process updates

2024-10-21 12:42:14 +02:00 · 2024-10-21 12:42:14 +02:00 · 78b58c8592
commit 78b58c8592
parent 447e7791e5
4 changed files with 100 additions and 93 deletions
--- a/.woodpecker/build.yaml
+++ b/.woodpecker/build.yaml
@ -1,5 +1,6 @@
 when:
-  event: [manual]
+  - event: manual
+    evaluate: 'task == "build"'

 skip_clone: true

@ -73,7 +74,7 @@ matrix:
      INSTANCE_TYPE: cpx51
      STRATEGY: multisession
    - PLATFORM: alpine-320
-      BLOCK: 15901:length(pkgs)
+      BLOCK: 15:length(pkgs)
      ARCH: amd64
      NCPUS: 2
      MEMORY: 29Gi
--- a/.woodpecker/process_cran_updates.yaml
+++ b/.woodpecker/process_cran_updates.yaml
@ -1,6 +1,8 @@
 when:
  - event: [cron]
    cron: process-cran-updates
+  - event: manual
+    evaluate: 'task == "process-cran-updates"'

 skip_clone: true

@ -10,52 +12,54 @@ depends_on:
 matrix:
  include:
    ### ARM
-    - PLATFORM: redhat-9
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: redhat-8
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: ubuntu-2404
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: ubuntu-2204
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    ### AMD
-    - PLATFORM: redhat-9
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: redhat-8
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: ubuntu-2404
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
+    # - PLATFORM: redhat-9
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: redhat-8
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: ubuntu-2404
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: ubuntu-2204
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # ### AMD
+    # - PLATFORM: redhat-9
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: redhat-8
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: ubuntu-2404
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
    - PLATFORM: ubuntu-2204
      ARCH: amd64
      NCPUS: 2
      MEMORY: 29Gi
      STRATEGY: multisession
-    - PLATFORM: alpine-320
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
+      INSTANCE_TYPE: cpx51
+      INTERVAL: lubridate::interval(lubridate::today() - 3, lubridate::today() - 31)
+    # - PLATFORM: alpine-320
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession

 steps:
  - name: 'Processing Updates: (${PLATFORM})'
@ -73,26 +77,24 @@ steps:
    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 /opt/R/*/lib/R/library/RPostgres /mnt/cache/R-pkgs/00LOCK-RPostgres
+      - 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
      - rm -rf /mnt/cache/R-pkgs/pkgcache/ /mnt/cache/pkgcache/ /root/.cache/R/
      - R -q -e 'pak::meta_update()'
-      - rm -rf /mnt/cache/R-pkgs/RPostgres /mnt/cache/pkgcache/R/pkgcache
-      - R -q -e 'install.packages("RPostgres", quiet = TRUE, repos = structure(c(devxy = "https://cran.devxy.io/${ARCH}/${PKGS_ID}/latest", CRAN = "https://cloud.r-project.org")))'
      - R CMD INSTALL .
      - 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]][${BLOCK}]; pkgs = setdiff(pkgs, c("Rsymphony", "PortfolioAnalytics", "ROI.plugin.symphony", "RInno", "gpuR", "BRugs", "clrng", "Rcplex", "ROI.plugin.cplex", "ROracle")); library(bincraftR); future::plan("sequential"); options(progressr.enable = TRUE); progressr::handlers("cli"); progressr::handlers(global = TRUE); options(future.globals.onReference = NULL); process_cran_updates(interval = lubridate::interval(lubridate::today() - 3, lubridate::today() - 3), platform = "${PLATFORM}", 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"))); pkgs = tools::CRAN_package_db()[[1]][${BLOCK}]; pkgs = setdiff(pkgs, c("biplotbootGUI", "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); progressr::handlers("cli"); progressr::handlers(global = TRUE); options(future.globals.onReference = NULL); process_cran_updates(interval = ${INTERVAL}, platform = "${PLATFORM}", process_updated = TRUE, process_new = TRUE)'
    backend_options:
      kubernetes:
        ### PROD
        resources:
          requests:
-            memory: 12Gi
-            cpu: 700m
+            memory: ${MEMORY}
+            cpu: 4000m
          limits:
-            memory: 14Gi
+            memory: ${MEMORY}
            cpu: 4000m
        # DEBUG
        # resources:
@ -104,6 +106,7 @@ steps:
        #     cpu: 2000m
        nodeSelector:
          kubernetes.io/arch: '${ARCH}'
+          node.kubernetes.io/instance-type: '${INSTANCE_TYPE}'
        tolerations:
          - key: 'CI'
            operator: 'Equal'
--- a/.woodpecker/warm_up_build.yaml
+++ b/.woodpecker/warm_up_build.yaml
@ -1,5 +1,6 @@
 when:
-  event: [manual]
+  - event: manual
+    evaluate: 'task == "build"'

 skip_clone: true

--- a/.woodpecker/warm_up_process_cran_updates.yaml
+++ b/.woodpecker/warm_up_process_cran_updates.yaml
@ -1,65 +1,67 @@
 when:
  - event: [cron]
    cron: process-cran-updates
+  - event: manual
+    evaluate: 'task == "process-cran-updates"'

 skip_clone: true

 matrix:
  include:
    ### ARM
-    - PLATFORM: redhat-9
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: redhat-8
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: ubuntu-2404
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: ubuntu-2204
-      ARCH: arm64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    ### AMD
-    - PLATFORM: redhat-9
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: redhat-8
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
-    - PLATFORM: ubuntu-2404
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
+    # - PLATFORM: redhat-9
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: redhat-8
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: ubuntu-2404
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: ubuntu-2204
+    #   ARCH: arm64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # ### AMD
+    # - PLATFORM: redhat-9
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: redhat-8
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
+    # - PLATFORM: ubuntu-2404
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession
    - PLATFORM: ubuntu-2204
      ARCH: amd64
      NCPUS: 2
      MEMORY: 29Gi
      STRATEGY: multisession
-    - PLATFORM: alpine-320
-      ARCH: amd64
-      NCPUS: 2
-      MEMORY: 29Gi
-      STRATEGY: multisession
+    # - PLATFORM: alpine-320
+    #   ARCH: amd64
+    #   NCPUS: 2
+    #   MEMORY: 29Gi
+    #   STRATEGY: multisession

 steps:
  - name: 'Warming up'
    image: busybox:latest
    failure: ignore
    commands:
-      - sleep 200
+      - sleep 1
      - echo "Warmed Up"

    backend_options: