v194-preview - 21 Oct 2008    (Pairings)

Code changes:

• Ongoing work on ENCODE submission pipeline & validator. (Andy, Galt, Tim)
• Cleanup work on next item button for custom tracks. (Andy)
• Fixed score filter for Illumina track. (Andy)
• Mods to hgLoadBed.c: added -trimSqlTable description, removed -bedPlus option. (Andy)
• Mod to lib/hgSeq.c: in hgSeqConcatRegionsDb, handle the interaction of repMasking and casing options when first fetching the sequence instead of after cds/exon-casing. (Angie)
• Added tandem dup type to irows in ratStuff/mafAddIRows/mafAddIRows.c. (Brian)
• Ongoing work on instinct. (Chris, Steve, Zack, Jing)
• Added utility to convert fasta file to fast file. (Jim)
• Added way to pass data to an rbTree traversal callback without using global/statics so can be safely multi-threaded and recursive -- used in intValTreeKeys(). (Jim)
• Fixed bug in mgc/orfeome details sequence links. (Mark)
• Automated upstream file creation in several assemblies as part of GenBank pipeline. (Mark)

Data changes:

• Added KOMP data for mm9. (Angie)
• Ongoing work on 44-way multiple alignment for hg18. (Hiram)
• Automated upstream files in several assemblies as part of GenBank pipeline. (Mark)