Reproducing Networks of forest ecosystems: Mathematical modeling of their biotic pump mechanism and resilience to certain patch deforestation as part of UvA's Complex System Simulation 2023 course.

The notebooks folder contains selected figures reproduced from the paper, the src contains functions for implementing the model, and the scripts folder contains a plotting and simulation file.

Go to julialang.org.

On Linux (this is the most stable setup, so please use this if possible):

cd ~
wget https://julialang-s3.julialang.org/bin/linux/x64/1.9/julia-1.9.1-linux-x86_64.tar.gz
tar zxvf julia-1.9.1-linux-x86_64.tar.gz

Then edit your ~/.bashrc file and add export PATH="$PATH:~/julia-1.9.1/bin" to the end of the file. Note that you could replace the ~ in the path you export to the PATH variable with /home/<INSERT YOUR USERNAME>. Finally, source ~/.bashrc and then check to see that the Julia REPL works by typing julia.

If Julia is already installed, change to the directory of this project and do the following in a command prompt:

julia> using Pkg
julia> Pkg.install("DrWatson") # only if not already installed
julia> Pkg.activate(".")
julia> Pkg.instantiate()

You may notice that Julia scripts start with the commands:

using DrWatson
@quickactivate :CSSim

which auto-activate the project and enable local path handling from DrWatson.

The above syntax is based on making your DrWatson project a usable module, which was done for the purposes of using Revise.jl. See the discussion here for more information on this.

For developers only:

To setup Revise.jl, follow the instructions described here and make sure to modify your ~/.julia/config/startup.jl to include using Revise.

Cantin2020

Antonovsky1990

Julia Debugger.jl Tutorial