v179-preview - 25 Mar. 2008    (Pairings)

Code changes:

• Added javascript functions to inc/jsHelper for saving page vertical position. (Angie)
• Added cgiMakeOnKeypressTextVar -- when user hits Enter in a text (or file) input, we will ignore it or force a submit with the appropriate button, instead of the default behavior of pressing the first button on the page (this fixed problem with hgSession reported by QA). (Angie)
• Mods to identifiers.c -- handle missing xrefTable (or field) more gracefully instead of making a doomed query, made ID-matching case-insensitive to be consistent with our SQL filters and users' expectations, retricted example aliases and hashed aliases to those whose IDs actually appear in curTable, added hgtaIdentifierDb cart variable so we don't keep the same processed alias ids when changing database. (Angie)
• Added further improvements to SNP null alignment message in printOffsetAndBoldAxt. (Angie)
• Added sqlRandomSampleConn to lib/jksql.c -- passing in conn allows us to pass in a temporary table name. (Angie)
• Added warning to galaxy.c when users attempt to send MAF data to Galaxy. (Belinda)
• Added Ensembl v49 definitions to Ensembl automation script. (Hiram)
• Removed "nice" from makeDownloads automation scripts (causes problems when controlling shell is bash). (Hiram)
• Initial work on txCdsEvFromBed.c -- program to help connect CCDS with txWalk. (Jim)
• Fixed bug in txBedToGraph.c where evidence was being lost during the merge double-soft stage; implemented -checkSeq flag. (Jim)
• Ongoing work on instinct. (Jing, Zack)
• Added slNameListToString to lib/common. (Rico)

Data changes:

• Added Tajima's D and Tajima's D SNPs to hg18, lifted from hg17. (Angie)
• Restored refGene's idXref to refLink for several assemblies -- too many refGenes do not have name2. (Angie)
• Work on bosTau4, calJac1 browsers. (Hiram)
• Ongoing work on new version of UCSC genes for hg18. (Jim)