angie: changes by file

branch to review (2010-03-23 to 2010-03-30) v228

• src/hg/hgGenome/bedList.c
  • 1.6 lines changed: 7, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgGenome/hgGenome.c
  • 1.66 lines changed: 1, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgGenome/hgGenome.h
  • 1.39 lines changed: 4, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgGenome/import.c
  • 1.17 lines changed: 42, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTables/bedList.c
  • 1.69 lines changed: 3, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTables/custom.c
  • 1.43 lines changed: 1, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTables/hgTables.c
  • 1.189 lines changed: 14, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTables/hgTables.h
  • 1.139 lines changed: 3, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTables/mainPage.c
  • 1.147 lines changed: 2, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTrackUi/hgTrackUi.c
  • 1.517 lines changed: 101, context: html, text, full: html, text
    Moving bam configuration code from hgTrackUi to hui to support bam in multi-view composites.
• src/hg/hgTracks/bedGraph.c
  • 1.21 lines changed: 1, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTracks/bedTrack.c
  • 1.24 lines changed: 8, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTracks/bigBedTrack.c
  • 1.6 lines changed: 6, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTracks/bigWigTrack.c
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgTracks/hgTracks.h
  • 1.203 lines changed: 2, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/hgc/hgc.c
  • 1.1608 lines changed: 1, context: html, text, full: html, text
    DGV: when both thickEnd and thickStart are set to chromStart, as they are since we stopped showing locus whiskers, don't print out separate positions for variant vs. locus because there's only the variant now.
  • 1.1607 lines changed: 4, context: html, text, full: html, text
    Hook ikmc into komp code, for table name change requested by contributor Carol Bult.
  • 1.1606 lines changed: 1, context: html, text, full: html, text
    Use hAllocConnTrack instead of sqlConnect or hAllocConn to support profiles in hg.conf.
• src/hg/inc/hui.h
  • 1.147 lines changed: 3, context: html, text, full: html, text
    Moving bam configuration code from hgTrackUi to hui to support bam in multi-view composites.
• src/hg/inc/trackDb.h
  • 1.54 lines changed: 2, context: html, text, full: html, text
    Added an eCfgType for bam, to support bam in multi-view composites. (Should eCfgType be in hui instead of here?)
• src/hg/lib/hgFindSpecCustom.c
  • 1.16 lines changed: 1, context: html, text, full: html, text
    When filling in searchDescription using tdb->longLabel, just omit the table name because it is often more confusing than informative.
• src/hg/lib/hui.c
  • 1.266 lines changed: 99, context: html, text, full: html, text
    Moving bam configuration code from hgTrackUi to hui to support bam in multi-view composites.
• src/hg/lib/trackDbCustom.c
  • 1.81 lines changed: 2, context: html, text, full: html, text
    Added an eCfgType for bam, to support bam in multi-view composites. (Should eCfgType be in hui instead of here?)
• src/hg/makeDb/doc/hg18.txt
  • 1.406 lines changed: 400, context: html, text, full: html, text
    Some really old changes: snp130 func annotation fixes, hapmap and 1000 genomes experimental work (some interrupted).
• src/hg/makeDb/doc/mm9.txt
  • 1.129 lines changed: 3, context: html, text, full: html, text
    Renamed komp to ikmc as requested by contributor Carol Bult.
• src/hg/makeDb/schema/all.joiner
  • 1.775 lines changed: 5, context: html, text, full: html, text
    Added ikmc (new name of komp).
• src/hg/makeDb/trackDb/mouse/ikmc.html
  • 1.1 lines changed: 117, context: html, text, full: html, text
    Copying komp definitions to ikmc to support table rename requested by contributor (Carol Bult).
• src/hg/makeDb/trackDb/mouse/trackDb.ra
  • 1.211 lines changed: 28, context: html, text, full: html, text
    Copying komp definitions to ikmc to support table rename requested by contributor (Carol Bult).