biospheremetrics
The goal of biospheremetrics is to provide functions to calculate and plot the biosphere integrity metrics BioCol and EcoRisk in an R package based on outputs of LPJmL. biospheremetrics utilizes the read functions of the lpjmlkit package.
Installation lpjmlkit
The dependency package lpjmlkit is currently not available from CRAN, therefore it needs to be installed manually.
Either install from PIK repository:
install.packages('lpjmlkit', repos = c('https://pik-piam.r-universe.dev', 'https://cloud.r-project.org'))
or checkout and install from github (https://github.com/PIK-LPJmL/lpjmlkit).
Installation biospheremetrics
The easiest way to install biospheremetrics is by directly loading it from github/gitlab depending on what you have access to:
devtools::install_git("git@github.com:stenzelf/biospheremetrics.git")
library(biospheremetrics)
or
devtools::install_git("git@gitlab.pik-potsdam.de:stenzel/biospheremetrics.git")
library(biospheremetrics)
Alternatively, you can install biospheremetrics
by git cloning this repository:
git clone https://gitlab.pik-potsdam.de/stenzel/biospheremetrics.git <path_to_biospheremetrics>
and install via devtools
:
devtools::install("<path_to_biospheremetrics>")
library("biospheremetrics")
alternatively, you can also load it from source:
devtools::load_all("<path_to_biospheremetrics>"")
Scripts
The ./scripts
folder contains scripts to be used on the PIK cluster to
compute longer timeseries with higher RAM demand.
Example
For examples, see the vignette.