when: - event: manual evaluate: 'build == "all"' - event: manual evaluate: 'build == "alpine-320-amd64"' - event: manual evaluate: 'build == "all-amd64"' skip_clone: true steps: - 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/amd64-binaries-r-alpine-320 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: alpine-320 BLOCK: 2991:2993 ARCH: amd64 NCPUS: 4 # memory: 20Gi # INSTANCE_TYPE: ccx23 STRATEGY: sequential # volumes: # - amd64-binaries-r-dep-cache-alpine-320:/mnt/cache commands: - 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::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git")' - R -q -e 'packageVersion("bincraftR")' - mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages # Windows-only: 'RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd' - R -q -e 'install.packages("pak", repos = sprintf("https://r-lib.github.io/p/pak/devel/%s/%s/%s", .Platform$pkgType, R.Version()$os, R.Version()$arch))' - xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pak::sysreqs_db_update(); pkgs = c('ABACUS', 'abmR', 'abn', 'abstr', 'abstractr', 'acdcR', 'ActCR', 'actel', 'activAnalyzer', 'actxps', 'adapt4pv', 'AdhereRViz', 'AirExposure', 'ajv', 'alcyon', 'AlleleShift', 'almanac', 'alookr', 'amadeus', 'anominate', 'AntMAN', 'APCalign', 'aPCoA', 'apisensr', 'appeears', 'AquaBEHER', 'archive', 'arcpbf', 'arealDB', 'asciicast', 'audrex', 'audubon', 'autoBagging', 'autostats', 'av', 'badgen', 'baguette', 'banter', 'bartCause', 'bartMan', 'base64', 'basemaps', 'bate', 'BayesOrdDesign', 'BayesXsrc', 'bdl', 'BED', 'BeeBDC', 'behaviorchange', 'bfboinet', 'bigGP', 'bigrquerystorage', 'biocompute', 'biopixR', 'BioPred', 'BiplotGUI', 'blackmarbler', 'blatr', 'BoolFilter', 'bpmnR', 'bRacatus', 'brickster', 'brsim', 'BRugs', 'bs4Dash', 'BSTZINB', 'C50', 'CAinterprTools', 'canadamaps', 'CaseBasedReasoning', 'CausalGPS', 'causalHyperGraph', 'causalPAF', 'cbl', 'CCd', 'cellularautomata', 'CensSpatial', 'centerline', 'CERFIT', 'Certara.RsNLME', 'cffr', 'chilemapas', 'chooseGCM', 'CIMTx', 'ClickHouseHTTP', 'clinDataReview', 'clrng', 'clustTMB', 'ClusVis', 'cmprskcoxmsm', 'cohorttools', 'colormap', 'CompositionalRF', 'concaveman', 'conmet', 'conos', 'constrainedKriging', 'conversim', 'CoTiMA', 'countSTAR', 'covalchemy', 'covid19india', 'cppcheckR', 'CRE', 'creditmodel', 'crimeutils', 'crumble', 'cshapes', 'csmpv', 'ctrdata', 'CTRing', 'd4storagehub4R', 'daff', 'dagitty', 'dagwood', 'dartR', 'dartR.base', 'dartR.captive', 'dartR.popgen', 'dartR.sexlinked', 'dartR.sim', 'dartR.spatial', 'datacleanr', 'dataone', 'datapack', 'datasetjson', 'dataspice', 'dbarts', 'dblr', 'ddml', 'DeepLearningCausal', 'dendroNetwork', 'depCensoring', 'DGP4LCF', 'DiagrammeRsvg', 'DICEM', 'diffdfs', 'diffeRenTES', 'DIFM', 'DImodelsVis', 'DIscBIO', 'disclosuR', 'DiSCos', 'disk.frame', 'dismo', 'dispeRse', 'dissever', 'diversitree', 'divraster', 'DMMF', 'do3PCA', 'DoE.wrapper', 'DominoDataR', 'doMPI', 'doolkit', 'doRedis', 'DOT', 'dots', 'DoubleML', 'doublIn', 'downscale', 'dpkg', 'DRHotNet', 'DR.SC', 'DrugSim2DR', 'DRviaSPCN', 'DSAM', 'dsims', 'dsmSearch', 'dssd', 'Dtableone', 'dtComb', 'dti', 'dtrackr', 'DWLS', 'dycdtools', 'dynamAedes', 'dynamicSDM', 'dynatopGIS', 'dynr', 'dySEM', 'DySS', 'easyNCDF', 'easySdcTable', 'EBcoBART', 'ebmc', 'ecdata', 'eCerto', 'ech', 'ecochange', 'ecocomDP', 'ecoCopula', 'econetwork', 'ecopower', 'ecospat', 'edgebundleR', 'ediblecity', 'eDITH', 'eemdARIMA', 'EEMDelm', 'EEMDlstm', 'eemdTDNN', 'EFAfactors', 'EIX', 'emailjsr', 'EmissV', 'emld', 'enerscape', 'ENMTools', 'envi', 'epicmodel', 'epidm', 'epilogi', 'epimdr2', 'EpiSemble', 'epitweetr', 'epiworldRShiny', 'epizootic', 'eSDM', 'eseis', 'espadon', 'EthSEQ', 'ETRep', 'evidence', 'evobiR', 'excel.link', 'eyetools', 'FaaSr', 'facmodTS', 'fangs', 'fanovaGraph', 'fcl', 'fdq', 'FedData', 'fgdr', 'fingerPro', 'finnts', 'fio', 'fishRman', 'florabr', 'fluidsynth', 'fmesher', 'fmf', 'forensIT', 'forestdynR', 'FORTLS', 'foundry', 'FrF2.catlg128', 'FSK2R', 'func2vis', 'galah', 'gbifdb', 'gdtools', 'GeneralisedCovarianceMeasure', 'GENLIB', 'GenoTriplo', 'geocomplexity', 'geodl', 'geodrawr', 'geofi', 'geogenr', 'geoheatmap', 'georob', 'geostan', 'GeoTox', 'GeoWeightedModel', 'geslaR', 'gfer', 'ggESDA', 'ggfacto', 'ggpattern', 'giacR', 'GISTools', 'glossa', 'gmDatabase', 'Goodreader', 'googletraffic', 'gpboost', 'GPCERF', 'gpuR', 'Greymodels', 'GRShiny', 'gsbDesign', 'gsDesign2', 'gtExtras', 'GTFSwizard', 'gto', 'gtreg', 'gwavr', 'gwid', 'GWmodel', 'gwpcormapper', 'GWSDAT', 'habtools', 'HAC', 'handwriterApp', 'handwriterRF', 'hdf5r', 'hdf5r.Extra', 'HDSpatialScan' ); pkgs = setdiff(pkgs, c('RInno', 'MediaNews', 'DoE.base', 'DoE.wrapper', 'FrF2', 'FrF2.catlg128', 'eha', 'gRain', 'gRbase', 'doBy', 'IDPmisc', 'RVAideMemoire', 'pbkrtest', 'seewave', 'RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'alpine-320'))" ### 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, debug = FALSE, force = TRUE, platform = "amd64"))' backend_options: kubernetes: resources: requests: memory: 5Gi cpu: 2000m limits: memory: 20Gi cpu: 3000m nodeSelector: kubernetes.io/arch: amd64 node.kubernetes.io/instance-type: AX42 tolerations: - key: 'CI' operator: 'Equal' value: 'true' effect: 'NoSchedule'