Catalogue of the Rust Fungi of Belgium

Rationale

This repository contains the functionality to standardize the Catalogue of the Rust Fungi of Belgium to a Darwin Core checklist that can be harvested by GBIF. It was developed for the TrIAS project.

The Catalogue of the Rust Fungi of Belgium is a compilation of the published volumes of the “Catalogue des Uredinales de Belgique”:

Vanderweyen A & Fraiture A (2009) Catalogue des Uredinales de Belgique, 1re partie, Chaconiaceae, Coleosporiaceae, Cronartiaceae, Melampsoraceae, Phragmidiaceae, Pucciniastraceae, Raveneliaceae et Uropyxidaceae. Lejeunia, Revue de Botanique.

Vanderweyen A & Fraiture A (2009) Catalogue des Uredinales de Belgique, 2ème partie, Pucciniaceae (sauf Puccinia)(suite 2). Lejeunia, Revue de Botanique.

Vanderweyen A & Fraiture A (2012) Catalogue des Uredinales de Belgique, 3ème partie, Pucciniaceae (genre Puccinia). Lejeunia, Revue de Botanique.

Workflow

source data → Darwin Core mapping script → generated Darwin Core files

Published dataset

  • Dataset on the IPT (planned)
  • Dataset on GBIF (planned)

Repo structure

The repository structure is based on Cookiecutter Data Science. Files and directories indicated with GENERATED should not be edited manually.

├── README.md         : Description of this repository
├── LICENSE           : Repository license
├── .gitignore        : Files and directories to be ignored by git
│
├── data
│   ├── raw           : Source data, input for mapping script
│   └── processed     : Darwin Core output of mapping script GENERATED
│
├── docs              : Repository website GENERATED
│
└── src
    ├── dwc_mapping.Rmd : Darwin Core mapping script, core functionality of this repository
    └── src.Rproj       : RStudio project file

Installation

  1. Clone this repository to your computer
  2. Open the RStudio project file
  3. Open the dwc_mapping.Rmd R Markdown file in RStudio
  4. Install any required packages
  5. Click Run > Run All to generate the processed data
  6. Alternatively, click Build > Build website to generate the processed data and build the website in /docs

Contributors

List of contributors

License

MIT License