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This commit is contained in:
Patrick Schratz 2024-11-22 22:49:25 +01:00
commit e81140f1cc
Signed by: pat-s
GPG key ID: 3C6318841EF78925
10 changed files with 12 additions and 10 deletions
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.woodpecker/build-alpine-320-amd64.yaml
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.woodpecker/build-alpine-320-arm64.yaml
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.woodpecker/build-redhat-8-amd64.yaml
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.woodpecker/build-redhat-8-arm64.yaml
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@ -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

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.woodpecker/build-redhat-9-amd64.yaml
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.woodpecker/build-redhat-9-arm64.yaml
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@ -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/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); pkgs = c('adamethods', 'adaptIVPT', 'AFM', 'aIc', 'alphashape3d', 'Anthropometry', 'Apollonius', 'archeoViz', 'Arothron', 'atom4R', 'bigGP', 'bio.infer', 'BiplotGUI', 'blatr', 'BNSP', 'bpca', 'brainKCCA', 'brainR', 'BRugs', 'candisc', 'ChaosGame', 'choosepc', 'circularEV', 'ClaimsProblems', 'clintrialx', 'clrng', 'ClusROC', 'cncaGUI', 'concom', 'ConfidenceEllipse', 'ConsRank', 'ConsRankClass', 'controlfunctionIV', 'cops', 'CovTools', 'crumble', 'cubing', 'curvHDR', 'dataone', 'datapack', 'dbcsp', 'dcortools', 'dcorVS', 'deductive', 'deepgp', 'deform', 'deformula', 'degreenet', 'Delaporte', 'deldir', 'demu', 'DendSer', 'denim', 'densEstBayes', 'depcache', 'depcoeff', 'DepthProc', 'descr', 'deseats', 'desla', 'deSolve', 'detectRUNS', 'DetMCD', 'DetR', 'detrendr', 'devEMF', 'devoid', 'dexter', 'dexterMST', 'dfcomb', 'dfms', 'dfmta', 'dfphase1', 'dfsaneacc', 'dggridR', 'dglars', 'DGM', 'dgof', 'DGP4LCF', 'dgumbel', 'diagis', 'DiceDesign', 'DiceKriging', 'diceR', 'didimputation', 'DIDmultiplegtDYN', 'diffIRT', 'diffmatchpatch', 'diffobj', 'diffudist', 'DIFM', 'digest', 'DIME', 'dina', 'dipm', 'dipsaus', 'diptest', 'Dire', 'DIRECT', 'DirichletReg', 'DirStats', 'disaggregation', 'disbayes', 'disclapmix2', 'DiSCos', 'DiscreteDists', 'discretefit', 'disk.frame', 'dismo', 'dispeRse', 'distances', 'distcomp', 'distops', 'distory', 'divDyn', 'diveR', 'diversitree', 'diversityForest', 'divest', 'divo', 'dixon', 'dixonTest', 'do3PCA', 'doMPI', 'doolkit', 'dti', 'dymo', 'eDITH', 'eegkit', 'espadon', 'ETRep', 'Evomorph', 'excel.link', 'export', 'fabisearch', 'facmodTS', 'fdaPDE', 'filters', 'fingerPro', 'fitbitViz', 'fmdu', 'FPCdpca', 'fsbrain', 'gellipsoid', 'gensphere', 'geoelectrics', 'GoodFibes', 'GPGame', 'GPoM', 'gpuR', 'Greymodels', 'gyro', 'HDiR', 'hillshader', 'HUM', 'HybridMicrobiomes', 'hyper.fit', 'icosa', 'ICSClust', 'IOLS', 'ivdoctr', 'JFM', 'JSDNE', 'kernhaz', 'KernSmoothIRT', 'KeyboardSimulator', 'kml3d', 'kpcaIG', 'KSgeneral', 'lgpr', 'LSAfun', 'Maeswrap', 'maotai', 'mcauchyd', 'MDSGUI', 'MDSMap', 'MediaNews', 'metadynminer3d', 'metajam', 'mggd', 'minired', 'MLE', 'moc.gapbk', 'molaR', 'morph', 'Morpho', 'morphomap', 'MorphoTools2', 'mregions2', 'mstudentd', 'mully', 'multibiplotGUI', 'MultiscaleDTM', 'MultivariateAnalysis', 'mvhist', 'mvinfluence', 'mvmesh', 'nat', 'nat.nblast', 'nat.templatebrains', 'nesRdata', 'NGCHM', 'nltm', 'Nmix', 'nmixgof', 'nmslibR', 'nnet', 'nnlib2Rcpp', 'nnls', 'nodeSub', 'noisysbmGGM', 'noncompliance', 'nonlinearTseries', 'nonmem2rx', 'nonneg.cg', 'nonprobsvy', 'nopaco', 'norm', 'NormPsy', 'nortestARMA', 'not', 'np', 'NPBayesImputeCat', 'npcp', 'npcure', 'NPflow', 'npregfast', 'nprobust', 'npROCRegression', 'npsf', 'npsp', 'NScluster', 'nse', 'numbat', 'numberofalleles', 'Numero', 'numOSL', 'NUSS', 'nvmix', 'o2geosocial', 'o2plsda', 'obliqueRSF', 'OBsMD', 'oc', 'oce', 'OceanView', 'ocf', 'OCNet', 'odbc', 'odeGUTS', 'ODRF', 'oeli', 'oem', 'offlineChange', 'ohenery', 'ohoegdm', 'olctools', 'OncoBayes2', 'oncomsm', 'ondisc', 'oneclust', 'onehot', 'onemap', 'onion', 'onlineCOV', 'onlineforecast', 'onlinePCA', 'ontologySimilarity', 'opa', 'OpenCL', 'openCR', 'opencv', 'OpenImageR', 'OpenMx', 'openssl', 'openxlsx', 'oppr', 'Opt5PL', 'OptCirClust', 'OptGS', 'OptHedging', 'optimization', 'optiSel', 'optmatch', 'optpart', 'opusminer', 'orca', 'Orcs', 'ordinalgmifs', 'ore', 'orf', 'ORION', 'orsk', 'orthoDr', 'osc', 'oscar', 'OSFD', 'oskeyring', 'osmdata', 'osqp'); 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-9'))"
- 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); pkgs = c('bnRep', 'bootwar', 'BoundaryStats', 'bratteli', 'CAESAR.Suite', 'calendRio', 'camcorder', 'carbonate', 'Cascade', 'cdcatR', 'cdmTools', 'CEDA', 'cheem', 'christmas', 'chronochrt', 'clarabel', 'clustermole', 'CohortGenerator', 'colocr', 'colorizer', 'compositeReliabilityInNestedDesigns', 'conmet', 'conversim', 'CopSens', 'coveR2', 'coxphm', 'cropcircles', 'dartR', 'dartR.base', 'dartR.captive', 'dartR.popgen', 'dartR.sexlinked', 'dartR.sim', 'dartR.spatial', 'databraryr', 'datacleanr', 'EDCimport', 'leidenbase', 'MediaNews', 'MonoPhy', 'nesRdata', 'NGCHM', 'OpenCL', 'paleopop', 'Path.Analysis', 'Patterns', 'pcaL1', 'PCRA', 'ph2bye', 'pikchr', 'R2PPT', 'R2wd', 'Racmacs', 'RAppArmor', 'ravetools', 'Rblpapi', 'Rcatch22', 'Rcplex', 'RcppCWB', 'rdflib', 'redland', 'rFUSION', 'RInno', 'rmarchingcubes', 'RmecabKo', 'Rmpi', 'RobustPrediction', 'ROI.plugin.cplex', 'ROI.plugin.qpoases', 'ROI.plugin.symphony', 'ROracle', 'RQuantLib', 'Rsymphony', 'RWinEdt', 'shinyMixR', 'sivirep', 'spectrino', 'surveyvoi', 'taskscheduleR', 'TFM', 'theft', 'theftdlc', 'tiledb', 'traineR', 'trtswitch', 'TukeyRegion', 'ursa', 'VecDep', 'visvaR'); 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-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

2
.woodpecker/build-ubuntu-2204-amd64.yaml
View file

@ -46,7 +46,7 @@ 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/amd64/jammy/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 == 'ubuntu-2204', arch == 'amd64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('abmR', 'asremlPlus', 'assocInd', 'AST', 'atakrig', 'AtlasMaker', 'atmopt', 'atom4R', 'atpolR', 'audrex', 'audubon', 'augmentedRCBD', 'AurieLSHGaussian', 'auRoc', 'ausplotsR', 'autoEnsemble', 'autoharp', 'automap', 'autoMFA', 'AutoPipe', 'autoReg', 'autostats', 'autothresholdr', 'autoTS', 'AVGAS', 'avotrex', 'AWR.Kinesis', 'aws', 'aws.wrfsmn', 'AZIAD', 'b64', 'babette', 'BACCT', 'bacistool', 'backShift', 'badgen', 'baggr', 'baker', 'bakR', 'baldur', 'BallMapper', 'bamdit', 'bamm', 'BANAM', 'bang', 'bangladesh', 'BANOVA', 'banter', 'baorista', 'bartMachine', 'bartMachineJARs', 'bartMan', 'baRulho', 'basf', 'basifoR', 'BASiNET', 'BASiNETEntropy', 'basket', 'BasketballAnalyzeR', 'baskexact', 'basksim', 'bate', 'BAwiR', 'bayclumpr', 'Bayenet', 'bayes4psy', 'BayesCACE', 'bfw', 'BiBitR', 'BifactorIndicesCalculator', 'bigBits', 'bigGP', 'biocompute', 'biospear', 'BiplotGUI', 'blatr', 'BRugs', 'clrng', 'CoTiMA', 'deeptrafo', 'excel.link', 'FastRWeb', 'filters', 'gllvm', 'gpuR', 'highd2means', 'KeyboardSimulator', 'lgpr', 'MDSGUI', 'MediaNews', 'mixcat', 'MPCR', 'netShiny', 'nevada', 'NFCP', 'nfl4th', 'nflverse', 'NGCHM', 'NIMAA', 'nlcv', 'nlmixr2rpt', 'noaastormevents', 'NoviceDeveloperResources2', 'npcurePK', 'npi', 'nRegression', 'nucim', 'numbat', 'oceanmap', 'ondisc', 'One4All', 'onelogin', 'OpenCL', 'opencv', 'opendatatoronto', 'openmeteo', 'openVA', 'R2PPT', 'R2wd', 'ravetools', 'Rcplex', 'RcppCWB', 'rFUSION', 'RWinEdt', 'spectrino', 'taskscheduleR'); 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 = 'ubuntu-2204'))"
- xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL, repos = structure(c(devxy = 'https://cran.devxy.io/amd64/jammy/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 == 'ubuntu-2204', arch == 'amd64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('leidenbase', 'lgpr', 'MDSGUI', 'MediaNews', 'mixcat', 'MonoPhy', 'MPCR', 'netShiny', 'nevada', 'NFCP', 'nfl4th', 'nflverse', 'NGCHM', 'NIMAA', 'nlcv', 'nlmixr2rpt', 'noaastormevents', 'NoviceDeveloperResources2', 'npcurePK', 'npi', 'nRegression', 'nucim', 'numbat', 'oaqc', 'oceanmap', 'ondisc', 'One4All', 'onelogin', 'OpenCL', 'opencv', 'opendatatoronto', 'openmeteo', 'openVA', 'R2PPT', 'R2wd', 'ravetools', 'Rcatch22', 'Rcplex', 'RcppCWB', 'rFUSION', 'RInno', 'rmarchingcubes', 'RmecabKo', 'ROI.plugin.cplex', 'ROI.plugin.qpoases', 'ROI.plugin.symphony', 'ROracle', 'Rsymphony', 'RWinEdt', 'SegEnvIneq', 'skedastic', 'spectrino', 'taskscheduleR', 'theft', 'theftdlc', 'TML', 'trtswitch', 'ursa'); pkgs = setdiff(pkgs, c('RInno', 'MediaNews', 'CoTiMA', 'later')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'ubuntu-2204'))"
### 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

2
.woodpecker/build-ubuntu-2204-arm64.yaml
View file

@ -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/jammy/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 == 'ubuntu-2204', arch == 'arm64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('aIc', 'BiplotGUI', 'blatr', 'BNSP', 'BRugs', 'clrng', 'deeptrafo', 'excel.link', 'filters', 'gpuR', 'imbalanceDatRel', 'IMIFA', 'KeyboardSimulator', 'KSgeneral', 'lgpr', 'MDSGUI', 'MediaNews', 'minired', 'R2PPT', 'R2wd', 'Racmacs', 'ravetools', 'Rblpapi', 'Rcplex', 'RcppCWB', 'redatamx', 'rFUSION', 'Rmpi', 'RWinEdt', 'spectrino', 'SubTite', 'SubTS', 'sumFREGAT', 'SummaryLasso', 'sumR', 'sumSome', 'supclust', 'supercells', 'SuperExactTest', 'SuperGauss', 'SuperpixelImageSegmentation', 'SuperRanker', 'SuppDists', 'surbayes', 'sureLDA', 'SurrogateBMA', 'SurrogateRegression', 'surtvep', 'survAUC', 'survC1', 'surveil', 'SurvEval', 'surveybootstrap', 'surveygraph', 'surveysd', 'surveyvoi', 'survIDINRI', 'survidm', 'survival', 'SurvivalClusteringTree', 'survivalmodels', 'survivalREC', 'survivalROC', 'survival.svb', 'survPresmooth', 'survSNP', 'survstan', 'svd', 'svglite', 'svines', 'swatches', 'swdpwr', 'sweater', 'swephR', 'SymTS', 'taskscheduleR', 'testarguments', 'tiledb'); 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 = 'ubuntu-2204'))"
- xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL, repos = structure(c(devxy = 'https://cran.devxy.io/arm64/jammy/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 == 'ubuntu-2204', arch == 'arm64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('compositeReliabilityInNestedDesigns', 'conversim', 'coxphm', 'dartR', 'dartR.base', 'dartR.captive', 'dartR.popgen', 'dartR.sexlinked', 'diathor', 'DIFshiny', 'do3PCA', 'GeoThinneR', 'leidenbase', 'literanger', 'MediaNews', 'oaqc', 'Rcatch22', 'RcppCWB', 'rFUSION', 'RInno', 'rmarchingcubes', 'RmecabKo', 'ROI.plugin.cplex', 'ROI.plugin.qpoases', 'ROracle', 'RSP', 'RWinEdt', 'rworkflows', 'scDIFtest', 'shiny.benchmark', 'shinyIRT', 'shinytest2', 'SIAmodules', 'simCAT', 'SimNPH', 'spectrino', 'taskscheduleR', 'theft', 'theftdlc', 'tiledb', 'trtswitch', 'ursa'); 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 = 'ubuntu-2204'))"
### 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

2
.woodpecker/build-ubuntu-2404-amd64.yaml
View file

@ -46,7 +46,7 @@ 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/amd64/noble/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 == 'ubuntu-2404', arch == 'amd64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('BiplotGUI', 'blatr', 'BRugs', 'clrng', 'CoTiMA', 'deeptrafo', 'disclosuR', 'doconv', 'ecoCopula', 'Eunomia', 'excel.link', 'filters', 'gpuR', 'KeyboardSimulator', 'lgpr', 'MDSGUI', 'MediaNews', 'MPCR', 'ondisc', 'R2PPT', 'R2wd', 'ravetools', 'Rcplex', 'RcppCWB', 'rFUSION', 'RWinEdt', 'spectrino', 'taskscheduleR', 'TaxaNorm', 'verbaliseR'); 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 = 'ubuntu-2404'))"
- xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL, repos = structure(c(devxy = 'https://cran.devxy.io/amd64/noble/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 == 'ubuntu-2404', arch == 'amd64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('CoTiMA', 'later', 'leidenbase', 'lgpr', 'literanger', 'MDSGUI', 'MediaNews', 'MonoPhy', 'MPCR', 'oaqc', 'ondisc', 'R2PPT', 'R2wd', 'ravetools', 'Rcatch22', 'Rcplex', 'RcppCWB', 'rFUSION', 'RInno', 'rmarchingcubes', 'RmecabKo', 'ROI.plugin.cplex', 'ROI.plugin.qpoases', 'ROI.plugin.symphony', 'ROracle', 'Rsymphony', 'RWinEdt', 'rworkflows', 'SegEnvIneq', 'skedastic', 'spectrino', 'taskscheduleR', 'TaxaNorm', 'theft', 'theftdlc', 'trtswitch', 'ursa', 'verbaliseR'); pkgs = setdiff(pkgs, c('RInno', 'MediaNews', 'CoTiMA', 'later')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'ubuntu-2404'))"
### 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

2
.woodpecker/build-ubuntu-2404-arm64.yaml
View file

@ -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/noble/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 == 'ubuntu-2404', arch == 'arm64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('abmR', 'aIc', 'asremlPlus', 'biplotbootGUI', 'BiplotGUI', 'blatr', 'bmstdr', 'BNSP', 'BRugs', 'clrng', 'deeptrafo', 'excel.link', 'filters', 'gpuR', 'jointNmix', 'KeyboardSimulator', 'KSgeneral', 'lgpr', 'mcrPioda', 'MDSGUI', 'MediaNews', 'minired', 'PytrendsLongitudinalR', 'R2PPT', 'R2wd', 'Racmacs', 'ravetools', 'Rblpapi', 'Rcplex', 'RcppCWB', 'redatamx', 'rFUSION', 'Rmpi', 'RWinEdt', 'spectrino', 'taskscheduleR', 'tiledb', 'truh', 'TSCI'); 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 = 'ubuntu-2404'))"
- xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL, repos = structure(c(devxy = 'https://cran.devxy.io/arm64/noble/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 == 'ubuntu-2404', arch == 'arm64') |> distinct(name) |> pull(name); pkgs <- dput(cran_pkgs[cran_pkgs %nin% foo][0:300]); options(progressr.enable = TRUE); pkgs = c('BoundaryStats', 'Colossus', 'compositeReliabilityInNestedDesigns', 'conversim', 'coxphm', 'dartR', 'dartR.base', 'dartR.captive', 'dartR.popgen', 'dartR.sexlinked', 'diathor', 'DIFshiny', 'leidenbase', 'MediaNews', 'MonoPhy', 'oaqc', 'Rcatch22', 'RInno', 'rmarchingcubes', 'RmecabKo', 'ROI.plugin.cplex', 'ROI.plugin.qpoases', 'ROracle', 'RSP', 'scDIFtest', 'shiny.benchmark', 'shinyIRT', 'shinytest2', 'SIAmodules', 'simCAT', 'SimNPH', 'theft', 'theftdlc', 'trtswitch', 'ursa'); 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 = 'ubuntu-2404'))"
### 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