when: - event: manual evaluate: 'build == "all"' - event: manual evaluate: 'build == "redhat-9-arm64"' - event: manual evaluate: 'build == "all-arm64"' skip_clone: true steps: - name: 'Warming up' image: busybox:latest failure: ignore commands: - sleep 300 - echo "Warmed Up" backend_options: kubernetes: resources: requests: memory: 14Gi cpu: 3000m limits: memory: 14Gi cpu: 3000m nodeSelector: kubernetes.io/arch: arm64 node.kubernetes.io/instance-type: cax31 tolerations: - key: 'CI' operator: 'Equal' value: 'true' effect: 'NoSchedule' - name: 'Build binaries' secrets: [red_hat_dev_pw, aws_access_key_id, aws_secret_access_key, pgpass, git_ro_token, GITHUB_PAT] image: docker.io/devxygmbh/arm64-binaries-r-redhat-9 pull: true # to ensure the PACKAGES upload step is being executed failure: ignore environment: GIT_USER: pat-s # set the location of the 'pkgcache' cache dir which persists the R package dependencies needed to install the packages themselves R_PKG_CACHE_DIR: /mnt/cache/pkgcache R_LIBS_USER: /mnt/cache/R-pkgs CCACHE_DIR: /mnt/cache/ccache PLATFORM: redhat-9 BLOCK: 20615:length(pkgs) ARCH: arm64 NCPUS: 2 MEMORY: 14Gi INSTANCE_TYPE: cax31 STRATEGY: multisession volumes: - arm64-binaries-r-dep-cache-redhat-9:/mnt/cache commands: # download latest package version (avoid having to rebuild image every time) # rscript_startup arg: required to pass down global option to future workers https://github.com/HenrikBengtsson/future/issues/134#issuecomment-2245666169 - git clone https://pat-s:$$git_ro_token@git.devxy.io/devxy/r-pkg-binaries.git . - rm -rf /mnt/cache/R-pkgs/00LOCK-r-pkg-binaries /mnt/cache/R-pkgs/00LOCK-bincraftR # for some reason paks pkgcache is often corrupt - rm -rf /mnt/cache/R-pkgs/pkgcache/ /mnt/cache/pkgcache/ /root/.cache/R/ - R -q -e 'pak::meta_update()' - R CMD INSTALL . # more complicated system dependencies which pak cannot resolve - mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages # 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 ### Check # - Rsymphony/ROI.plugin.symphony/adea/PortfolioAnalytics -> can't install/link external SYMPHONY lib (only on RHEL, as for others syslib exists) # - Rglpk # biplotbootGUI: somehow ubuntu still hangs even when using xvfb-run - xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL, repos = structure(c(devxy = 'https://cran.devxy.io/arm64/rhel9/latest', CRAN = 'https://cloud.r-project.org'))); library(dplyr); library(bincraftR); cran_pkgs = tools::CRAN_package_db()[['Package']]; '%nin%' <- Negate('%in%'); foo = query_metadata_table() |> filter(platform == 'redhat-9', arch == 'arm64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, build_for_minor=FALSE, debug = FALSE, force = TRUE, platform = 'redhat-9'))" ### Manual pkg builds # webshot2, tabledown, TestAnaAPP, trekcolors, Spectran, SimNPH, RPushbullet, SimDesign, simCAT, SIAmodules, shinytest2, ShinyItemAnalysis, shinyIRT, shiny.benchmark, scDIFtest, RSP, qtkit, PROsetta, prettifyAddins, PerFit, outlierensembles, nomnoml, mxfda, MultBiplotR, mstDIF, mdsr, makepipe, lordif, kequate, jstager, jrt, irtreliability, irtQ, irtpwr, irtGUI, irtawsi, GRShiny, GPCMlasso, googletraffic, giacR, flps, flow, faoutlier, equateIRT, EnrichIntersect, EFA.dimensions, DFIT, D3mirt, ctgdist, CoTiMA, ConvertPar, bscui, BifactorIndicesCalculator, autoFC, airt: wait for https://github.com/rstudio/r-system-requirements/pull/178 # RInno: Windows-only # skedastic: waiting for ROI.plugin.qpoases (https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1) # rswipl: ccache issues: https://github.com/mgondan/rswipl/issues/3 -> solved # Rpoppler: https://github.com/rstudio/r-system-requirements/pull/179/ # ROracle: sysdep missing -> create rule # ROI.plugin.qpoases: https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1 # ROI.plugin.cplex: checking for cplex... no -> requires propriatary software IBM Cplex # RmecabKo: fatal error: mecab.h: No such file or directory # rmarchingcubes: error: narrowing conversion of '-1' from 'int' to 'char' [-Wnarrowing] -> https://github.com/shwilks/rmarchingcubes/issues/3 # RcppMeCab: /bin/bash: line 2: mecab-config: command not found -> https://github.com/rstudio/r-system-requirements/pull/180 # Rcplex: checking for cplex... no -> requires propriatary software IBM Cplex # Rblpapi: Unknown architecture: aarch64. Exiting. -> https://github.com/Rblp/Rblpapi/issues/399 # Rbeast: aarch64 issue -> https://github.com/zhaokg/Rbeast/issues/29 # ravetools: checking for FFTW... configure: error: Package requirements (fftw3) were not met: -> fftw3 rule needed # Racmacs -> rmarchingcubes # minic: /usr/include/c++/13/bits/stl_algo.h:5805:5: note: template argument deduction/substitution failed: # KSgeneral -> aligned_mem.h:6:10: fatal error: mm_malloc.h: No such file or directory -> https://github.com/d-dimitrova/KSgeneral/issues/1 # gpuR -> /usr/bin/ld: cannot find -lOpenCL: No such file or directory -> no GPU avail # clrng -> gpuR # BRugs: configure: error: OpenBUGS 3.2.2 or later not found. as it is only one package, not doing anything # gamstransfer -> gdx/src/gdlib/gmsstrm.cpp:85:70: error: narrowing conversion of '-1' from 'std::char_traits::int_type' {aka 'int'} to 'char' [-Wnarrowing] -> https://github.com/GAMS-dev/transfer-r/issues/2 # filters: -> email sent # magickGUI, biplotbootGUI # ymd (alpine, voi) # tfrmtbuilder -> V8 (alpine) # Rcmdr (alpine) # readstata13 (alpine) # - xvfb-run R -q -e 'options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pkgs = c( "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "streamDAG", "stan4bart", "snplinkage", "saeHB.panel.beta", "rTwig", "rswipl", "RPointCloud", "rPDBapi", "rolog", "rmcfs", "rjags", "ResultModelManager", "RcppCWB", "RcmdrPlugin.WorldFlora", "RcmdrPlugin.UCA", "RcmdrPlugin.temis", "RcmdrPlugin.TeachStat", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.survival", "RcmdrPlugin.sos", "RcmdrPlugin.ROC", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.PcaRobust", "RclusTool", "Rbeast", "rayrender", "quanteda.textmodels", "polmineR", "plotBart", "NlinTS", "ndtv", "overtureR", "mathml", "magickGUI", "lgpr", "KappaGUI", "historicalborrow", "GSODR", "GRIDCOPULA", "googleAnalyticsR", "fluidsynth", "EventDetectGUI", "evalITR", "EBcoBART", "deeptrafo", "dbarts", "CRE", "countSTAR", "bartMan", "bartCause", "altmeta", "EthSEQ", "dartR.spatial", "dartR.sim", "gwid", "Mega2R", "priorCON", "prior3D", "MCARtest", "designmatch", "highs", "ROI.plugin.highs", "GPCMlasso"); library(bincraftR); options(progressr.enable = TRUE); foo = lapply(pkgs, function(x) build_binary_package(x, build_for_minor=FALSE, debug = FALSE, force = TRUE, platform = "arm64"))' backend_options: kubernetes: ### PROD-parallel resources: requests: memory: 14Gi cpu: 3000m limits: memory: 14Gi cpu: 3000m ### PROD-sequential # resources: # requests: # memory: 14Gi # cpu: 2000m # limits: # memory: 14Gi # cpu: 3000m # DEBUG # resources: # requests: # memory: 4Gi # cpu: 2000m # limits: # memory: 4Gi # cpu: 2000m nodeSelector: kubernetes.io/arch: arm64 node.kubernetes.io/instance-type: cax31 tolerations: - key: 'CI' operator: 'Equal' value: 'true' effect: 'NoSchedule'