v175-final - 1 Feb. 2008    (Pairings)

Code changes:

• Added handling of bin offset to genePredLoads. (Angie)
• Mod to hgTracks/cds.c to properly handle strand '--' in baseColorOverdrawQInsert's polyA detection. (Angie)
• Changed hgc.c/printSnp125Info() -- don't suppress display of reference allele when class is insertion. (Angie)
• Tweaked snpLoad/snpNcbiToUcsc.c to avoid printing out some exceptions for items that we will skip, to prevent joinerCheck complaints. (Angie)
• Ongoing work on instinct. (Fan, Jing, Zack)
• Ongoing work on ENCODE submission pipeline. (Galt)
• Mod to hgTracks.c -- prevent integer overlow on center computation for zoomToCenter(). (Hiram)
• Mod to hgc.c -- properly safe SQL escape names in the select statement for custom track name items. (Hiram)
• Tweaks to automation scripts. (Hiram)
• Mod to mouseStuff/chainNet/chainNet.c -- properly detect no chain portion found in innerBounds. (Hiram)
• Make hgTracksHelp.html reference in hgTracsk/config.c be independent of cgi-bin directory. (Hiram)
• Ongoing work on ENCODE validator. (Kate)
• Added dosEolnCheck program to detect files checked into CVS with DOS EOLNs, fixed several source files containing DOS EOLNs. (Mark)
• Initial phase of revers-complement display, image inversion in hgTracks. (Mark)
• Modified ccdsClick.c, mgcClick.c, mgcClick.h in hgc to use dynamic linking of CCDS to MGC. (Mark)
• Added option to GenBank handling to delay update for a certain number of days, allow for a delay before considering something out of date. (Mark)

Data changes:

• Initial work on resequencing trace data. (Andy)
• Ongoing work on snp128. (Angie)
• Correction to hapmapAlleles -- the quality score tweak for chimp chroms 21, M, Y{,_random} was performed on an unused field and did not make it into the final product. (Angie)
• Work on hg18/multizPrimate. (Brian)
• Updated go database with latest release from GO. (Fan)
• Ongoing work on petMar1. (Hiram)