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Unified GH Action for webR/R WASM Package Binaries and {pkgdown} Deployment

Introduction

Welcome to this tutorial on combining compiling an R package for webR and creating a pkgdown website using GitHub Actions. In this guide, you will find a sample GitHub Action workflow designed to generate in one workflow both developmental webR/R WASM Package binaries alongside a pkgdown website. If you’re eager to streamline the process of building and deploying your R packages for webR while also creating a pkgdown website, you’ve come to the right place.

This repository is part of a series exploring three different approaches:

  • Org-focused webR/WASM Package Repository without a {pkgdown} website
    • This repository serves as an example implementation of the webR Project’s Build R packages using GitHub Actions documentation. It focuses on creating an organizational webR/WASM Package Repository without the inclusion of a pkgdown website that is meant to be triggered through workflow dispatches or changes to a packages file. Explore this repository for insights into structuring your own organization-centric webR package repository using GitHub Actions.
  • Unified GitHub Action Deployment using artifacts of R WASM Package binaries and {pkgdown} [This repository]
    • This repository introduces a unified approach to GitHub Action deployment by using artifacts. Unlike the previous strategy, this allows for the simultaneous deployment of R WASM binaries and the associated pkgdown website by using artifacts. This approach helps prevent a continuous increase in repository size. Explore this repository to understand how the use of artifacts can streamline your deployment process while maintaining a clean and efficient version control history.
  • Separate GitHub Action Deployment onto gh-pages branch of R WASM Package binaries and {pkgdown} website
    • This repository adopts a workflow approach familiar to R package developers using usethis. It employs separate GitHub Actions for generating the R WASM package binaries and pkgdown website. The key aspect of this approach is the merging and deployment of both outputs through the gh-pages branch. This strategy enhances clarity in tracking file changes and provides a transparent view of the deployed content. Explore this repository to understand how this approach can streamline your R package deployment workflow.

Another approach would be to use r-universe.dev to automatically build and supply R WASM package binaries.

Key Contents

Interested in having your R package automatically be built for webR alongside a pkgdown website using a GitHub Action that deploys with an artifact instead of a gh-pages branch? If so, this is the repository for you! Here’s a summary of what you can find in the repository:

Deployment Strategy

This strategy diverges from the traditional approach of tracking website deployments in a gh-pages branch. Instead, it opts for generating artifacts through GitHub Actions and subsequently deploying them onto GitHub Pages. This alteration ensures that the repository’s size remains manageable even with the inclusion of a webR/R WASM Package binary. However, it comes with the trade-off that changes related to new pkgdown deployments are no longer tracked in the gh-pages branch. The deployments can be downloaded and explored separately from a tar file as discussed below.

Setup

For the setup, we’re going to aim to use {usethis} R package to enable GitHub Pages and retrieve a workflow for building both R WASM packages and pkgdown websites.

Setup Github Pages on the Repository

We can enable GitHub pages directly from usethis with:

if(!requireNamespace("usethis", quietly = TRUE)) {
  install.packages("usethis")
}

# Ensure GitHub Pages is set up
usethis::use_github_pages()

Another option is directly enabling GitHub Pages on the repository by following:

  1. Click on the Settings tab for the repository
  2. Under “Code and automation”, select the Pages menu item.
  3. Under the “Source” option select GitHub Actions from the drop down.
  4. In the “Custom Domain” settings, make sure that Enforce HTTPS is checked.

Example configuration of GitHub Pages

Setup the R WASM Package Build GitHub Action

Next, obtain a copy of the modified GitHub Action workflow that compiles the R WASM package binaries and deploys them onto GitHub Pages by committing into the gh-pages branch with the following R code:

# Obtain the modified version of the rwasm repo setup
usethis::use_github_action(
  "https://github.com/coatless-tutorials/webr-unified-gh-workflow/blob/main/.github/workflows/webr-pkgdown-build-and-deploy.yml"
)

Or, you can re-create what usethis is doing by using:

# Create the GitHub workflows directory if not present
dir.create(".github/workflows", showWarnings = FALSE, recursive = TRUE)

# Download the GitHub Action workflow into the repository
download.file(
  url = "https://github.com/coatless-tutorials/webr-unified-gh-workflow/blob/main/.github/workflows/webr-pkgdown-build-and-deploy.yml",
  destfile = ".github/workflows/webr-pkgdown-build-and-deploy.yml"
)

# Block R build from including the GitHub folder
writeLines(
  text = "^\.github$", 
  con = file(".Rbuildignore", "a") 
)

That’s it! Binaries alongside a pkgdown website will now be automatically built upon each new commit and published on the repository’s website served by GitHub Pages.

Observing Data Uploaded

When the workflow completes, the packages and pkgdown website are uploaded onto GitHub Pages through an artifact. The artifacts are stored for 90 days (by default) and can be found under the workflow summary:

  1. Click on the Actions tab for the repository
  2. Under “All workflows”, select a the R WASM & {pkgdown} deploy
  3. Choose a completed workflow run

Example showing how to select a completed job

  1. Under “Artifacts”, click on github-pages to download the built R WASM repository and pkgdown website or rwasmrepo to download just the built R WASM repository.

Note: The size of the github-pages deployment is 13.6 MB of compressed space, while the size of the rwasmrepo is only 6.87 MB of the total compressed space.

Accessing Binaries

In a webR session, access the built binaries using the repository’s GitHub Pages URL, for example:

https://gh-username.github.io/repo-name

Depending on where you are using the custom R WASM package binary, you can register this repository in different ways:

  1. Using the repos key inside of the quarto-webr extension;
  2. Using options() to set values for both repos and webr_pkg_repos; or,
  3. Using the repos parameter in each webr::install() call.

repos Document key in {quarto-webr}

With version v0.4.0 of the {quarto-webr} extension, the repository can be included by using the repos key in the document header:

---
webr:
  packages: ['pkgname']
  repos:
    - https://gh-username.github.io/repo-name
filters:
 - webr
---

Specifying repo urls with options()

To define the location webR should search for in options(), we need to set both repos and webr_pkg_repos.

## Run once at the start of the session

# Specify where to search for the R WASM packages
list_of_repos = c(
    "https://gh-username.github.io/repo-name", 
    "https://other-gh-username.github.io/another-repo", 
    "https://username.r-universe.dev", 
    "https://repo.r-wasm.org/"
  )

# Set the repository URLs
options(
  repos = list_of_repos,
  webr_pkg_repos = list_of_repos
)

# Install the R WASM Package
webr::install("pkgname")

[!NOTE]

This is different than the repos option one would usually set since webR only checks the webr_pkg_repos key; however, other R functions like available.packages() check the repos parameter.

Specifying repos in webr::install()

The repos parameter may also be specified in the webr::install() command each time you need to install a package from a custom location:

webr::install("pkgname", repos = "https://gh-username.github.io/repo-name")

webr::install("pkgname", repos = list_of_repos)

[!IMPORTANT]

Ensure the repository’s GitHub Pages website is available over HTTPS (not HTTP). Verify this option in the repository’s Settings page under Code and automation > Pages > Enforce HTTPS.

Otherwise, you might encounter an error:

Warning: unable to access index for repository http://gh-username.github.io/repo-name/bin/emscripten/contrib/4.3

Verify

Go to the webR REPL Editor (pinned to v0.2.2) and run the following:

# Check if package `{demorwasmbinary}` is installed
"demorwasmbinary" %in% installed.packages()[,"Package"]
# Install the binary from a repository
webr::install(
  "demorwasmbinary", 
  repos = "https://tutorials.thecoatlessprofessor.com/webr-unified-gh-workflow/"
)
# Check to see if the function works
demorwasmbinary::in_webr()
# View help documentation
?demorwasmbinary::in_webr

You should receive:

Screenshot of the webR REPL editor showing how to download from repository outside of repo.r-wasm.org an R package binary