File Changes for tdreszer

v250_preview to v250_preview2 (2011-04-05 to 2011-04-12) v250

• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • lines changed 74, context: html, text, full: html, text
    Changes to validator/loader to tar.gz sets of fastqs and docs, and to support docs that are already tgz's.
• src/hg/encode/encodeLoad/doEncodeUnload.pl
  • lines changed 16, context: html, text, full: html, text
    Changes to validator/loader to tar.gz sets of fastqs and docs, and to support docs that are already tgz's.
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • lines changed 77, context: html, text, full: html, text
    Changes to validator/loader to tar.gz sets of fastqs and docs, and to support docs that are already tgz's.
• src/hg/hgApi/hgApi.c
  • lines changed 4, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 1, context: html, text, full: html, text
    Missed a few more references in changing searchTracks.h to search.h
• src/hg/hgFileSearch/hgFileSearch.c
  • lines changed 2, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 1, context: html, text, full: html, text
    Renamed lib file searchTracks.c and .h to search.c and .h to avoid conflict with hgTracks file searchTracks.c and to emphasize that this is common code to both track and file seartch.
  • lines changed 84, context: html, text, full: html, text
    Cleaned out some ifdefs and made track search name and description fields work like file search
  • lines changed 53, context: html, text, full: html, text
    Moved common name and description matching code into search lib and removed it from hgFileSearch and hgTracks/searchTracks.c
• src/hg/hgFileUi/hgFileUi.c
  • lines changed 1, context: html, text, full: html, text
    Fixed a type
• src/hg/hgGateway/hgGateway.c
  • lines changed 1, context: html, text, full: html, text
    Missed a few more references in changing searchTracks.h to search.h
• src/hg/hgTracks/config.c
  • lines changed 1, context: html, text, full: html, text
    Missed a few more references in changing searchTracks.h to search.h
• src/hg/hgTracks/hgTracks.c
  • lines changed 5, context: html, text, full: html, text
    Missed a few more references in changing searchTracks.h to search.h
• src/hg/hgTracks/mainMain.c
  • lines changed 2, context: html, text, full: html, text
    Missed a few more references in changing searchTracks.h to search.h
• src/hg/hgTracks/searchTracks.c
  • lines changed 28, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 1, context: html, text, full: html, text
    Renamed lib file searchTracks.c and .h to search.c and .h to avoid conflict with hgTracks file searchTracks.c and to emphasize that this is common code to both track and file seartch.
  • lines changed 103, context: html, text, full: html, text
    Cleaned out some ifdefs and made track search name and description fields work like file search
  • lines changed 65, context: html, text, full: html, text
    Moved common name and description matching code into search lib and removed it from hgFileSearch and hgTracks/searchTracks.c
• src/hg/inc/mdb.h
  • lines changed 9, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 2, context: html, text, full: html, text
    Adjusted encodeExp funtionality to handle compositeless experiments without choking
• src/hg/inc/search.h
  • lines changed 47, context: html, text, full: html, text
    Renamed lib file searchTracks.c and .h to search.c and .h to avoid conflict with hgTracks file searchTracks.c and to emphasize that this is common code to both track and file seartch.
  • lines changed 10, context: html, text, full: html, text
    Moved common name and description matching code into search lib and removed it from hgFileSearch and hgTracks/searchTracks.c
• src/hg/inc/searchTracks.h
  • lines changed 5, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 49, context: html, text, full: html, text
    Renamed lib file searchTracks.c and .h to search.c and .h to avoid conflict with hgTracks file searchTracks.c and to emphasize that this is common code to both track and file seartch.
• src/hg/js/utils.js
  • lines changed 7, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
• src/hg/lib/cv.c
  • lines changed 57, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
• src/hg/lib/encode/encodeExp.c
  • lines changed 2, context: html, text, full: html, text
    Adjusted encodeExp funtionality to handle compositeless experiments without choking
• src/hg/lib/fileUi.c
  • lines changed 1, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 10, context: html, text, full: html, text
    Make fileIndex an implied mdb var as far as file search is concerned.
• src/hg/lib/makefile
  • lines changed 1, context: html, text, full: html, text
    Renamed lib file searchTracks.c and .h to search.c and .h to avoid conflict with hgTracks file searchTracks.c and to emphasize that this is common code to both track and file seartch.
• src/hg/lib/mdb.c
  • lines changed 129, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 51, context: html, text, full: html, text
    Adjusted encodeExp funtionality to handle compositeless experiments without choking
• src/hg/lib/search.c
  • lines changed 253, context: html, text, full: html, text
    Renamed lib file searchTracks.c and .h to search.c and .h to avoid conflict with hgTracks file searchTracks.c and to emphasize that this is common code to both track and file seartch.
  • lines changed 56, context: html, text, full: html, text
    Moved common name and description matching code into search lib and removed it from hgFileSearch and hgTracks/searchTracks.c
  • lines changed 5, context: html, text, full: html, text
    Make fileIndex an implied mdb var as far as file search is concerned.
• src/hg/lib/searchTracks.c
  • lines changed 22, context: html, text, full: html, text
    Tightened the screws on searching by mdb vars where the search is either for files or tables
  • lines changed 253, context: html, text, full: html, text
    Renamed lib file searchTracks.c and .h to search.c and .h to avoid conflict with hgTracks file searchTracks.c and to emphasize that this is common code to both track and file seartch.
• src/hg/lib/web.c
  • lines changed 3, context: html, text, full: html, text
    Missed this reference as part of the rename from searchTracks.c to search.h
• src/hg/makeDb/trackDb/cv/alpha/cv.ra
  • lines changed 20, context: html, text, full: html, text
    Added in expId and dccAccxession into typeOfTerms as they will soon be added to the mdb. Also labelled Stam grant by his fully unspellable and unpronounceable name
  • lines changed 11, context: html, text, full: html, text
    expVars should now be official. It is an objType=composite only var.
  • lines changed 1, context: html, text, full: html, text
    Adding in validate setting for expVars
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeBroadChipSeq.ra
  • lines changed 6, context: html, text, full: html, text
    Added expVars to major DNA composites for hg18
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeBroadHmm.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeChromatinMap.ra
  • lines changed 2, context: html, text, full: html, text
    Added expVars to major DNA composites for hg18
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeDukeAffyExonArray.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaChipSeq.ra
  • lines changed 6, context: html, text, full: html, text
    Added expVars to major DNA composites for hg18
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaCnv.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
  • lines changed 6, context: html, text, full: html, text
    I believe I missed this one earlier.
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaMethyl27.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaMethylSeq.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaRnaSeq.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeMapability.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeNhgriBip.ra
  • lines changed 2, context: html, text, full: html, text
    Adding expVars to the objType=table on this one which does not belong to a composite.
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeNhgriNRE.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUmasshaTfbsValid.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUwAffyExonArray.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUwChIPSeq.ra
  • lines changed 6, context: html, text, full: html, text
    Added expVars to major DNA composites for hg18
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUwDGF.ra
  • lines changed 6, context: html, text, full: html, text
    Added expVars to major DNA composites for hg18
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeUwDnaseSeq.ra
  • lines changed 6, context: html, text, full: html, text
    Added expVars to major DNA composites for hg18
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeYaleChIPseq.ra
  • lines changed 6, context: html, text, full: html, text
    Added expVars to major DNA composites for hg18
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeYaleRNAseq.ra
  • lines changed 6, context: html, text, full: html, text
    Added in missing expVars into objType=composite
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/makefile
  • lines changed 1, context: html, text, full: html, text
    Get HaibMethyl27 properly renamed to HaibMethylArray
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeBroadHmm.ra
  • lines changed 6, context: html, text, full: html, text
    Added missing expVars to objType=composite
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibMethyl27.ra
  • lines changed 6, context: html, text, full: html, text
    Added missing expVars to objType=composite
  • lines changed 1466, context: html, text, full: html, text
    Must remove this old file
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeMapability.ra
  • lines changed 6, context: html, text, full: html, text
    Added missing expVars to objType=composite