v127-final

New things:

• Jim committed 4000 lines of paraFlow work.
• Hiram extended binKeeper functions to handle huge chroms.
• Galt integrated jp2ToJpgTiles into vgPrepImage using libjpeg and ERMapper jp2 lib.
• Angie added utils/arachneLinksToAgp.pl.
• Heather added snpLoad/snpRefUCSC.c and snpCheckAlleles.c.
• Rachel added near/hgZfishEnsXref.c.
• Daryl added snp/PbToAlleleCounts.c.

Edits:

• Brian is working on history/orderNodes/orderNodes.c.
• Mark is working on genePrefToMafFrames.c.
• Angie added axtChain -linearGap arg to makeLoChain-split.csh.
• Angie added -protAccQuery to near/hgClusterGenes.

Bug fixes:

• Rachel changed hgc generic(Chain,Net)Click to disable links to nonactive databases.
• Angie has 2 fixes to hgTables that were patched into v126.

Data:

• Hiram is working on monDom4.
• Angie is working on rn4 including liftOver from rn3.
• Fan built proteins060115.
• Rachel is working on danRer3.
• Daryl is working on HapMap SNPs.
• Brian added notes to makeHg17.doc for multiz17way gap annotation.