f-tonini / LANDIS-II_EDA_CaseStudy

This repository was created to host reproducible code, data, and installers for users interested in running a case study simulation of the LANDIS-II EDA extension

Modeling Epidemiological Disturbances in LANDIS-II

This repository was created to host reproducible code, data, and installers for users interested in replicating the LANDIS-II EDA simulation illustrated in the research manuscript:

Francesco Tonini, Chris Jones, Brian R. Miranda, Richard C. Cobb, Brian R. Sturtevant, Ross K. Meentemeyer. 2018. Modeling epidemiological disturbances in LANDIS-II. Ecography.

If you are interested in inspecting the entire source code of the LANDIS-II EDA extension, check the public repository

Instructions

Please follow these steps for installation and running the model (NOTE: needs to be used with Windows OS as it is written in C# using .NetFramework):

1. Open the installers folder and install Landis-II and then the necessary extensions in this order:

   1. LANDIS-II-6.1_setup64.exe
   2. LANDIS-II Century Succession 4.0.2-setup.exe
   3. LANDIS-II Base EDA 1.0-setup.exe

2. Open BigSur_EDA folder (this is the folder with all of the text and raster files for initial conditions and parameters. They are all filled out with the exact parameters we used for accuracy assessment).

   1. Double click on SimpleBatchFile.bat to start running the model.
   2. Model will take ~3 days running on a computer with multiple cores or longer with a single core. Note that the default for the model is use all CPUs so we recommend running this on a virtual machine.

3. Once the model has finished running, open the EDA_Accurracy_Analysis.R and change the directory in setwd() on line 6 to the location of the LandisII_EDA_Example folder. Run run the analysis code for the model.

Credits and Contacts

Chris Jones: [e-mail]

Francesco Tonini: [e-mail]

Brian Miranda: [e-mail]

LICENSE

Apache 2.0