changed likelihood for omega.  Omega update seems to work ok for MH, Hit and Run, but is slow to converge.  LH appears to converge to an incorrect solution and will have to be deprecated.  This commit prior to attempting an adaptive MCMC algorithm of Haario / Ji and Schmidler
Code for formatting BOSS 2012 data and running 2012 analysis implemented.  A number of bugs fixed; code looking to be working well with simulated data (tho long times to convergence), but producing highly negatively biased estimates with real BOSS data (data i/o issue?)  and in need of more debugging.

Bugs fixed:
-changed likelihood for Omega; see notes for 8/27/14
-# of species was previously hardcoded as 4 when defining Omega.list in mcmc fcn
-fixed some issues w/ initial values for G.transect, G.tot in "gen_init" fcn.  Now include option to input a vector "Surveyed" to extrapolate density from [so extra 0's don't factor into initial values for density parameters
-Removed col name reuirement for Mapping
-" " from DayHour
-Corrected error in Thin.pl in mcmc fn that was accessing wrong thin entries
-Now define n.knots in MCMC fcn (not scoped right previously)
-when setting initial Alpha in MCMC, needed Par$tau.eta[isp] (previously didn't have isp)
-Now pass in K matrix to mcmc fcn via the list 'Meta'
-When updating When updating Par$G, Par$N previously used Pi.mat[[1]] instead of Pi.mat[[isp]]