fluxnet

fluxnet is an R package that provides utilities to download FLUXNET data from member networks, read in those data, perform basic quality control checks, and create exploratory visualizations and data inventories.

Installation

You can install the development version of fluxnet from GitHub with:

# install.packages("pak")
pak::pak("EcosystemEcologyLab/fluxnet-package")

Data Use Requirements

The FLUXNET data are shared under a CC-BY-4.0 data use license which requires attribution for each data use. You can see the citations for each site in the result of flux_listall() and view the license document contained within each FLUXNET data product (downloaded zip files).

Please also cite the fluxnet package:

Typical usage

flowchart TD
    A["`flux_listall()`"] -->|inspect available data| B["`flux_download()`"]
    B --> C["`flux_extract()`"]
    C --> D{"`manifest <- flux_discover_files()`"}
    D -->|Map sites| E["`flux_map_sites(manifest)`"]
    D -->|Read in data| F["`flux_read(manifest)`"]
    D -->|Read variable info| G["`flux_varinfo(manifest)`"]
    D -->|Read BADM| I["`flux_badm(manifest, 'LAI')`"]
    F --> |QA/QC| J["`flux_qc()`"]

Updating/reinstalling fluxnet-shuttle

To force the fluxnet R package to re-install the fluxnet-shuttle utility, remove the Pyhton virtualenv it is installed in with reticulate::virtualenv_remove("fluxnet"). Then, the next time you run flux_listall(), the virtualenv will be re-created and fluxnet-shuttle will be re-installed.