clean workflow files

.woodpecker/process-updates-redhat-8-amd64.yaml

@@ -9,30 +9,6 @@ when:
 skip_clone: true
 
 steps:
-  # - name: 'Warming up'
-  #   image: busybox:latest
-  #   failure: ignore
-  #   commands:
-  #     - sleep 300
-  #     - echo "Warmed Up"
-  #   backend_options:
-  #     kubernetes:
-  #       resources:
-  #         requests:
-  #           memory: 18Gi
-  #           cpu: 3000m
-  #         limits:
-  #           memory: 18Gi
-  #           cpu: 3000m
-  #       nodeSelector:
-  #         kubernetes.io/arch: amd64
-  #         node.kubernetes.io/instance-type: AX42
-  #       tolerations:
-  #         - key: 'CI'
-  #           operator: 'Equal'
-  #           value: 'true'
-  #           effect: 'NoSchedule'
-
   - name: 'Processing Updates'
     secrets: [red_hat_dev_pw, aws_access_key_id, aws_secret_access_key, pgpass, git_ro_token, GITHUB_PAT]
     image: docker.io/devxygmbh/amd64-binaries-r-redhat-8
@@ -46,14 +22,11 @@ steps:
       PLATFORM: redhat-8
       ARCH: amd64
       NCPUS: 2
-      # MEMORY: 18Gi
       STRATEGY: sequential
-      # INSTANCE_TYPE: cpx41
       INTERVAL: lubridate::interval(lubridate::today() - 3, lubridate::today() - 3)
     # volumes:
     #   - amd64-binaries-r-dep-cache-redhat-8:/mnt/cache
     commands:
-      # download latest package version (avoid having to rebuild image every time)
       - 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 /mnt/cache/R-pkgs/00LOCK-RPostgres
       # for some reason paks pkgcache is often corrupt
@@ -62,12 +35,10 @@ steps:
       - R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git")'
       - R -q -e 'packageVersion("bincraftR")'
       - 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
       # options(future.globals.onReference = NULL): for some reason s3fs::file_delete() throws 'Error: Detected a non-exportable reference ('externalptr') in one of the globals ('FUN' of class 'function') used in the future expression' otherwise
-      - xvfb-run 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', 'redatam', 'Rsymphony', 'PortfolioAnalytics', 'ROI.plugin.symphony', 'adea', 'RInno', 'skedastic', 'RPushbullet', 'SimNPH', 'SimDesign','simCAT', 'SIAmodules', 'shinytest2', 'shinyIRT', 'ShinyItemAnalysis', 'shiny.benchmark', 'scDIFtest', 'RSP', 'ROracle', 'ROI.plugin.qpoases', 'ROI.plugin.cplex', 'RmecabKo', 'rmarchingcubes', 'RcppMeCab', 'Rcplex', 'ravetools', 'Rbeast', 'Rblpapi', 'RcppEnsmallen', 'qtkit', 'priorCON', 'prior3D', 'PerFit', 'outlierensembles', 'nomnoml', 'mxfda', 'MultBiplotR', 'mstDIF', 'mdsr', 'makepipe', 'lordif', 'KSgeneral', 'kequate', 'jstager', 'jrt', 'irtreliability', 'irtQ', 'irtpwr', 'irtawsi', 'GRShiny', 'gpuR', 'googletraffic', 'giacR', 'gamstransfer', 'aflps', 'flow', 'filters', 'faoutlier', 'equateIRT', 'EnrichIntersect', 'EFA.dimensions', 'DFIT', 'D3mirt', 'ctgdist', 'CoTiMA', 'ConvertPar', 'clrng', 'bscui', 'BifactorIndicesCalculator', 'autoFC', 'airt')); library(bincraftR); future::plan('sequential'); options(progressr.enable = TRUE); pkgs = setdiff(pkgs, c('RInno', 'MediaNews')); progressr::handlers('cli'); progressr::handlers(global = TRUE); options(future.globals.onReference = NULL); process_cran_updates(interval = $INTERVAL, platform = 'redhat-8', process_updated = TRUE, process_new = TRUE)"
+      - xvfb-run 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'))); progressr::handlers('cli'); progressr::handlers(global = TRUE); options(future.globals.onReference = NULL); bincraftR::process_cran_updates(interval = $INTERVAL, platform = 'redhat-8', process_updated = TRUE, process_new = TRUE)"
     backend_options:
       kubernetes:
-        ### PROD
         resources:
           requests:
             memory: 18Gi