Code for running RHESSys are found in the "scripts" folder. Each script file runs RHESSys 4-5 times, with 4 or 5 different parameter sets.
Scripts with names beginning with "runICB12" or "runICB69" are used to model the Illilouette Creek Basin (ICB) with either 2012 vegetation or 1969 vegetation, respectively. Those are the files used for the "Extremes" model experiment.
Sripts with names beginning with "runICBnofire" are used to model the ICB, starting with 1969 vegetation, without including any fire impacts (similar to "runICB69"). This is the unburned scenario for the Historical model experiment.
Scripts with names beginning with "runICBfire" also model the ICB, starting with 1969 vegetation, but include dynamic vegetation changes over time in response to fire. These scripts are the only ones to include fire dynamics over time. This is the burned scenario for the Historical model experiment.
Scripts with names beginning with "runUMR" are used to model the entire Upper Merced River (UMR) Watershed. Scripts with names ending in "CAP" include cold air pooling.

The "out" folder contains model output. The "Extremes" and "Historical" folders contain output for the model experiments with those names that are discussed in the accompanying paper.
An additional folder of output files contains modeled UMR flow for the purposes of validating the model against data from the USGS Happy Isles gaging station.

The "post" folder contains R code for analyzing the model output, while the "obs" folder contains observed data for comparison to model output.

The "GRASSdata" folder contains spatial files for use with GRASS GIS. This includes spatial model output, as well as the spatial files used for creating the RHESSys worldfiles. See the "templates" folder within "worldfiles" for specifics on how these spatial files were used.

All other folders contain files necessary for running RHESSys using the code in the "scripts" folder.

Please contact Gabrielle Boisrame at gboisrame@berkeley.edu with any questions.