File Changes for kent

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

• src/hg/hgFileUi/hgFileUi.c
  • lines changed 7, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 50, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
  • lines changed 5, context: html, text, full: html, text
    Removing some debugging.
• src/hg/inc/hdb.h
  • lines changed 3, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/inc/hui.h
  • lines changed 4, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/lib/hdb.c
  • lines changed 42, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/lib/hui.c
  • lines changed 3, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/lib/trackDb.c
  • lines changed 1, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/lib/trackDbCustom.c
  • lines changed 5, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
  • lines changed 1, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/makeDb/trackDb/human/hg19/wgEncodeReg.ra
  • lines changed 7, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
• src/hg/oneShot/freen/freen.c
  • lines changed 258, context: html, text, full: html, text
    Smoothing out the handling of the track->children pointer and track->subtracks pointer so that it works the same in hgTrackUi as elsewhere. The children pointers are set after pruning the track list for ones where the data table is not available.
  • lines changed 44, context: html, text, full: html, text
    Testing some correlation ideas with freen.
• src/hg/regulate/companion/regCompanionChia/makefile
  • lines changed 18, context: html, text, full: html, text
    Some analysis code for chia-pet. Makes a big table other things can crawl through at their leisure.
• src/hg/regulate/companion/regCompanionChia/regCompanionChia.c
  • lines changed 331, context: html, text, full: html, text
    Some analysis code for chia-pet. Makes a big table other things can crawl through at their leisure.
  • lines changed 26, context: html, text, full: html, text
    Describing output better mostly.
• src/hg/regulate/companion/regCompanionCorrelateEnhancerAndExpression/regCompanionCorrelateEnhancerAndExpression.c
  • lines changed 15, context: html, text, full: html, text
    Adding several command line options to control tunable variables.
  • lines changed 68, context: html, text, full: html, text
    Adding permuteTest option.
• src/hg/regulate/companion/regCompanionCorrelateEnhancerAndExpression/test.csh
  • lines changed 1, context: html, text, full: html, text
    Moving routine to find next on list with a different chromosome to library since it keeps coming up.
• src/hg/regulate/companion/regCompanionGraphVsFixedPoints/regCompanionGraphVsFixedPoints.c
  • lines changed 12, context: html, text, full: html, text
    Moving routine to find next on list with a different chromosome to library since it keeps coming up.
• src/hg/regulate/companion/regCompanionHistoneBox/makefile
  • lines changed 18, context: html, text, full: html, text
    Adding simple box filter around peaks method.
• src/hg/regulate/companion/regCompanionHistoneBox/regCompanionHistoneBox.c
  • lines changed 168, context: html, text, full: html, text
    Adding simple box filter around peaks method.
• src/hg/regulate/companion/regCompanionPickEnhancers/regCompanionPickEnhancers.c
  • lines changed 47, context: html, text, full: html, text
    Adding several command line options to control tunable variables.
• src/hg/regulate/companion/regCompanionPickEnhancers/test.csh
  • lines changed 0, context: html, text, full: html, text
    Adding several command line options to control tunable variables.
• src/hg/regulate/companion/regCompanionPickGeneSet/makefile
  • lines changed 18, context: html, text, full: html, text
    Adding simple box filter around peaks method.
• src/hg/regulate/companion/regCompanionPickGeneSet/regCompanionPickGeneSet.c
  • lines changed 189, context: html, text, full: html, text
    Adding simple box filter around peaks method.
• src/hg/regulate/regCluster/regCluster.c
  • lines changed 9, context: html, text, full: html, text
    Adding -aveScore optoin.
• src/inc/basicBed.h
  • lines changed 3, context: html, text, full: html, text
    Moving routine to find next on list with a different chromosome to library since it keeps coming up.
• src/lib/basicBed.c
  • lines changed 11, context: html, text, full: html, text
    Moving routine to find next on list with a different chromosome to library since it keeps coming up.
• src/utils/bedGeneParts/bedGeneParts.c
  • lines changed 47, context: html, text, full: html, text
    Adding firstCodingSplice as a region you can get with bedGeneParts.
  • lines changed 66, context: html, text, full: html, text
    Adding exons as a type of bedGenePart output.
• src/utils/bedGeneParts/firstCodingSplice.expected
  • lines changed 6, context: html, text, full: html, text
    Adding firstCodingSplice as a region you can get with bedGeneParts.
• src/utils/bedGeneParts/makefile
  • lines changed 2, context: html, text, full: html, text
    Adding firstCodingSplice as a region you can get with bedGeneParts.