v189-final - 19 Aug 2008    (Pairings)

Code changes:

• Mod to snp/snpLoad/snpNcbiToUcsc.c -- for fields with enum and set SQL types, include only those values that appear in the data so we won't show TB filter choices that will never match. (Angie)
• Changed blastz-run-ucsc automation to use lastz by default instead of blastz. (Brian)
• Fixed PS/PDF bug reported by user in which part of the hgTracks code thought the default visibility for blat was pack (correct) and the other half thought it was hide (wrong). (Galt)
• Fixed hgNear paste/upload so terms are quotable. (Galt)
• Added support for latest Ensembl genes. (Hiram)
• Ongoing work on ENCODE DCC loader and validator. (Larry)
• Adding multi-threaded hgExpDistance. (Lee)
• Changed generation of 3' UTR features to match what is now defined in the GTF document. (Mark)
• Added baseMask programs that read, write, and overlap genomeRangeTrees, added more features to genomeRangeTree. (Mike)
• Added support for retroGene track. (Robert)
• Added jquery library. (Tim)
• Ongoing work on instinct. (Zack, Steve)

Data changes:

• Adding oryLat2. (Hiram)
• Added conservation track to ENCODE Dec07 freeze TBA alignments and packaged as super-track. (Kate)
• Fixed some problems with super-tracks on certain annotations. (Kate)
• Updated KEGG and CFAP for latest UCSC Genes track. (Jim)
• Added Nucleosome Occupancy tracks to hg18. (Mark)