Use BiocManager for the install commands. Fix repo for recount. #41
Annotations
6 errors and 6 warnings
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Install dependencies pass 2
--- re-building ‘recount-workflow.Rmd’ using rmarkdown
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Install dependencies pass 2
processing vignette 'recount-workflow.Rmd' failed with diagnostics:
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Install dependencies pass 2
Vignette re-building failed.
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Install dependencies pass 2
Failed to install 'recountWorkflow' 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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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/.
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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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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HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated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 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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Install macOS system dependencies
macOS's Gatekeeper has been disabled for this Cask
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