Added starter makevars file for C portion of code.
convert POSIX vector into DoY

DoY year being julian day + fraction of day. Requires posix format,
which can be established during data import. For example:
 read.table(“trout bog.wnd”, sep="\t", header=TRUE,
colClasses=c("POSIXct","numeric"))
bayes working, 2 utility functions

Edited the bayes file to 1) import/ organize data; 2) fix some of the
mistakes in the jags model (syntactical); 3) add some plotting at the
end. I also added 2 utility functions: date2doy and longestRun. Neither
of these are completely necessary, but other may find them to be
convenient.
Fixed computer-specific file imports.
Removed some more computer-specific imports....
First steps of metab.bayesian cleaup.

Also added metab.bayes documentation file
added pDen function

This function is for creating density plots w/ transparent fill colors
and opaque line colors. Function can simulate fake data (see example in
pDen.R), or you can set mu and sig to NULL and supply a matrix “vals”.
Inspired by Figure 1. in
<http://www.pnas.org/content/110/12/4646.full.pdf+html>
Created manuscript figure generation files. Added function to display code file for use by enduser
wasn't finished apparently...
Moved pDen code into our manuscript code example file.
Changed name to "LakeAnalyzer" because I like Z's, also, dropped Collate because it isn't necessary here.
Created an inProgress directory for files we don't want to delete but block package compilation right now.
Moved example code from Bayesian model to manuscript code file.
Merge branch 'bayes' into 'master'

Conflicts:
	DESCRIPTION
	R/metab.bayesian.R
	inProgress/src/calcDoHat.C.R