v170-preview - 23 Oct. 2007    (Pairings)

Code changes:

• Added better details to coloredExon clicks. (Andy)
• Added liftUpBedFromTable program to utils -- similar to liftUp but designed more for converting from gene coordinates to genome coordinates, and handles multiple copies of gene on the genome. (Andy)
• Mods to make identifierHash() in hgTables safer by making it check whether the requested table is curTable. Added support for custom tracks to identifier code, but doesn't check whether names are valid. (Angie)
• Fixed bug in lib/jksql.c/sqlTableWildExists, which was always returning TRUE because a show tables query should never fail but might return 0 rows. (Angie)
• Added check in hgGcPercent.c to make sure 2bit chrom is same as BED chrom for bedRegionIn option. (Daryl)
• Fixed bug in hgTracks/wigMafTrack.c caused by negative offset value. (Fan)
• Ongoing work on ENCODE submission pipeline. (Galt)
• Added warning to hgGenome main page when a non-chromosome-based assembly is chosen. (Galt)
• Fixed gcc v4 incompatibility errors in 4 programs. (Hiram)
• Work on instinct and hgHeatmap trees. (Jing)
• Fixed custom track management screen issue when organism is selected and its default database has no custom tracks. (Kate)
• Removed a nearly duplicate function, printCustomUrlWithLabel(), and modified/renamed the function printCustomUrl to printCustomUrlWithLabel(). (Rachel)

Data changes:

• Added hg18 Human Proteins track to danRer5. (Brian)
• Generated hg18/danRer5 alignment. (Hiram)
• More work on mm9 phastCons 30-way, annotated the multiple alignments with genes. (Hiram)
• Removed approximately 25,000 records from the hg18 snpArrayAffy6 table, per Affy's request. (Fan)
• Initial work on hivMn1. (Fan)
• Added mm9 miRNA track. (Fan)
• Cleaned up hg17 ENCODE UCSD Chip tables. (Kate)
• Lifted NHGRI DIPs track to hg18. (Kate)
• More work on hg17 DUke Dnase track. (Kate)
• Replaced hg17 SCONE cons with update. (Kate)