Merge branch 'devel' of https://github.com/phenomecentre/peakPantheR … #176
Annotations
5 errors and 35 warnings
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Install dependencies pass 1
Failed to install 'peakPantheR' from local:
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Install dependencies pass 1
Process completed with exit code 1.
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Install dependencies pass 2
Failed to install 'peakPantheR' from local:
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Install dependencies pass 2
Process completed with exit code 1.
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Setup R from r-lib
No such keg: /opt/homebrew/Cellar/r
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The following artifacts were uploaded using a version of actions/upload-artifact that is scheduled for deprecation: "Linux-biocversion-devel-r-devel-results".
Please update your workflow to use v4 of the artifact actions.
Learn more: https://github.blog/changelog/2024-04-16-deprecation-notice-v3-of-the-artifact-actions/
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Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, actions/cache@v2, actions/upload-artifact@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
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The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v2, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Install dependencies pass 1
unable to access index for repository https://bioconductor.org/packages/3.19/bioc/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 1
unable to access index for repository https://bioconductor.org/packages/3.19/data/annotation/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 1
unable to access index for repository https://bioconductor.org/packages/3.19/data/experiment/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 1
unable to access index for repository https://bioconductor.org/packages/3.19/workflows/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 1
unable to access index for repository https://bioconductor.org/packages/3.19/books/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 1
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 1
Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 20 at (1)
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Install dependencies pass 1
Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 35 at (1)
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Install dependencies pass 1
‘dold’ may be used uninitialized [-Wmaybe-uninitialized]
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Install dependencies pass 1
Unused dummy argument ‘itry’ at (1) [-Wunused-dummy-argument]
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/bioc/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/data/annotation/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/data/experiment/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/workflows/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/books/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/bioc/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/data/annotation/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/data/experiment/bin/macosx/big-sur-arm64/contrib/4.5:
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Set BiocVersion
unable to access index for repository https://bioconductor.org/packages/3.19/workflows/bin/macosx/big-sur-arm64/contrib/4.5:
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Query dependencies
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 2
unable to access index for repository https://bioconductor.org/packages/3.19/bioc/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 2
unable to access index for repository https://bioconductor.org/packages/3.19/data/annotation/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 2
unable to access index for repository https://bioconductor.org/packages/3.19/data/experiment/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 2
unable to access index for repository https://bioconductor.org/packages/3.19/workflows/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 2
unable to access index for repository https://bioconductor.org/packages/3.19/books/bin/macosx/big-sur-arm64/contrib/4.5:
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Install dependencies pass 2
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5:
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Setup R from r-lib
pkg-config 0.29.2_3 is already installed and up-to-date.
To reinstall 0.29.2_3, run:
brew reinstall pkg-config
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Setup R from r-lib
HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated
dependents or dependents with broken linkage!
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Install BiocManager
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5:
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Upload check results
No files were found with the provided path: check. No artifacts will be uploaded.
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Install macOS system dependencies
harfbuzz 8.4.0 is already installed and up-to-date.
To reinstall 8.4.0, run:
brew reinstall harfbuzz
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The logs for this run have expired and are no longer available.
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