File Changes for braney

v272_preview to v272_preview2 (2012-08-14 to 2012-08-21) v272

• src/hg/hgTables/bigBed.c
  • lines changed 58, context: html, text, full: html, text
    fixed #8834 by querying only part of the chrom to get ten items for schema
• src/hg/lib/hdb.c
  • lines changed 5, context: html, text, full: html, text
    fix #8796. Hub tracks don't have a tdb in the track hash, so we shouldn't expect to find one there.
  • lines changed 39, context: html, text, full: html, text
    more changes to support UCSC genes (#7045). Added script to build new proteome database, fixed some utilities used in the building of that database, removed dependency on gdbPdb table in hgcentral (now it just uses the most recent proteome database rather than having a proteins database per assembly)
• src/hg/makeDb/doc/proteins/120806.txt
  • lines changed 693, context: html, text, full: html, text
    more changes to support UCSC genes (#7045). Added script to build new proteome database, fixed some utilities used in the building of that database, removed dependency on gdbPdb table in hgcentral (now it just uses the most recent proteome database rather than having a proteins database per assembly)
• src/hg/makeDb/doc/ucscGenes/mm10.ucscGenes13.csh
  • lines changed 4, context: html, text, full: html, text
    more changes to support UCSC genes (#7045). Added script to build new proteome database, fixed some utilities used in the building of that database, removed dependency on gdbPdb table in hgcentral (now it just uses the most recent proteome database rather than having a proteins database per assembly)
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 1, context: html, text, full: html, text
    add CCDS track to mm10
  • lines changed 2, context: html, text, full: html, text
    use ensembl genes instead of refGene for the upstream files because there's no UTR defined for the refGene models
• src/hg/makeDb/genbank/makefile
  • lines changed 1, context: html, text, full: html, text
    fix up makefile to build libraries before executables with target install-rr
• src/hg/protein/pbHgnc/pbHgnc.c
  • lines changed 30, context: html, text, full: html, text
    more changes to support UCSC genes (#7045). Added script to build new proteome database, fixed some utilities used in the building of that database, removed dependency on gdbPdb table in hgcentral (now it just uses the most recent proteome database rather than having a proteins database per assembly)
• src/hg/protein/spToSpXref2/spToSpXref2.c
  • lines changed 10, context: html, text, full: html, text
    more changes to support UCSC genes (#7045). Added script to build new proteome database, fixed some utilities used in the building of that database, removed dependency on gdbPdb table in hgcentral (now it just uses the most recent proteome database rather than having a proteins database per assembly)