cache images

.woodpecker/build-alpine-320-amd64.yaml

@@ -31,7 +31,6 @@ steps:
     # volumes:
     #   - amd64-binaries-r-dep-cache-alpine-320:/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
@@ -41,7 +40,6 @@ steps:
       - R -q -e 'packageVersion("bincraftR")'
       # 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
@@ -49,7 +47,7 @@ steps:
       # doBy: hangs on alpine
       # later: hangs on ubuntu
       - 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('doBy', 'DoE.base', 'DoE.wrapper', 'eha', 'FrF2', 'FrF2.catlg128',  'gRain', 'gRbase', 'IDPmisc', 'MediaNews', 'pbkrtest', 'RInno',  'RVAideMemoire', 'seewave', 'SEMdeep', 'semicmprskcoxmsm', 'SemiCompRisks',  'SemiPar.depCens', 'semnar', 'sentiment.ai', 'sephora', 'sfarrow',  'sfcentral', 'sfdct', 'sfhotspot', 'sfnetworks', 'sftrack', 'sgsR',  'ShapePattern', 'shapes', 'ShapeSelectForest', 'SHAPforxgboost',  'shapviz', 'ShellChron', 'shelter', 'shiny.benchmark', 'shinybrms',  'shinyCohortBuilder', 'shinyIRT', 'ShinyItemAnalysis', 'shinyRGL',  'shinytest2', 'shrinkDSM', 'SIAmodules', 'SIGN', 'siland', 'simCAT',  'SimDesign', 'SimInf', 'SimNPH', 'simplePHENOTYPES', 'simplexreg',  'SimRDS', 'SimSurvey', 'simulariatools', 'sirad', 'sisireg',  'sits', 'SLBDD', 'slideview', 'smartmap', 'smcryptoR', 'SMDIC',  'smile', 'SMITIDstruct', 'smlmkalman', 'smoothAPC', 'smosr',  'snplinkage', 'sociome', 'sodium', 'SoilSaltIndex', 'spacejamr',  'SpaDES', 'SpaDES.core', 'SpaDES.tools', 'spANOVA', 'sparrpowR',  'sparseCov', 'SPARSEMODr', 'SpatGC', 'SpatGRID', 'spatialEco',  'SpatialEpi', 'SpatialfdaR', 'SpatialGraph', 'SpatialKDE', 'SpatialPosition',  'spatialreg', 'SpatialRegimes', 'SpaTopic', 'spatsurv', 'spbal',  'spDates', 'spdynmod', 'spectacles', 'spectator', 'spectralR',  'spectrino', 'Spectrum', 'speech', 'spemd', 'spex', 'spGARCH',  'sphereplot', 'sphet', 'spidR', 'spldv', 'splm', 'spm', 'spm2',  'spsur', 'spup', 'SQL', 'SQRL', 'SRTsim', 'ssdGSA', 'SSDM', 'ssfa',  'ssh', 'SSIMmap', 'SSN2', 'SSNbayes', 'SSNbler', 'sta', 'stacomiR',  'stacomirtools', 'stampr', 'stan4bart', 'stars', 'starsExtra',  'starsTileServer', 'StatDA', 'statgenMPP', 'stcos', 'stelfi',  'stepgbm', 'steprf', 'steps', 'stfit', 'stopp', 'stops', 'stpphawkes',  'stppSim', 'strand', 'stratbr', 'StratifiedRF', 'StreamMetabolism',  'streetscape', 'string2path', 'stxplore', 'SubTS', 'SubtypeDrug',  'SUNGEO', 'SurfaceTortoise', 'SurrogateRsq', 'surrosurv', 'surveyPrev',  'surveyvoi', 'survivalMPLdc', 'survSNP', 'svars', 'swaRmverse',  'swfscAirDAS', 'swfscDAS', 'SWMPrExtension', 'symbolicDA', 'symbolicQspray',  'symengine', 'SymTS', 'T4cluster', 'tabularaster', 'tailDepFun',  'track2KBA', 'trackeRapp', 'traineR', 'transformr', 'transfR',  'traveltimeR', 'trigpoints', 'tripEstimation', 'TroublemakeR',  'trtswitch', 'truh', 'TSCI', 'TUFLOWR', 'tvthemes', 'twangMediation',  'twangRDC', 'uavRmp', 'udunits2', 'ugatsdb', 'ulex', 'ultrapolaRplot',  'UnalR', 'UniprotR', 'units', 'upstartr', 'ursa', 'usdm', 'valuemap',  'VancouvR', 'vapour', 'VBLPCM', 'VC2copula', 'vein', 'versioning',  'vines', 'virtualspecies', 'virtuoso', 'visaOTR', 'visStatistics',  'visualpred', 'visvow', 'vivid', 'vmeasur', 'voi', 'vol2birdR',  'voluModel', 'vvauditor', 'wactor', 'wallace', 'warabandi', 'washr',  'WaveletMLbestFL', 'waver', 'waves', 'WCluster', 'wdnr.gis',  'wdpar', 'weatherOz', 'webglobe', 'webSDM', 'WEGE', 'weightedGCM',  'wiesbaden', 'wildlifeDI', 'windAC', 'WMAP', 'WQM', 'xgb2sql',  'xgboost', 'xrf', 'xRing', 'xslt', 'zcurve', 'zonebuilder', 'zoomerjoin' ); pkgs = setdiff(pkgs, c('RInno', 'MediaNews', 'DoE.base', 'DoE.wrapper', 'FrF2', 'FrF2.catlg128', 'eha', 'gRain', 'gRbase', 'doBy', 'IDPmisc', 'RVAideMemoire', 'pbkrtest', 'seewave')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'alpine-320'))"
+      - 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')); 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