File Changes for tdreszer

v234_base to v235_preview (2010-06-22 to 2010-06-29) v235

• .gitignore
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    ignore ~ files created by gedit and other programs
• src/hg/encode/encodePatchTdb/encodePatchTdb.c
  • lines changed 50, context: html, text, full: html, text
    Changes to allow viewInTheMiddle template trackDb files to be patched in properly
• src/hg/encode/encodeStatus/hgShowEncodeSubmissions
  • lines changed 1, context: html, text, full: html, text
    Link to composite should be db aware
• src/hg/encode/encodeValidate/config/cv.ra
  • lines changed 20, context: html, text, full: html, text
    Filled out details for 2 antibodies for Broad
• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 1, context: html, text, full: html, text
    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.
• src/hg/inc/mdb.h
  • lines changed 4, context: html, text, full: html, text
    Added special features to mdbPrint to print SQL insert statements for expTable and spacial case extension for adding expIds to exisiting mdb objects.
• src/hg/lib/mdb.c
  • lines changed 86, context: html, text, full: html, text
    Added special features to mdbPrint to print SQL insert statements for expTable and spacial case extension for adding expIds to exisiting mdb objects.
  • lines changed 43, context: html, text, full: html, text
    Fixed treatment!= to be interpreted as treatment NOT EXISTS
• src/hg/lib/web.c
  • lines changed 4, context: html, text, full: html, text
    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.
• src/hg/makeDb/mdbUpdate/mdbPrint.c
  • lines changed 21, context: html, text, full: html, text
    Added special features to mdbPrint to print SQL insert statements for expTable and spacial case extension for adding expIds to exisiting mdb objects.
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaChipSeq.ra
  • lines changed 2, context: html, text, full: html, text
    One more fileName error that Jim caught
  • lines changed 21, context: html, text, full: html, text
    Changed some file names that Jim noticed were inaccurate
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/makefile
  • lines changed 1, context: html, text, full: html, text
    Metadata for UNC OpenChromatin UNC FAIRE June 2010 freeze
  • lines changed 1, context: html, text, full: html, text
    Metadata for Duke Open Chrom DNase June 2010 freeze
  • lines changed 1, context: html, text, full: html, text
    Metadata for UTA Open Chrom ChIPseq June 2010 freeze
  • lines changed 1, context: html, text, full: html, text
    Metadata for Broad Histone June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeBroadHistone.ra
  • lines changed 47, context: html, text, full: html, text
    Removed some erroneous dateResubmitteds
  • lines changed 7817, context: html, text, full: html, text
    Metadata for Broad Histone June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra
  • lines changed 2959, context: html, text, full: html, text
    Metadata for UTA Open Chrom ChIPseq June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromDnase.ra
  • lines changed 3107, context: html, text, full: html, text
    Metadata for Duke Open Chrom DNase June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromFaire.ra
  • lines changed 1491, context: html, text, full: html, text
    Metadata for UNC OpenChromatin UNC FAIRE June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
  • lines changed 1, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
  • lines changed 1, context: html, text, full: html, text
    Removeing Cshl include as Cricket says it is not ready
  • lines changed 1, context: html, text, full: html, text
    Adding UTA ChIP data for June Freeze to hg19
  • lines changed 3, context: html, text, full: html, text
    Adding Broad Histone June 2010 freeze tracks
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeSydhHistone.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeBroadHistone.html
  • lines changed 129, context: html, text, full: html, text
    Adding Broad Histone June 2010 freeze tracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeBroadHistone.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
  • lines changed 1229, context: html, text, full: html, text
    Adding Broad Histone June 2010 freeze tracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.html
  • lines changed 69, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
  • lines changed 309, context: html, text, full: html, text
    Adding UTA ChIP data for June Freeze to hg19
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.ra
  • lines changed 3, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
  • lines changed 969, context: html, text, full: html, text
    Adding UTA ChIP data for June Freeze to hg19
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.html
  • lines changed 65, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
  • lines changed 309, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.ra
  • lines changed 649, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
  • lines changed 925, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.html
  • lines changed 269, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.ra
  • lines changed 925, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDgf.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/utils/automation/Encode.pm
  • lines changed 1, context: html, text, full: html, text
    Mark incoming ENCODE submissions as 'post' JUne 2010 freeze
• src/inc/htmshell.h
  • lines changed 7, context: html, text, full: html, text
    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.
• src/lib/htmshell.c
  • lines changed 5, context: html, text, full: html, text
    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.