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This commit is contained in:
Patrick Schratz 2024-08-30 09:48:46 +02:00
commit cf10a7c7a7
Signed by: pat-s
GPG key ID: 3C6318841EF78925
2 changed files with 11 additions and 9 deletions
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2
.woodpecker/process_cran_updates.yaml
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@ -41,7 +41,7 @@ steps:
# 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
- R -q -e 'options(crayon.enabled = TRUE, Ncpus = 4, future.globals.onReference = "error", repos = structure(c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"))); pkgs = tools::CRAN_package_db()[[1]][${BLOCK}]; pkgs = setdiff(pkgs, c("biplotbootGUI", "cncaGUI", "dynBiplotGUI", "ade4TkGUI", "BlockmodelingGUI", "cncaGUI", "EventDetectGUI", "irtGUI", "KappaGUI", "magickGUI", "miniGUI", "multibiplotGUI", "TextMiningGUI", "later", "RclusTool", "Rcmdr", "RcmdrMisc", "RcmdrPlugin.aRnova", "RcmdrPlugin.BiclustGUI", "RcmdrPlugin.BWS1", "RcmdrPlugin.BWS2", "RcmdrPlugin.BWS3", "RcmdrPlugin.cpd", "RcmdrPlugin.DCCV", "RcmdrPlugin.DCE", "RcmdrPlugin.depthTools", "RcmdrPlugin.DoE", "RcmdrPlugin.EACSPIR", "RcmdrPlugin.EBM", "RcmdrPlugin.EcoVirtual", "RcmdrPlugin.Export", "RcmdrPlugin.EZR", "RcmdrPlugin.FactoMineR", "RcmdrPlugin.GWRM", "RcmdrPlugin.HH", "RcmdrPlugin.KMggplot2", "RcmdrPlugin.MA", "RcmdrPlugin.MPAStats", "RcmdrPlugin.NMBU", "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA" , "RcmdrPlugin.WorldFlora", "sf", "StratigrapheR", "tcltk2", "TVMM", "uHMM")); library(rBinaries); future::plan("sequential"); process_cran_updates(interval = lubridate::interval(lubridate::today() - 28, lubridate::today() - 2), platform = "${PLATFORM}", process_updated = FALSE, process_new = FALSE)'
- R -q -e 'options(crayon.enabled = TRUE, Ncpus = 4, future.globals.onReference = "error", repos = structure(c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"))); pkgs = tools::CRAN_package_db()[[1]][${BLOCK}]; pkgs = setdiff(pkgs, c("biplotbootGUI", "cncaGUI", "dynBiplotGUI", "ade4TkGUI", "BlockmodelingGUI", "cncaGUI", "EventDetectGUI", "irtGUI", "KappaGUI", "magickGUI", "miniGUI", "multibiplotGUI", "TextMiningGUI", "later", "RclusTool", "Rcmdr", "RcmdrMisc", "RcmdrPlugin.aRnova", "RcmdrPlugin.BiclustGUI", "RcmdrPlugin.BWS1", "RcmdrPlugin.BWS2", "RcmdrPlugin.BWS3", "RcmdrPlugin.cpd", "RcmdrPlugin.DCCV", "RcmdrPlugin.DCE", "RcmdrPlugin.depthTools", "RcmdrPlugin.DoE", "RcmdrPlugin.EACSPIR", "RcmdrPlugin.EBM", "RcmdrPlugin.EcoVirtual", "RcmdrPlugin.Export", "RcmdrPlugin.EZR", "RcmdrPlugin.FactoMineR", "RcmdrPlugin.GWRM", "RcmdrPlugin.HH", "RcmdrPlugin.KMggplot2", "RcmdrPlugin.MA", "RcmdrPlugin.MPAStats", "RcmdrPlugin.NMBU", "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA" , "RcmdrPlugin.WorldFlora", "sf", "StratigrapheR", "tcltk2", "TVMM", "uHMM")); library(rBinaries); future::plan("sequential"); process_cran_updates(interval = lubridate::interval(lubridate::today() - 32, lubridate::today() - 2), platform = "${PLATFORM}", process_updated = FALSE, process_new = FALSE)'
backend_options:
kubernetes:
### PROD

16
R/process_cran_updates.R
View file

@ -6,8 +6,10 @@
#' @importFrom dplyr bind_rows
#' @importFrom purrr walk2
#' @examples
#' process_cran_updates(interval = lubridate::interval(lubridate::today() - 2, lubridate::today() - 20),
#' process_updated = FALSE, process_new = FALSE)
#' process_cran_updates(
#' interval = lubridate::interval(lubridate::today() - 2, lubridate::today() - 20),
#' process_updated = FALSE, process_new = FALSE
#' )
#'
#' @export
process_cran_updates <- function(
@ -30,14 +32,13 @@ process_cran_updates <- function(
updated_pkgs <- get_updated_cran_packages(interval)
new_pkgs <- get_new_cran_packages(interval)
all_pkgs <- dplyr::bind_rows(updated_pkgs, new_pkgs)
if (any(c(process_updated, process_new))) {
cli::cli_alert_success("{.fun process_cran_updates}: Updated packages:")
print(updated_pkgs)
cli::cli_alert_success("{.fun process_cran_updates}: New packages:")
print(new_pkgs)
all_pkgs <- dplyr::bind_rows(updated_pkgs, new_pkgs)
if (any(c(process_updated, process_new))) {
purrr::walk2(all_pkgs$name, all_pkgs$version, ~ {
build_binary_package(.x, .y, platform = platform)
archive_package(.x)
@ -56,6 +57,7 @@ process_cran_updates <- function(
region_name = region,
)
codename = set_codename(codename)
if (!build_for_minor) {
local_bin_dir <- sprintf("%s/arm64/%s/latest/src/contrib", local_build_root, codename)
remote_bin_dir <- sprintf("%s/arm64/%s/latest/src/contrib", bucket, codename)
@ -69,7 +71,7 @@ process_cran_updates <- function(
purrr::walk(removed_pkgs$name, ~ {
cli::cli_alert("{.fun process_cran_updates}: Removing package {.pkg {.x}} from S3.")
files_filtered <- grep(sprintf("/%s_", .x), files, value = TRUE)
if (length(files_filtered > 0)) {
if (length(files_filtered) > 0) {
s3fs::s3_file_delete(files_filtered)
cli::cli_alert_success("{.fun process_cran_updates}: Successfully removed {.pkg {basename(files_filtered)}} from S3.")
} else {