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Update check-bioc.yml
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tnaake committed Oct 30, 2024
1 parent 9687bdf commit 001591b
Showing 1 changed file with 1 addition and 8 deletions.
9 changes: 1 addition & 8 deletions .github/workflows/check-bioc.yml
Original file line number Diff line number Diff line change
Expand Up @@ -168,21 +168,14 @@ jobs:
## https://stat.ethz.ch/pipermail/bioc-devel/2020-April/016675.html
## https://github.com/r-lib/remotes/issues/296
## Ideally, all dependencies should get installed in the first pass.
## Manually install required packages
BiocManager::install("BiocStyle", ask = FALSE, update = TRUE, force = TRUE)
BiocManager::install("rmarkdown", ask = FALSE, update = TRUE, force = TRUE)
BiocManager::install("Spectra", ask = FALSE, update = FALSE, force = TRUE)
BiocManager::install("MsCoreUtils", ask = FALSE, update = FALSE, force = TRUE)
## For running the checks
message(paste('****', Sys.time(), 'installing rcmdcheck and BiocCheck ****'))
install.packages(c("rcmdcheck", "BiocCheck"), repos = BiocManager::repositories())
## Pass #1 at installing dependencies
message(paste('****', Sys.time(), 'pass number 1 at installing dependencies: local dependencies ****'))
remotes::install_local(dependencies = TRUE, repos = BiocManager::repositories(), build_vignettes = FALSE, upgrade = TRUE)
continue-on-error: true
shell: Rscript {0}

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