines changed 4, context: html, text, full: html, text
    There was a duplicate object in here
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra
  • lines changed 64, context: html, text, full: html, text
    Fixing the attic errors
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwAffyExonArray.ra
  • lines changed 501, context: html, text, full: html, text
    Adding new experiments
  • lines changed 51, context: html, text, full: html, text
    Removing geoAccessions from the trackDB display and adding expIds
  • lines changed 26, context: html, text, full: html, text
    Adding md5sums and changing hgFileUi columns
  • lines changed 34, context: html, text, full: html, text
    Removing treatment=None to be consistent with previous entires
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
  • lines changed 3, context: html, text, full: html, text
    Staging a new release 3 for this composite.
• src/hg/makeDb/trackDb/human/hg19/wgEncodeDukeAffyExon.new.html
  • lines changed 1, context: html, text, full: html, text
    Staging a new release 3 for this composite.
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGisRnaPet.ra
  • lines changed 8, context: html, text, full: html, text
    removed duplicate lines, I am not sure how this worked with this trackless stanza before, but those lines were redundant
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethyl450.html
  • lines changed 6, context: html, text, full: html, text
    Cleaning up labels and such
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethyl450.ra
  • lines changed 196, context: html, text, full: html, text
    Cleaning up labels and such
• src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.new.ra
  • lines changed 138, context: html, text, full: html, text
    Fixing the long labels and removing the preamble from the notes file
  • lines changed 7, context: html, text, full: html, text
    Shortening long labels
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUncBsuProtFasp.html
  • lines changed 147, context: html, text, full: html, text
    Making the super track correct and adding the base of a track description
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUncBsuProtFasp.ra
  • lines changed 2, context: html, text, full: html, text
    Making the super track correct and adding the base of a track description
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwAffyExonArray.new.html
  • lines changed 1, context: html, text, full: html, text
    Adding new experiments
  • lines changed 10, context: html, text, full: html, text
    Adding a reference
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwAffyExonArray.new.ra
  • lines changed 232, context: html, text, full: html, text
    Adding new experiments
  • lines changed 135, context: html, text, full: html, text
    Removing geoAccessions from the trackDB display and adding expIds
  • lines changed 1, context: html, text, full: html, text
    Adding md5sums and changing hgFileUi columns
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.ra
  • lines changed 8, context: html, text, full: html, text
    Fixing the no speacial characters in the tags rule