account for pc/unknown identifier
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3C6318841EF78925
2 changed files with 13 additions and 6 deletions
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@ -57,7 +57,7 @@ steps:
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# more complicated system dependencies which pak cannot resolve
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- mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages
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# 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
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- R -q -e 'options(crayon.enabled = TRUE, Ncpus = ${NCPUS}, future.globals.onReference = NULL, repos = structure(c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"))); pkgs = tools::CRAN_package_db()[[1]]; pkgs = setdiff(pkgs[${BLOCK}], c("biplotbootGUI", "cncaGUI", "dynBiplotGUI", "ade4TkGUI", "BlockmodelingGUI", "cncaGUI", "EventDetectGUI", "irtGUI", "KappaGUI", "magickGUI", "miniGUI", "multibiplotGUI", "TextMiningGUI", "later", "RclusTool", "Rcmdr", "RcmdrMisc", "RcmdrPlugin.aRnova", "RcmdrPlugin.BiclustGUI", "RcmdrPlugin.BWS1", "RcmdrPlugin.BWS2", "RcmdrPlugin.BWS3", "RcmdrPlugin.cpd", "RcmdrPlugin.DCCV", "RcmdrPlugin.DCE", "RcmdrPlugin.depthTools", "RcmdrPlugin.DoE", "RcmdrPlugin.EACSPIR", "RcmdrPlugin.EBM", "RcmdrPlugin.EcoVirtual", "RcmdrPlugin.Export", "RcmdrPlugin.EZR", "RcmdrPlugin.FactoMineR", "RcmdrPlugin.GWRM", "RcmdrPlugin.HH", "RcmdrPlugin.KMggplot2", "RcmdrPlugin.MA", "RcmdrPlugin.MPAStats", "RcmdrPlugin.NMBU", "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "sf", "StratigrapheR", "tcltk2", "TVMM", "uHMM", "RInno")); library(bincraftR); future::plan("${STRATEGY}", workers = ${NCPUS}, rscript_startup = quote(options(crayon.enabled = TRUE))); foo = lapply(pkgs, function(x) build_binary_package(x, build_for_minor=FALSE, debug = TRUE, force = TRUE, platform = "${PLATFORM}"))'
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- R -q -e 'options(crayon.enabled = TRUE, Ncpus = ${NCPUS}, future.globals.onReference = NULL, repos = structure(c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"))); pkgs = tools::CRAN_package_db()[[1]]; pkgs = setdiff(pkgs[${BLOCK}], c("biplotbootGUI", "cncaGUI", "dynBiplotGUI", "ade4TkGUI", "BlockmodelingGUI", "cncaGUI", "EventDetectGUI", "irtGUI", "KappaGUI", "magickGUI", "miniGUI", "multibiplotGUI", "TextMiningGUI", "later", "RclusTool", "Rcmdr", "RcmdrMisc", "RcmdrPlugin.aRnova", "RcmdrPlugin.BiclustGUI", "RcmdrPlugin.BWS1", "RcmdrPlugin.BWS2", "RcmdrPlugin.BWS3", "RcmdrPlugin.cpd", "RcmdrPlugin.DCCV", "RcmdrPlugin.DCE", "RcmdrPlugin.depthTools", "RcmdrPlugin.DoE", "RcmdrPlugin.EACSPIR", "RcmdrPlugin.EBM", "RcmdrPlugin.EcoVirtual", "RcmdrPlugin.Export", "RcmdrPlugin.EZR", "RcmdrPlugin.FactoMineR", "RcmdrPlugin.GWRM", "RcmdrPlugin.HH", "RcmdrPlugin.KMggplot2", "RcmdrPlugin.MA", "RcmdrPlugin.MPAStats", "RcmdrPlugin.NMBU", "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "sf", "StratigrapheR", "tcltk2", "TVMM", "uHMM", "RInno")); library(bincraftR); future::plan("${STRATEGY}", workers = ${NCPUS}, rscript_startup = quote(options(crayon.enabled = TRUE))); foo = lapply(pkgs, function(x) build_binary_package(x, build_for_minor=FALSE, debug = FALSE, force = TRUE, platform = "${PLATFORM}"))'
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backend_options:
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kubernetes:
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### PROD-parallel
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@ -168,13 +168,18 @@ build_single_tag <- function(
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} else {
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cli::cli_alert("{.fun build_single_tag}: (2/3) Building package {.pkg {package_name}} with tag {.field {tag}}.")
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if (debug) {
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quiet <- FALSE
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} else {
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quiet <- TRUE
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}
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t1 <- Sys.time()
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tryCatch(
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{
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dump <- pkgbuild::build(
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path = sprintf("%s", local_clone_dir_single),
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binary = TRUE, vignettes = FALSE,
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dest_path = dir_out_bin, quiet = TRUE
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dest_path = dir_out_bin, quiet = quiet
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)
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},
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error = function(e) {
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@ -195,23 +200,25 @@ build_single_tag <- function(
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local_arch <- Sys.info()[["machine"]]
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if (grepl("arm64", local_arch) || grepl("aarch64", local_arch)) {
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arch <- "aarch64"
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whatever_id <- "unknown"
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} else if (grepl("amd64", local_arch) || grepl("x86_64", local_arch)) {
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arch <- "x86_64"
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whatever_id <- "pc"
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}
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if (!file.exists(sprintf("%s/%s_%s.tar.gz", dir_out_bin, package_name, tag))) {
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if (debug) {
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cli::cli_alert_info('{.fun build_single_tag}: Moving package from {.path {sprintf("%s/%s_%s_R_%s-unknown-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, linux_suffix)}} to {.path {sprintf("%s/%s_%s.tar.gz", dir_out_bin, package_name, tag)}}')
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cli::cli_alert_info('{.fun build_single_tag}: Moving package from {.path {sprintf("%s/%s_%s_R_%s-%s-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, whatever_id, linux_suffix)}} to {.path {sprintf("%s/%s_%s.tar.gz", dir_out_bin, package_name, tag)}}')
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}
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# double-check that file exists (some packages like https://github.com/cran/BACCO/tree/1.0-14 don't include R/ and hence don't procude a valid binary)
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if (fs::file_exists(sprintf("%s/%s_%s_R_%s-unknown-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, linux_suffix))) {
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if (fs::file_exists(sprintf("%s/%s_%s_R_%s-%s-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, whatever_id, linux_suffix))) {
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# remove _aarch64-unknown-linux-gnu/musl part in filename
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fs::file_move(
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sprintf("%s/%s_%s_R_%s-unknown-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, linux_suffix),
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sprintf("%s/%s_%s_R_%s-%s-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, whatever_id, linux_suffix),
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sprintf("%s/%s_%s.tar.gz", dir_out_bin, package_name, tag)
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)
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} else {
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cli::cli_alert_info('{.fun build_single_tag}: File for package {.pkg {package_name}} {.field {tag}} at {.path {sprintf("%s/%s_%s_R_%s-unknown-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, linux_suffix)}} does not exist - skipping.')
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cli::cli_alert_info('{.fun build_single_tag}: File for package {.pkg {package_name}} {.field {tag}} at {.path {sprintf("%s/%s_%s_R_%s-%s-linux-%s.tar.gz", dir_out_bin, package_name, tag, arch, whatever_id, linux_suffix)}} does not exist - skipping.')
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}
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} else {
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cli::cli_alert_warning('{.fun build_single_tag}: Binary {sprintf("%s_%s.tar.gz", package_name, tag)} already exists. Skipping copy.')
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