build

.woodpecker/build-redhat-8-arm64.yaml

@@ -70,7 +70,7 @@ steps:
       # - 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/rhel8/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-8', arch == 'arm64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('adamethods', 'adaptIVPT', 'adass', 'adelie', 'AFM', 'AgroReg',  'aIc', 'alphashape3d', 'amadeus', 'ANOVAShiny', 'ANOVAShiny2',  'Anthropometry', 'Apollonius', 'appeears', 'archeoViz', 'archive',  'aroma.core', 'Arothron', 'atable', 'atom4R', 'autoMFA', 'babelmixr2',  'BAwiR', 'bcROCsurface', 'bfsMaps', 'bigGP', 'bigrquerystorage',  'biplotbootGUI', 'BiplotGUI', 'bivpois', 'blatr', 'bltm', 'bpca',  'bRacatus', 'brainKCCA', 'brainR', 'bratteli', 'BRugs', 'CAESAR.Suite',  'calendRio', 'camcorder', 'candisc', 'catfun', 'cauchypca', 'CCd',  'Certara.R', 'ChaosGame', 'cheem', 'choosepc', 'circularEV',  'ClaimsProblems', 'clrng', 'ClusROC', 'ClusTCR2', 'clusterMI',  'ClusterStability', 'cncaGUI', 'cols', 'CompositionalML', 'CompositionalRF',  'concom', 'condor', 'ConfidenceEllipse', 'ConsRank', 'ConsRankClass',  'controlfunctionIV', 'cops', 'corrfuns', 'CovTools', 'CPC', 'cpmr',  'cppcontainers', 'cpss', 'CptNonPar', 'crumble', 'crwbmetareg',  'cryptography', 'cubing', 'curvHDR', 'D3mirt', 'dataone', 'datapack',  'dataspice', 'dbcsp', 'dcortools', 'dcorVS', 'deepMOU', 'DescrTab2',  'DescToolsAddIns', 'DGEAR', 'DIDmultiplegtDYN', 'do3PCA', 'doMPI',  'doolkit', 'DrDimont', 'drugprepr', 'dymo', 'DynForest', 'EasyDescribe',  'ecocomDP', 'eDITH', 'eegkit', 'emstreeR', 'epifitter', 'epilogi',  'EQUALrepeat', 'EQUALSTATS', 'esback', 'eSDM', 'eseis', 'eselect',  'esmisc', 'espadon', 'ETASbootstrap', 'etree', 'ETRep', 'Euclimatch',  'Eunomia', 'eurocordexr', 'evapoRe', 'EvidenceSynthesis', 'Evomorph',  'exactextractr', 'excel.link', 'export', 'expowo', 'ExtractTrainData',  'ExtremalDep', 'ExtremeRisks', 'FaaSr', 'fabisearch', 'facmodTS',  'factset.protobuf.stach.v2', 'fangs', 'fasterize', 'fastFMM',  'FastRWeb', 'fcl', 'fdaPDE', 'FIESTA', 'FIESTAutils', 'filters',  'finch', 'fingerPro', 'fitbitViz', 'fitlandr', 'fluidsynth',  'fmdu', 'forestdata', 'FORTLS', 'FPCdpca', 'FreeSortR', 'frontiles',  'frscore', 'fsbrain', 'fsn', 'FTSgof', 'FuzzyImputationTest',  'gellipsoid', 'gensphere', 'geoelectrics', 'geoheatmap', 'geoidep',  'geojson', 'geojsonio', 'geomorph', 'georob', 'geppe', 'gerbil',  'ggfacto', 'ggpicrust2', 'glmtoolbox', 'GoodFibes', 'googletraffic',  'gp', 'gpg', 'GPGame', 'GPoM', 'gpuR', 'Greymodels', 'gyro',  'handwriterApp', 'handwriterRF', 'HDiR', 'hellorust', 'hermiter',  'hesim', 'heterogen', 'hetGP', 'heumilkr', 'heuristicsmineR',  'hexDensity', 'hgm', 'hhsmm', 'hibayes', 'HiClimR', 'HiddenMarkov',  'HiDimDA', 'hierarchicalSets', 'hierNet', 'highd2means', 'highfrequency',  'highlight', 'highOrderPortfolios', 'highs', 'higlasso', 'hilbert',  'hilbertSimilarity', 'hillshader', 'hint', 'hipread', 'HiResTEC',  'hisse', 'histmdl', 'historicalborrowlong', 'hitandrun', 'hive',  'hkevp', 'HLAtools', 'hlt', 'HMB', 'hmcdm', 'hmm.discnp', 'HMMEsolver',  'HMMextra0s', 'HMMmlselect', 'hmmTMB', 'hommel', 'hopit', 'hpa',  'hqreg', 'hrqglas', 'hrt', 'hSDM', 'hsphase', 'hsrecombi', 'hsstan',  'htetree', 'HTLR', 'HTT', 'httk', 'httpgd', 'httpuv', 'hubEnsembles',  'huge', 'HUM', 'humaniformat', 'humanleague', 'hunspell', 'HybridMicrobiomes',  'hydflood', 'hydrotoolbox', 'hyper2', 'hyper.fit', 'hypergeo2',  'ICSClust', 'imbalanceDatRel', 'IMIFA', 'InteRD', 'interpolation',  'IOLS', 'irtQ', 'iSTATS', 'ivdoctr', 'jack', 'JFM', 'JSDNE',  'karel', 'kDGLM', 'kernhaz', 'KernSmoothIRT', 'KeyboardSimulator',  'KMD', 'kml3d', 'KPC', 'kpcaIG', 'KSgeneral', 'lgpr', 'LipidomicsR',  'LorMe', 'LSAfun', 'Maeswrap', 'maicplus', 'maotai', 'mapping',  'mathml', 'matRiks', 'mbr', 'mcauchyd', 'mcradds', 'MDSGUI',  'MDSMap', 'MediaNews', 'mergedblocks', 'metadynminer3d', 'metaGE',  'metajam', 'meteo', 'MetSizeR', 'mfpp'); pkgs = setdiff(pkgs, c('RInno', 'MediaNews')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'redhat-8'))"
+      - xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL, repos = structure(c(devxy = 'https://cran.devxy.io/arm64/rhel8/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-8', arch == 'arm64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('excel.link', 'facmodTS', 'fastFMM', 'FIESTA', 'FIESTAutils',  'filters', 'finch', 'fitbitViz', 'fitlandr', 'forestdata', 'FORTLS',  'FPCdpca', 'frscore', 'fsbrain', 'fsn', 'FTSgof', 'FuzzyImputationTest',  'geoidep', 'geojson', 'geojsonio', 'geppe', 'gerbil', 'ggfacto',  'ggpicrust2', 'glmtoolbox', 'googletraffic', 'gp', 'gpg', 'gpuR',  'handwriterApp', 'handwriterRF', 'HDiR', 'highd2means', 'hillshader',  'HLAtools', 'hypergeo2', 'imbalanceDatRel', 'IMIFA', 'InteRD',  'interpolation', 'irtQ', 'jack', 'kDGLM', 'KeyboardSimulator',  'KMD', 'KPC', 'KSgeneral', 'lgpr', 'LipidomicsR', 'LorMe', 'mapping',  'mathml', 'matRiks', 'mbr', 'mcradds', 'MDSGUI', 'MediaNews',  'mergedblocks', 'metaGE', 'metajam', 'meteo', 'MetSizeR', 'mfpp',  'micd', 'miceRanger', 'minired', 'mixgb', 'mixpoissonreg', 'MLE',  'mlmts', 'MMOC', 'MN', 'moc.gapbk', 'modgo', 'ModTools', 'MonoPhy',  'morphomap', 'mregions2', 'multibiplotGUI', 'mvcauchy', 'mvcor',  'mvhtests', 'naive', 'nebula', 'negligible', 'neo4jshell', 'nesRdata',  'nestedcv', 'NetFACS', 'NetSci', 'nflverse', 'NGBVS', 'NGCHM',  'nlgm', 'nlmixr2', 'nlmixr2plot', 'nmrrr', 'npcurePK', 'obfuscatoR',  'OpenCL', 'parTimeROC', 'Patterns', 'pbANOVA', 'pcaL1', 'pcds.ugraph',  'pchc', 'PCRA', 'pgKDEsphere', 'phylotypr', 'phylter', 'plumberDeploy',  'PNAR', 'polyhedralCubature', 'popstudy', 'PoweREST', 'PPbigdata',  'ppsbm', 'praatpicture', 'practicalSigni', 'PRTree', 'qspray',  'qsub', 'QUALYPSO', 'R2PPT', 'R2wd', 'Racmacs', 'RandomWalker',  'RankAggSIgFUR', 'RAppArmor', 'RationalMatrix', 'ratioOfQsprays',  'ravetools', 'raymolecule', 'Rblpapi', 'Rcatch22', 'rcccd', 'rcompanion',  'rcontroll', 'Rcplex', 'RcppCWB', 'RcppMagicEnum', 'rdflib',  'Rdimtools', 'RDM', 'redland', 'regda', 'resultant', 'Rfast2',  'rFUSION', 'Riemann', 'RInno', 'rmapzen', 'rmarchingcubes', 'RmecabKo',  'Rmpi', 'robin', 'RobRegression', 'robustarima', 'ROI.plugin.cplex',  'ROI.plugin.qpoases', 'ROI.plugin.symphony', 'ROracle', 'RPatternJoin',  'RQuantLib', 'RSP', 'RSquaredMI', 'rStrava', 'Rsymphony', 'rties',  'Rtropical', 'rvMF', 'RWinEdt', 'satdad', 'scDIFtest', 'scMappR',  'segen', 'SEIRfansy', 'SelectBoost', 'SEMdeep', 'sendigR', 'seq2R',  'sevenbridges2', 'SherlockHolmes', 'shiny.benchmark', 'shinyExprPortal',  'shinyIRT', 'shinylive', 'shinyMixR', 'shinyQueryBuilder', 'shinytest2',  'shrinkTVPVAR', 'SIAmodules', 'simCAT', 'simDAG', 'SimNPH', 'smartsnp',  'smcryptoR', 'smvgraph', 'SOMMD', 'SpaCCI', 'spaceNet', 'sparseCov',  'spaths', 'spectralR', 'Spectran', 'spectrino', 'Spectrum', 'splusTimeSeries',  'spStack', 'ssh', 'SSHAARP', 'stppSim', 'surveyvoi', 'symbolicQspray',  'T4cluster', 'tabxplor', 'tame', 'taskscheduleR', 'TDAkit', 'theft',  'theftdlc', 'tidyclust', 'tiledb', 'TML', 'Toothnroll', 'TreeDimensionTest',  'triptych', 'trtswitch', 'truh', 'TSCI', 'tsmarch', 'tspredit',  'twl', 'UBayFS', 'valhallr', 'voiceR', 'vvdoctor', 'WaverideR',  'WCluster', 'webglobe', 'WRI'); pkgs = setdiff(pkgs, c('RInno', 'MediaNews')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'redhat-8'))"
       ### 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