include alpine in update runs
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2 changed files with 9 additions and 9 deletions
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@ -10,7 +10,7 @@ matrix:
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- PLATFORM: redhat-8
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- PLATFORM: ubuntu-2404
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- PLATFORM: ubuntu-2204
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# - PLATFORM: alpine-320
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- PLATFORM: alpine-320
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steps:
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- name: 'Processing Updates: (${PLATFORM})'
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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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@ -29,14 +29,14 @@ steps:
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commands:
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# download latest package version (avoid having to rebuild image every time)
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- git clone https://pat-s:$$git_ro_token@git.devxy.io/devxy/arm64-r-binaries.git .
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- rm -rf /mnt/cache/R-pkgs/00LOCK-arm64-r-binaries /mnt/cache/R-pkgs/00LOCK-rBinaries
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- rm -rf /mnt/cache/R-pkgs/00LOCK-arm64-r-binaries /mnt/cache/R-pkgs/00LOCK-bincraftR
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- rm -rf /mnt/cache/R-pkgs/RPostgres /mnt/cache/pkgcache/R/pkgcache
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- R -q -e 'devtools::install(); packageVersion("rBinaries")'
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- R -q -e 'devtools::install(); packageVersion("bincraftR")'
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- mkdir -p /root/.R && /bin/bash -c 'echo -e "CXX_STD = CXX14\nCC=ccache gcc\nCPP=ccache gcc\nCXX=ccache g++\nCXX11=ccache g++\nCXX14=ccache g++\nCXX17=ccache g++\nF77=ccache /usr/bin/gfortran\nFC=ccache /usr/bin/gfortran" > /root/.R/Makevars'
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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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# options(future.globals.onReference = NULL): for some reason s3fs::file_delete() throws 'Error: Detected a non-exportable reference ('externalptr') in one of the globals ('FUN' of class 'function') used in the future expression' otherwise
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- R -q -e 'options(crayon.enabled = TRUE, Ncpus = 4, future.globals.onReference = "error", repos = structure(c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"))); pkgs = tools::CRAN_package_db()[[1]][${BLOCK}]; 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")); library(rBinaries); future::plan("sequential"); options(future.globals.onReference = NULL); process_cran_updates(interval = lubridate::interval(lubridate::today() - 2, lubridate::today() - 2), platform = "${PLATFORM}", process_updated = TRUE, process_new = TRUE)'
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- R -q -e 'options(crayon.enabled = TRUE, Ncpus = 4, future.globals.onReference = "error", repos = structure(c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"))); pkgs = tools::CRAN_package_db()[[1]][${BLOCK}]; 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")); library(bincraftR); future::plan("sequential"); options(future.globals.onReference = NULL); process_cran_updates(interval = lubridate::interval(lubridate::today() - 2, lubridate::today() - 2), platform = "${PLATFORM}", process_updated = TRUE, process_new = TRUE)'
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backend_options:
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kubernetes:
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### PROD
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@ -86,4 +86,4 @@ steps:
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cpu: 0m
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limits:
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memory: 300Mi
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cpu: 200m
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cpu: 200m
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@ -10,7 +10,7 @@ matrix:
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- PLATFORM: redhat-8
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- PLATFORM: ubuntu-2404
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- PLATFORM: ubuntu-2204
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# - PLATFORM: alpine-320
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- PLATFORM: alpine-320
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steps:
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- name: Upload PACKAGES files
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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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@ -28,10 +28,10 @@ steps:
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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/arm64-r-binaries.git .
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- rm -rf /mnt/cache/packages/*
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- R -q -e 'devtools::install(); packageVersion("rBinaries")'
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- R -q -e 'devtools::install(); packageVersion("bincraftR")'
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- R -q -e 'pak::pak(c("pat-s/desc@description-from-remote", "pat-s/cranlike@s3"))'
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- cd /mnt/cache/packages
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- R -q -e 'options(crayon.enabled = TRUE); library(rBinaries); future::plan("multisession", workers = 4); library(progressr); handlers(global = TRUE); handlers("progress"); upload_package_index()'
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- R -q -e 'options(crayon.enabled = TRUE); library(bincraftR); future::plan("multisession", workers = 4); library(progressr); handlers(global = TRUE); handlers("progress"); upload_package_index()'
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backend_options:
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kubernetes:
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resources:
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@ -67,4 +67,4 @@ steps:
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cpu: 0m
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limits:
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memory: 300Mi
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cpu: 200m
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cpu: 200m
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