Merge pull request #4 from EcoForecast/master

Add JAGS files from Hollie, Diana
Merge pull request #5 from EcoForecast/master

Update all files, specifically for Diana's new JAGS code
Merge pull request #6 from EcoForecast/master

Get Hollie's new priors in the JAGS code!
Merge pull request #22 from jam2767/master

commit
Added top-level Operations.R outline script.
Functions need to be defined.
Merge pull request #23 from dgianotti/master

Added top-level Operations script.  Functions need to be defined.
Merge pull request #6 from EcoForecast/master

updating my repository
REDOING state space model. Main script is run.SS.model.R
Merge pull request #24 from AngelaRigden/master

Updating files
Merge pull request #7 from EcoForecast/master

Pull statespace model data from Angela
Delete output.pdf

Accidentally pushed
Better
Create Particle Filter model.
Delete .Rapp.history
Function to set ensemble size in operations script
fixed bugs in particle code and made notes on what needs to be done next
Fixed some bugs in RunJAGS.R which prevented run.SS.model from working as function call.
-Dan
Made changes to Operations.R to include a data download/update step.
Added a function to do the data download/update called get.site.data.R.
-Dan
Added a data download/update step in Operations.R
-Dan
Merge pull request #25 from dgianotti/master

Updates to Operations.R, RunJAGS.R, make.SS.plots.R, run.SS.model.R.  Created new file, get.site.data.R.