This repository is now archived and merged into the openproblems-bio/website repository.

Experimental website repository

This is a repository for hosting experimental website designs.

Installation

• Install quarto v1.2, R v4.2 and Python v3.10.

• Run Rscript -e 'install.packages("renv")' if you don't have {renv} installed.

• Run Rscript -e 'renv::restore()' to install R and Python packages recorded in the renv lockfile (renv.lock) and Python requirements (requirements.txt). This might take a while.

Preview

Run quarto preview to render a preview version of the site.

Build

Run quarto render to render the site.

Helper scripts

• Run Rscript results/_generate_pages.R to generate the index.qmd pages for all subtasks.

• Run Rscript manuscript/_update_manuscript.R to fetch the latest version of the manuscript from Google Drive and generate the corresponding index.qmd.

Update results manually

This is normally done through a GitHub action. In case it isn't, do the following:

• Download a results.zip from the OpenProblems GitHub Action named Process Nextflow results and extract in the results/ folder.