library(rworkflows)It may be desirable to set up multiple workflow files within the same repository.
A common use case for this is for Bioconductor packages,
which rely on version-controlled
release schedules.
Because of the release schedule, you may want to have different virtual machine (VM) setups for each version of your package (which are stored on different branches of the same GitHub repository).
devel branchOnly use the devel version of Bioc when launching
GitHub Actions from the devel branch.
v <- "devel"
f1 <- use_workflow(name = paste("rworkflows",v,sep="."),
branches = v,
runners = construct_runners(bioc = v),
preview = TRUE,
force_new = TRUE,
save_dir = tempdir() # For demo only, use default in practice
) ## Applying the same 'bioc' parameter to all 3 'os': 'devel'## name: rworkflows.devel
## 'on':
## push:
## branches: devel
## pull_request:
## branches: devel
## jobs:
## rworkflows:
## permissions: write-all
## runs-on: ${{ matrix.config.os }}
## name: ${{ matrix.config.os }} (${{ matrix.config.r }})
## container: ${{ matrix.config.cont }}
## strategy:
## fail-fast: no
## matrix:
## config:
## - os: ubuntu-latest
## bioc: devel
## r: auto
## cont: ghcr.io/bioconductor/bioconductor_docker:devel
## rspm: ~
## - os: macOS-latest
## bioc: devel
## r: auto
## cont: ~
## rspm: ~
## - os: windows-latest
## bioc: devel
## r: auto
## cont: ~
## rspm: ~
## steps:
## - uses: neurogenomics/rworkflows@master
## with:
## run_bioccheck: no
## run_rcmdcheck: yes
## as_cran: yes
## run_vignettes: yes
## has_testthat: yes
## run_covr: yes
## run_pkgdown: yes
## has_runit: no
## has_latex: no
## GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
## run_docker: no
## DOCKER_TOKEN: ${{ secrets.DOCKER_TOKEN }}
## runner_os: ${{ runner.os }}
## cache_version: cache-v1
## docker_registry: ghcr.io## Saving yaml ==> /var/folders/rd/rbc_wrdj4k3djf3brk6z0_dc0000gp/T//RtmpJYelRq/rworkflows.devel.ymlRELEASE_3_17 branchOnly use the 3.17 release version of Bioc when launching
GitHub Actions from the RELEASE_3_17 branch.
v <- "RELEASE_3_17"
f2 <- use_workflow(name = paste("rworkflows",v,sep="."),
branches = v,
runners = construct_runners(bioc = v),
preview = TRUE,
force_new = TRUE,
save_dir = tempdir() # For demo only, use default in practice
) ## Applying the same 'bioc' parameter to all 3 'os': 'RELEASE_3_17'## name: rworkflows.RELEASE_3_17
## 'on':
## push:
## branches: RELEASE_3_17
## pull_request:
## branches: RELEASE_3_17
## jobs:
## rworkflows:
## permissions: write-all
## runs-on: ${{ matrix.config.os }}
## name: ${{ matrix.config.os }} (${{ matrix.config.r }})
## container: ${{ matrix.config.cont }}
## strategy:
## fail-fast: no
## matrix:
## config:
## - os: ubuntu-latest
## bioc: '3.17'
## r: auto
## cont: ghcr.io/bioconductor/bioconductor_docker:RELEASE_3_17
## rspm: ~
## - os: macOS-latest
## bioc: '3.17'
## r: auto
## cont: ~
## rspm: ~
## - os: windows-latest
## bioc: '3.17'
## r: auto
## cont: ~
## rspm: ~
## steps:
## - uses: neurogenomics/rworkflows@master
## with:
## run_bioccheck: no
## run_rcmdcheck: yes
## as_cran: yes
## run_vignettes: yes
## has_testthat: yes
## run_covr: yes
## run_pkgdown: yes
## has_runit: no
## has_latex: no
## GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
## run_docker: no
## DOCKER_TOKEN: ${{ secrets.DOCKER_TOKEN }}
## runner_os: ${{ runner.os }}
## cache_version: cache-v1
## docker_registry: ghcr.io## Saving yaml ==> /var/folders/rd/rbc_wrdj4k3djf3brk6z0_dc0000gp/T//RtmpJYelRq/rworkflows.RELEASE_3_17.ymlRELEASE_* branchesOnly use the latest release version of Bioc when launching
GitHub Actions from any RELEASE_* branch.
v <- "RELEASE_*"
f3 <- use_workflow(name = paste("rworkflows",v,sep="."),
branches = v,
runners = construct_runners(bioc = v),
preview = TRUE,
force_new = TRUE,
save_dir = tempdir() # For demo only, use default in practice
) utils::sessionInfo()## R version 4.3.1 (2023-06-16)
## Platform: aarch64-apple-darwin20 (64-bit)
## Running under: macOS Sonoma 14.1
##
## Matrix products: default
## BLAS: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRblas.0.dylib
## LAPACK: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
##
## locale:
## [1] C/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8
##
## time zone: Europe/London
## tzcode source: internal
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] rworkflows_1.0.0 BiocStyle_2.29.2
##
## loaded via a namespace (and not attached):
## [1] gtable_0.3.4 jsonlite_1.8.7 renv_1.0.3
## [4] dplyr_1.1.3 compiler_4.3.1 BiocManager_1.30.22
## [7] tidyselect_1.2.0 jquerylib_0.1.4 rvcheck_0.2.1
## [10] scales_1.2.1 yaml_2.3.7 fastmap_1.1.1
## [13] here_1.0.1 ggplot2_3.4.4 R6_2.5.1
## [16] generics_0.1.3 knitr_1.44 yulab.utils_0.1.0
## [19] tibble_3.2.1 bookdown_0.36 desc_1.4.2
## [22] dlstats_0.1.7 rprojroot_2.0.3 munsell_0.5.0
## [25] bslib_0.5.1 pillar_1.9.0 RColorBrewer_1.1-3
## [28] rlang_1.1.1 utf8_1.2.4 cachem_1.0.8
## [31] badger_0.2.3 xfun_0.40 fs_1.6.3
## [34] sass_0.4.7 memoise_2.0.1.9000 cli_3.6.1
## [37] magrittr_2.0.3 digest_0.6.33 grid_4.3.1
## [40] lifecycle_1.0.3 vctrs_0.6.4 data.table_1.14.8
## [43] evaluate_0.22 glue_1.6.2 fansi_1.0.5
## [46] colorspace_2.1-0 rmarkdown_2.25 tools_4.3.1
## [49] pkgconfig_2.0.3 htmltools_0.5.6.1