R-CMD-check #292
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2 errors and 22 warnings
Set up R and install BiocManager
No such keg: /usr/local/Cellar/[email protected]
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Show testthat output (non-windows)
attempt to apply non-function
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Your workflow is using a version of actions/cache that is scheduled for deprecation, actions/cache@v1. Please update your workflow to use the latest version of actions/cache to avoid interruptions. Learn more: https://github.blog/changelog/2024-09-16-notice-of-upcoming-deprecations-and-changes-in-github-actions-services/
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Set up R and install BiocManager
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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Set up R and install BiocManager
ghostscript 10.04.0 is already installed and up-to-date.
To reinstall 10.04.0, run:
brew reinstall ghostscript
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Set up R and install BiocManager
You are using macOS 12.
We (and Apple) do not provide support for this old version.
It is expected behaviour that some formulae will fail to build in this old version.
It is expected behaviour that Homebrew will be buggy and slow.
Do not create any issues about this on Homebrew's GitHub repositories.
Do not create any issues even if you think this message is unrelated.
Any opened issues will be immediately closed without response.
Do not ask for help from Homebrew or its maintainers on social media.
You may ask for help in Homebrew's discussions but are unlikely to receive a response.
Try to figure out the problem yourself and submit a fix as a pull request.
We will review it but may or may not accept it.
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Set up R and install BiocManager
HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated
dependents or dependents with broken linkage!
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Set up R and install BiocManager
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-x86_64/contrib/4.5:
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Run BiocCheck
unable to access index for repository https://www.bioconductor.org/packages/3.21/workflows/bin/macosx/big-sur-x86_64/contrib/4.5:
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Run BiocCheck
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-x86_64/contrib/4.5:
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Install remotes and RCurl
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-x86_64/contrib/4.5:
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Test coverage
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-x86_64/contrib/4.5:
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Install macOS system dependencies
harfbuzz 10.0.0 is already installed and up-to-date.
To reinstall 10.0.0, run:
brew reinstall harfbuzz
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Install macOS system dependencies
fribidi 1.0.15 is already installed and up-to-date.
To reinstall 1.0.15, run:
brew reinstall fribidi
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Install R package dependencies
unable to access index for repository https://www.bioconductor.org/packages/3.21/workflows/bin/macosx/big-sur-x86_64/contrib/4.5:
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Install R package dependencies
unable to access index for repository https://cran.rstudio.com/bin/macosx/big-sur-x86_64/contrib/4.5:
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Install R package dependencies
‘smin’ may be used uninitialized [-Wmaybe-uninitialized]
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Install R package dependencies
Unused dummy argument ‘itry’ at (1) [-Wunused-dummy-argument]
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Install R package dependencies
Unused variable ‘t4’ declared at (1) [-Wunused-variable]
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Install R package dependencies
Unused variable ‘t5’ declared at (1) [-Wunused-variable]
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Install R package dependencies
‘t2’ may be used uninitialized [-Wmaybe-uninitialized]
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Install R package dependencies
‘i2’ may be used uninitialized [-Wmaybe-uninitialized]
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Install R package dependencies
Unused dummy argument ‘a’ at (1) [-Wunused-dummy-argument]
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Install R package dependencies
Unused variable ‘i’ declared at (1) [-Wunused-variable]
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