File Changes for hiram

v239_base to v240_preview (2010-08-31 to 2010-09-07) v240

• src/hg/encode/mkEncodeFrameset/makefile
  • lines changed 2, context: html, text, full: html, text
    need to remove destination before moving to destination
• src/hg/hgTracks/oneTrack.c
  • lines changed 1, context: html, text, full: html, text
    update hChromSize call to use database
• src/hg/hgc/hgc.c
  • lines changed 52, context: html, text, full: html, text
    first pass at a handler for the altSequence hg19Patch2 PSL track
  • lines changed 6, context: html, text, full: html, text
    disable the debug printouts
• src/hg/inc/hui.h
  • lines changed 3, context: html, text, full: html, text
    adding PSL configuration for multi-views
• src/hg/inc/trackDb.h
  • lines changed 1, context: html, text, full: html, text
    adding PSL configuration for multi-views
• src/hg/lib/hui.c
  • lines changed 57, context: html, text, full: html, text
    adding PSL configuration for multi-views
  • lines changed 58, context: html, text, full: html, text
    consolidate the baseColor drop down box code to a single instance
• src/hg/lib/trackDbCustom.c
  • lines changed 2, context: html, text, full: html, text
    adding PSL configuration for multi-views
• src/hg/makeDb/doc/hg18.txt
  • lines changed 221, context: html, text, full: html, text
    finishing off the hg18 and hg19 ContigDiff tracks
• src/hg/makeDb/doc/hg19.txt
  • lines changed 6, context: html, text, full: html, text
    finishing off the hg18 and hg19 ContigDiff tracks
• src/hg/makeDb/doc/hg19Patch2.txt
  • lines changed 103, context: html, text, full: html, text
    added blat server and lastz to hg19
  • lines changed 140, context: html, text, full: html, text
    add the business to construct the altSequence chains and nets and PSL track
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 1, context: html, text, full: html, text
    do not need ccds genes for hg19Patch2
  • lines changed 17, context: html, text, full: html, text
    Added ce9 C. elegans WS120
• src/hg/makeDb/trackDb/README
  • lines changed 3, context: html, text, full: html, text
    comment about deprecated type wig to type bigWig types
• src/hg/makeDb/trackDb/human/altSeqComposite.html
  • lines changed 17, context: html, text, full: html, text
    loading the hg19Patch2 sequences as psl tracks
• src/hg/makeDb/trackDb/human/hg18/hg18ContigDiff.html
  • lines changed 31, context: html, text, full: html, text
    changing track name
  • lines changed 16, context: html, text, full: html, text
    add table of color and score to indicate category of change
• src/hg/makeDb/trackDb/human/hg18/hg19ContigDiff.html
  • lines changed 31, context: html, text, full: html, text
    changing track name
• src/hg/makeDb/trackDb/human/hg18/trackDb.ra
  • lines changed 6, context: html, text, full: html, text
    hg18ContigDiff changing track name and becomes itemRgb
• src/hg/makeDb/trackDb/human/hg19/hg18ContigDiff.html
  • lines changed 31, context: html, text, full: html, text
    changing track name
• src/hg/makeDb/trackDb/human/hg19/hg19ContigDiff.html
  • lines changed 31, context: html, text, full: html, text
    changing track name
  • lines changed 16, context: html, text, full: html, text
    add table of color and score to indicate category of change
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 57, context: html, text, full: html, text
    loading the hg19Patch2 sequences as psl tracks
  • lines changed 23, context: html, text, full: html, text
    make the altSeqComposite be a view in the middle composite
  • lines changed 8, context: html, text, full: html, text
    attempting to baseColor altSeq
  • lines changed 14, context: html, text, full: html, text
    adding base coloring options to altSequence
  • lines changed 66, context: html, text, full: html, text
    adding chain net tracks to the altSeqComposite
  • lines changed 2, context: html, text, full: html, text
    no need for the URL to the otherDb
  • lines changed 22, context: html, text, full: html, text
    removing experiments testChainHg19Patch2 and patch2Psl
  • lines changed 6, context: html, text, full: html, text
    hg19ContigDiff changing track name and becomes itemRgb
• src/hg/makeDb/trackDb/human/hg19Patch2/trackDb.ra
  • lines changed 2, context: html, text, full: html, text
    loading the hg19Patch2 sequences as psl tracks