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bug fix: crop by polygon #561

bug fix: crop by polygon

bug fix: crop by polygon #561

Triggered via push May 9, 2026 11:40
Status Success
Total duration 7m 43s
Artifacts

check-bioc.yml

on: push
Matrix: build-check
docker-build-and-push
5s
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35 warnings
macOS-latest (devel)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v3, actions/checkout@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/
macOS-latest (devel)
Objects in \usage without \alias in Rd file 'SpatialData.Rd':
macOS-latest (devel)
Undocumented code objects:
macOS-latest (devel)
Subdirectory ‘demo’ contains no demos.
macOS-latest (devel)
Empty or missing file ‘demo/00Index’.
macOS-latest (devel)
unable to access index for repository https://cran.rstudio.com/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/books/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/workflows/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/experiment/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/annotation/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/bioc/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/workflows/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/experiment/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/annotation/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/bioc/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://cran.rstudio.com/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/books/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/workflows/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/experiment/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/annotation/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/bioc/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/workflows/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/experiment/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/annotation/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/bioc/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://cran.rstudio.com/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/books/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/workflows/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/experiment/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/data/annotation/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
unable to access index for repository https://bioconductor.org/packages/3.24/bioc/bin/macosx/sonoma-arm64/contrib/4.7:
macOS-latest (devel)
fribidi 1.0.16 is already installed and up-to-date. To reinstall 1.0.16, run: brew reinstall fribidi
macOS-latest (devel)
harfbuzz 14.2.0 is already installed and up-to-date. To reinstall 14.2.0, run: brew reinstall harfbuzz
macOS-latest (devel)
unable to access index for repository https://cran.rstudio.com/bin/macosx/sonoma-arm64/contrib/4.7:
ubuntu-latest (devel)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v3, actions/checkout@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/