v216-final - 29 September 2009    (Pairings)

Code changes:

• Added Affy Exon data back to UCSC Gene details pages (Andy)
• Fixed compiler warnings from gcc 4.3.3 (Angie)
• More work on BAM track type (Angie)
• Fixed hgCustom error that caused segfault on solaris (Angie)
• Distinguish between a 'clicked to deselect all' vs. 'hasn't made any selections' checkbox (Angie)
• New program: convert pairedTag file into a bed12 (Brian)
• New program: convert tagAlign file into a bed12 (Brian)
• Fixed bedItemOverlapCount program (Brian)
• Tweaks to ENCODE pipeline (Galt)
• Fix composite chain/net display with split tables (Hiram)
• Fixed problem with bigWig on scaffolded assemblies (Jim)
• Make better error message in wigToBigWig when there are overlaps in input file (Jim)
• More refinements to v2 GUI (Tim)

Data changes:

• hg18 personal genome SNP & 1000 genomes (Angie)
• More ENCODE data (Brian, Tim)
• ce8 Sanger Genes (Hiram)
• hg19 46-way Conservation track (Hiram)
• Lots of chains/nets! (Hiram)
• Turn on genbank updates for: Baboon-Papio hamadryas hamadryas (papHam1), Wallaby-Macropus eugenii (macEug1), Rabbit (oryCun2)
• hg19 UCSC Genes (Jim)