Change default CRAN mirror (p3m.dev down?), pin BiocManager version. #17
Annotations
1 error and 10 warnings
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Build and push Docker image (on push)
buildx failed with: ERROR: failed to solve: process "/bin/sh -c R --no-echo --no-restore --no-save -e \"install.packages(c('devtools', 'remotes', 'renv', 'R.utils'))\" && R --no-echo --no-restore --no-save -e \"install.packages(c('BiocManager'))\" && R --no-echo --no-restore --no-save -e \"BiocManager::install(version = '3.19')\" && R --no-echo --no-restore --no-save -e \"BiocManager::install(c( 'multtest', 'S4Vectors', 'SummarizedExperiment', 'SingleCellExperiment', 'MAST', 'DESeq2', 'BiocGenerics', 'GenomicRanges', 'IRanges', 'rtracklayer', 'monocle', 'Biobase', 'limma', 'glmGamPoi', 'DelayedArray', 'DelayedMatrixStats', 'lme4', 'batchelor', 'HDF5Array', 'terra', 'ggrastr' ))\" && R --no-echo --no-restore --no-save -e \"BiocManager::install(c('celldex', 'SingleR'))\" && R --no-echo --no-restore --no-save -e \"install.packages(c('Matrix.utils'))\" && R --no-echo --no-restore --no-save -e \"install.packages(c('VGAM', 'R.utils', 'metap', 'Rfast2', 'ape', 'enrichR', 'mixtools'))\" && R --no-echo --no-restore --no-save -e \"install.packages(c('spatstat.explore', 'spatstat.geom'))\" && R --no-echo --no-restore --no-save -e \"install.packages(c('hdf5r'))\" && R --no-echo --no-restore --no-save -e \"install.packages(c('evaluate', 'highr', 'knitr', 'markdown', 'rmarkdown', 'tinytex', 'xfun'))\" && R --no-echo --no-restore --no-save -e \"install.packages(c('rgeos'))\" && R --no-echo --no-restore --no-save -e \"remotes::install_version('Seurat', version = '${SEURAT_VERS}')\" && R --no-echo --no-restore --no-save -e \"remotes::install_github('mojaveazure/seurat-disk')\" && R --no-echo --no-restore --no-save -e \"devtools::install_github('cole-trapnell-lab/monocle3')\" && R --no-echo --no-restore --no-save -e \"remotes::install_version('RcppArmadillo', version='0.12.8.2.1')\" && R --no-echo --no-restore --no-save -e \"remotes::install_version('harmony', version='1.2.0', upgrade='never')\" && R --no-echo --no-restore --no-save -e \"install.packages(c('clustree', 'RColorBrewer'))\" && R --no-echo --no-restore --no-save -e \"remotes::install_github('plotly/plotly.R')\" && R --no-echo --no-restore --no-save -e \"remotes::install_github('pfh/langevitour')\"" did not complete successfully: exit code: 1
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Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, docker/setup-buildx-action@v2, docker/login-action@f054a8b539a109f9f41c372932f1ae047eff08c9, docker/metadata-action@98669ae865ea3cffbcbaa878cf57c20bbf1c6c38, docker/build-push-action@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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The following actions uses node12 which is deprecated and will be forced to run on node16: docker/login-action@f054a8b539a109f9f41c372932f1ae047eff08c9, docker/metadata-action@98669ae865ea3cffbcbaa878cf57c20bbf1c6c38. 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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Log in to the Container registry
The `save-state` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Log in to the Container registry
The `save-state` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Log in to the Container registry
The `save-state` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Extract metadata (tags, labels) for Docker
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Extract metadata (tags, labels) for Docker
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Extract metadata (tags, labels) for Docker
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Extract metadata (tags, labels) for Docker
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Extract metadata (tags, labels) for Docker
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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