🎓 Practice 5 - Renv & Docker

Structure of the research compendium of the practice 5 of the training course Reproducible Research in Computational Ecology.

Content

This repository is structured as follow:

• data/: contains all raw data required to perform analyses

• R/: contains R functions developed especially for this project

• DESCRIPTION: contains project metadata (author, date, dependencies, etc.)

• _targets.R: contains the pipeline

• index.Rmd: contains the final report to knit

• make.R: main R script to run the entire project by running targets::tar_make()

Usage

• Fork and clone this repository
• Open a terminal
• Build the Docker image with:

docker build -t "practice5" .

• Start a container based on this image:

docker run --rm -dp 8787:8787 -e DISABLE_AUTH=true practice5

• On a web browser enter this URL: 127.0.0.1:8787. A new RStudio Server instance will be available.
• To run the analysis:

source("make.R")

Notes

• All required packages, listed in the DESCRIPTION file, will be installed (if necessary)
• All required packages and R functions will be loaded

How to cite

Casajus N, Bonnici I, Dray S, Gimenez O, Guéry L, Guilhaumon F, Schiettekatte NMD & Siberchicot A (2023) Workshop FRB-CESAB & GdR EcoStat: Reproducible Research in Computational Ecology. Zenodo. http://doi.org/10.5281/zenodo.4262978.