Process completed with exit code 1.

Process completed with exit code 1.

Build process failed

Vignette re-building failed.

processing vignette 'Session_3_imaging_assays.Rmd' failed with diagnostics:

processing vignette 'Session_2_Tidy_spatial_analyses.Rmd' failed with diagnostics:

--- re-building ‘Introduction.Rmd’ using rmarkdown

buildx failed with: ERROR: failed to build: failed to solve: process "/bin/sh -c Rscript -e \"options(repos = BiocManager::repositories()); devtools::install('.', dependencies = TRUE, build_vignettes = TRUE, upgrade = FALSE)\"" did not complete successfully: exit code: 1

Process completed with exit code 1.

Build process failed

Vignette re-building failed.

processing vignette 'Session_3_imaging_assays.Rmd' failed with diagnostics:

processing vignette 'Session_2_Tidy_spatial_analyses.Rmd' failed with diagnostics:

--- re-building 'Introduction.Rmd' using rmarkdown

Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v4, actions/upload-artifact@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/

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

Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v4, actions/upload-artifact@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/

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

fribidi 1.0.16 is already installed and up-to-date. To reinstall 1.0.16, run: brew reinstall fribidi

harfbuzz 14.2.0 is already installed and up-to-date. To reinstall 14.2.0, run: brew reinstall harfbuzz

Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, docker/build-push-action@v5, docker/login-action@v3, docker/metadata-action@v5, docker/setup-buildx-action@v3. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/

Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v4, actions/upload-artifact@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/

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