v164-preview - 17 Jul. 2007    (Pairings)

Code changes:

• Modified hgLoadChromGraph behavior to be more like hgLoadWiggle. (Andy)
• Added functionality to getDbGenomeClade that was implemented (or not, or not quite right) in the various CGIs: detect change of database, reset db-specific state, and save db, genome and clade in the cart. Removed no-longer-needed code from the CGIs. (Angie)
• Modified hgFind -- for multiTerm search, collapse multiple results to a single table+pos if all are for the same position range; consider that uniquely determined for the purpose of multiTerm search. (Angie)
• Added support in chainSplit for -lump on assemblies including non-numeric sequence names, e.g. bosTau2 which has both chroms and scaffolds. Non-numeric seqNames e.g. chrX are hashed to get the lump-bin. (Angie)
• Created gsidMsaToTab.c. (Fan)
• Mods to db= track line parameter in custom tracks, prevent user from entering an invalid db= setting on track line. (Galt, Kate)
• Added a WormBase nav bar link for ce4 and cb3. (Hiram)
• More work on hgHeatmap and UCSF demo. (Jing)
• Work on ENCODE supertrack UI in Genome Browser. (Kate)
• Work on group collapse/expand options on GB configuration page. (Kate)

Data changes:

• Adjusted ce4 kimExpDistance names to be consistent with sangerCanonical names, so hgNear doesn't have so many near-misses when ordering genes by kimExpDistance. (Angie)
• Generate liftOver chains for bosTau3 to bosTau3. (Angie)
• Lowered search priority on hapmapSnps track so that range searches on SNPs will open the main SNP track instead of the hapmapSnps track. (Brooke)
• Work on encodeStanfordNRSF track. (Heather)
• Reran GenBank alignements for several worms to get better xeno refSeqs. (Hiram)
• Initial work on mm9 browser. (Hiram)
• Ongoing work on ENCODE hg17 to hg18 migration. (Kate)
• Fixed GenBank dog name-change issue. (Mark)