135 lines
7 KiB
YAML
135 lines
7 KiB
YAML
when:
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event: [manual]
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skip_clone: true
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depends_on:
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- warm_up_build
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matrix:
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include:
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# - PLATFORM: redhat-9
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# BLOCK: 20099:21169
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# ARCH: arm64
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# NCPUS: 2
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# MEMORY: 29Gi
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# STRATEGY: multisession
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# - PLATFORM: redhat-8
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# BLOCK: 20099:21169
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# ARCH: arm64
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# NCPUS: 2
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# MEMORY: 29Gi
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# STRATEGY: multisession
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# - PLATFORM: ubuntu-2404
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# BLOCK: 20099:21169
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# ARCH: arm64
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# NCPUS: 2
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# MEMORY: 29Gi
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# STRATEGY: multisession
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# - PLATFORM: ubuntu-2204
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# BLOCK: 20099:21169
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# ARCH: arm64
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# NCPUS: 2
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# MEMORY: 29Gi
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# STRATEGY: multisession
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- PLATFORM: alpine-320
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BLOCK: 7065:length(pkgs)
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ARCH: arm64
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NCPUS: 2
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MEMORY: 29Gi
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STRATEGY: multisession
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### AMD
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- PLATFORM: redhat-9
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BLOCK: 1:length(pkgs)
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ARCH: amd64
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NCPUS: 2
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MEMORY: 29Gi
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STRATEGY: multisession
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- PLATFORM: redhat-8
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BLOCK: 1:length(pkgs)
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ARCH: amd64
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NCPUS: 2
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MEMORY: 29Gi
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STRATEGY: multisession
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- PLATFORM: ubuntu-2404
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BLOCK: 1:length(pkgs)
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ARCH: amd64
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NCPUS: 2
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MEMORY: 29Gi
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STRATEGY: multisession
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- PLATFORM: ubuntu-2204
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BLOCK: 1:length(pkgs)
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ARCH: amd64
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NCPUS: 2
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MEMORY: 29Gi
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STRATEGY: multisession
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- PLATFORM: alpine-320
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BLOCK: 1090:length(pkgs)
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ARCH: amd64
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NCPUS: 2
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MEMORY: 29Gi
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STRATEGY: multisession
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steps:
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- name: 'Build binaries (${PLATFORM}: ${BLOCK})'
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secrets: [red_hat_dev_pw, aws_access_key_id, aws_secret_access_key, pgpass, git_ro_token, GITHUB_PAT]
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image: docker.io/devxygmbh/${ARCH}-binaries-r-${PLATFORM}
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pull: true
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# to ensure the PACKAGES upload step is being executed
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failure: ignore
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environment:
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GIT_USER: pat-s
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# set the location of the 'pkgcache' cache dir which persists the R package dependencies needed to install the packages themselves
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R_PKG_CACHE_DIR: /mnt/cache/pkgcache
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R_LIBS_USER: /mnt/cache/R-pkgs
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CCACHE_DIR: /mnt/cache/ccache
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volumes:
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- ${ARCH}-binaries-r-dep-cache-${PLATFORM}:/mnt/cache
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commands:
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# download latest package version (avoid having to rebuild image every time)
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# rscript_startup arg: required to pass down global option to future workers https://github.com/HenrikBengtsson/future/issues/134#issuecomment-2245666169
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- git clone https://pat-s:$$git_ro_token@git.devxy.io/devxy/r-pkg-binaries.git .
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- rm -rf /mnt/cache/R-pkgs/00LOCK-r-pkg-binaries /mnt/cache/R-pkgs/00LOCK-bincraftR
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# for some reason paks pkgcache is often corrupt
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- rm -rf /mnt/cache/R-pkgs/pkgcache/ /mnt/cache/pkgcache/ /root/.cache/R/
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- R -q -e 'pak::meta_update()'
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- R CMD INSTALL .
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# more complicated system dependencies which pak cannot resolve
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- mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages
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# set additional repos: important as otherwise some packages cannot be resolved (e.g. INLA). Also: setting our own binary repos so we can make use of them for dep installation at some point
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# - R -q -e 'options(crayon.enabled = TRUE, Ncpus = ${NCPUS}, future.globals.onReference = NULL); pkgs = tools::CRAN_package_db()[[1]]; pkgs = setdiff(pkgs[${BLOCK}], c("biplotbootGUI", "BlockmodelingGUI", "cncaGUI", "EventDetectGUI", "irtGUI", "KappaGUI", "magickGUI", "miniGUI", "multibiplotGUI", "TextMiningGUI", "later", "RclusTool", "Rcmdr", "RcmdrMisc", "RcmdrPlugin.aRnova", "RcmdrPlugin.BiclustGUI", "RcmdrPlugin.BWS1", "RcmdrPlugin.BWS2", "RcmdrPlugin.BWS3", "RcmdrPlugin.cpd", "RcmdrPlugin.DCCV", "RcmdrPlugin.DCE", "RcmdrPlugin.depthTools", "RcmdrPlugin.DoE", "RcmdrPlugin.EACSPIR", "RcmdrPlugin.EBM", "RcmdrPlugin.EcoVirtual", "RcmdrPlugin.Export", "RcmdrPlugin.EZR", "RcmdrPlugin.FactoMineR", "RcmdrPlugin.GWRM", "RcmdrPlugin.HH", "RcmdrPlugin.KMggplot2", "RcmdrPlugin.MA", "RcmdrPlugin.MPAStats", "RcmdrPlugin.NMBU", "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "StratigrapheR", "tcltk2", "TVMM", "uHMM", "RInno", "webshot2")); library(bincraftR); future::plan("${STRATEGY}", workers = ${NCPUS}, rscript_startup = quote(options(crayon.enabled = TRUE))); options(progressr.enable = TRUE); progressr::handlers('cli'); progressr::handlers(global = TRUE); pkgs = foo = lapply(pkgs, function(x) build_binary_package(x, build_for_minor=FALSE, debug = FALSE, force = TRUE, platform = "${PLATFORM}"))'
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### Manual pkg builds
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# webshot2: wait for https://github.com/rstudio/r-system-requirements/pull/178
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- xvfb-run R -q -e 'options(crayon.enabled = TRUE, Ncpus = ${NCPUS}, future.globals.onReference = NULL); pkgs = c("WH", "ymd"); pkgs = setdiff(pkgs, c("biplotbootGUI", "cncaGUI", "dynBiplotGUI", "ade4TkGUI", "BlockmodelingGUI", "cncaGUI", "EventDetectGUI", "irtGUI", "KappaGUI", "magickGUI", "miniGUI", "multibiplotGUI", "TextMiningGUI", "later", "RclusTool", "Rcmdr", "RcmdrMisc", "RcmdrPlugin.aRnova", "RcmdrPlugin.BiclustGUI", "RcmdrPlugin.BWS1", "RcmdrPlugin.BWS2", "RcmdrPlugin.BWS3", "RcmdrPlugin.cpd", "RcmdrPlugin.DCCV", "RcmdrPlugin.DCE", "RcmdrPlugin.depthTools", "RcmdrPlugin.DoE", "RcmdrPlugin.EACSPIR", "RcmdrPlugin.EBM", "RcmdrPlugin.EcoVirtual", "RcmdrPlugin.Export", "RcmdrPlugin.EZR", "RcmdrPlugin.FactoMineR", "RcmdrPlugin.GWRM", "RcmdrPlugin.HH", "RcmdrPlugin.KMggplot2", "RcmdrPlugin.MA", "RcmdrPlugin.MPAStats", "RcmdrPlugin.NMBU", "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "sf", "StratigrapheR", "tcltk2", "TVMM", "uHMM", "RInno")); library(bincraftR); future::plan("${STRATEGY}", workers = ${NCPUS}, rscript_startup = quote(options(crayon.enabled = TRUE))); options(progressr.enable = TRUE); progressr::handlers(global = TRUE); progressr::handlers("cli"); foo = lapply(pkgs, function(x) build_binary_package(x, build_for_minor=FALSE, debug = FALSE, force = TRUE, platform = "${PLATFORM}"))'
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backend_options:
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kubernetes:
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### PROD-parallel
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resources:
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requests:
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memory: ${MEMORY}
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cpu: 12000m
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limits:
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memory: ${MEMORY}
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cpu: 16000m
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### PROD-sequential
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# resources:
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# requests:
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# memory: ${MEMORY}
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# cpu: 2000m
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# limits:
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# memory: 29Gi
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# cpu: 4000m
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# DEBUG
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# resources:
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# requests:
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# memory: 4Gi
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# cpu: 2000m
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# limits:
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# memory: 4Gi
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# cpu: 2000m
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nodeSelector:
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kubernetes.io/arch: "${ARCH}"
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tolerations:
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- key: "CI"
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operator: "Equal"
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value: "true"
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effect: "NoSchedule"
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