jds2025-workshop-template

Workshop site for the JDS 2025 workshop on reproducible research.

Template installation

Quarto render usage

There are two ways to make the render:

Using Apptainer containers

First download the container image for your language of choice and your CPU architecture:

All downloads are available on this link :

https://filesender.renater.fr/?s=download&token=097272f1-f3a6-40ba-98b9-d517e27d2f80

Apptainer usage

apptainer run --writable-tmpfs <container_image.sif> <command>

Example for R:

apptainer run --writable-tmpfs ./jds2025-workshop-R.sif quarto render

Environment installation (for advanced users)

R :

Rscript -e 'install.packages("renv"); renv::restore()'

Python/pip :

pip install -r requirements.txt

Python/conda (we recommend micromamba) :

conda env create -f environment.yml

quarto add computorg/computo-quarto-extension