No such keg: /opt/homebrew/Cellar/r

processing vignette 'guide_to_spatial_registration.Rmd' failed with diagnostics:

processing vignette 'multi_gene_plots.Rmd' failed with diagnostics:

processing vignette 'spatialLIBD.Rmd' failed with diagnostics:

Failed to install 'spatialLIBD' from local:

Process completed with exit code 1.

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

harfbuzz 8.4.0 is already installed and up-to-date. To reinstall 8.4.0, run: brew reinstall harfbuzz

macOS's Gatekeeper has been disabled for this Cask

No files were found with the provided path: check. No artifacts will be uploaded.

pkg-config 0.29.2_3 is already installed and up-to-date. To reinstall 0.29.2_3, run: brew reinstall pkg-config

HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated dependents or dependents with broken linkage!

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.