File Changes for tdreszer

v246_preview to v246_preview2 (2011-01-11 to 2011-01-18) v246

• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • lines changed 6, context: html, text, full: html, text
    Bed files should be named as .bed.gz not .bed9+.gz
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • lines changed 1, context: html, text, full: html, text
    Bed files should be named as .bed.gz not .bed9+.gz
• src/hg/hgFileUi/hgFileUi.c
  • lines changed 7, context: html, text, full: html, text
    hgFileUi no longer depends upon a fileSortOrder setting
• src/hg/hgTracks/searchTracks.c
  • lines changed 269, context: html, text, full: html, text
    Checked in file search tab but ifdef'd out
• src/hg/inc/fileUi.h
  • lines changed 4, context: html, text, full: html, text
    Added suppport for file searching
• src/hg/inc/mdb.h
  • lines changed 27, context: html, text, full: html, text
    Added suppport for file searching
  • lines changed 10, context: html, text, full: html, text
    Added some support routines for file searching/sorting code
• src/hg/js/hgTracks.js
  • lines changed 12, context: html, text, full: html, text
    Added support for hiding found files or tracks when switching tabs on search page
• src/hg/lib/fileUi.c
  • lines changed 241, context: html, text, full: html, text
    Added suppport for file searching
  • lines changed 14, context: html, text, full: html, text
    dateUnrestricted should be grey not hidden, when file is already ripened.
  • lines changed 484, context: html, text, full: html, text
    Added a default sort order. Special code to find .bai files. Common sortable table for both hgFileUi and fileSearch. Added folder link to hgFileUi from file search.
  • lines changed 6, context: html, text, full: html, text
    Rearranged the defaulting sort order fields slightly
  • lines changed 6, context: html, text, full: html, text
    And a little more tweeking. Don't create a default column when all values will be the same
  • lines changed 9, context: html, text, full: html, text
    Really must stop trying things and wait for feedback
• src/hg/lib/mdb.c
  • lines changed 232, context: html, text, full: html, text
    Added suppport for file searching
  • lines changed 52, context: html, text, full: html, text
    Added some support routines for file searching/sorting code
• src/hg/makeDb/doc/encodeDccHg19/openChromCrawford.hg19.txt
  • lines changed 629, context: html, text, full: html, text
    Wrangling OpenChrom
• src/hg/makeDb/trackDb/cv/alpha/cv.ra
  • lines changed 16, context: html, text, full: html, text
    Provisionally added typeOfTerm=privacy and dataType=Combined for openChrom.
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra
  • lines changed 20, context: html, text, full: html, text
    Mark some cell lines as private=noSequence
  • lines changed 20, context: html, text, full: html, text
    Added in missing fileIndex refs and a couple more DNase were marked as privacy=noSequence
  • lines changed 4, context: html, text, full: html, text
    Peaks and Signals resubmitted for K562 CTCF and Pol2
  • lines changed 2, context: html, text, full: html, text
    Missed one
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromDnase.ra
  • lines changed 56, context: html, text, full: html, text
    Mark some cell lines as private=noSequence
  • lines changed 61, context: html, text, full: html, text
    Added in missing fileIndex refs and a couple more DNase were marked as privacy=noSequence
  • lines changed 36, context: html, text, full: html, text
    Found 2 missing fastqs
  • lines changed 246, context: html, text, full: html, text
    Two more experiments added
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromFaire.ra
  • lines changed 155, context: html, text, full: html, text
    Removed revoked objects
  • lines changed 16, context: html, text, full: html, text
    Added in missing fileIndex refs and a couple more DNase were marked as privacy=noSequence
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.ra
  • lines changed 132, context: html, text, full: html, text
    Another round of smoothing lable problems
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.ra
  • lines changed 328, context: html, text, full: html, text
    Added 2 experiments and cleaned up some labelling
  • lines changed 53, context: html, text, full: html, text
    Another round of smoothing lable problems
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.ra
  • lines changed 127, context: html, text, full: html, text
    Another round of smoothing lable problems
• src/inc/common.h
  • lines changed 6, context: html, text, full: html, text
    Added a couple of date routines
• src/lib/common.c
  • lines changed 19, context: html, text, full: html, text
    Added a couple of date routines