skip upload if file does not exist locally
This commit is contained in:
parent
2fb50a9289
commit
f888e4aa86
GPG key ID:
3C6318841EF78925
2 changed files with 48 additions and 44 deletions
|
|
@ -14,47 +14,46 @@ when:
|
|||
# - PLATFORM: opensuse-155
|
||||
# PLATFORM_ID: suse155
|
||||
steps:
|
||||
- name: Build binaries
|
||||
secrets: [red_hat_dev_pw, aws_access_key_id, aws_secret_access_key, pgpass, git_ro_token]
|
||||
image: docker.io/pats22/arm-binaries-r-ubi9
|
||||
pull: true
|
||||
# to ensure the PACKAGES upload step is being executed
|
||||
failure: ignore
|
||||
environment:
|
||||
GIT_USER: pat-s
|
||||
# set the location of the 'pkgcache' cache dir which persists the R package dependencies needed to install the packages themselves
|
||||
R_PKG_CACHE_DIR: /mnt/cache/pkgcache
|
||||
R_LIBS_USER: /mnt/cache/R-pkgs
|
||||
CCACHE_DIR: /mnt/cache/ccache
|
||||
volumes:
|
||||
- arm-binaries-r-dep-cache-rhel9:/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/arm64-r-binaries.git && cd arm64-r-binaries
|
||||
- rm -rf /mnt/cache/R-pkgs/00LOCK-arm64-r-binaries
|
||||
- R -q -e 'pak::pak("dyfanjones/s3fs")'
|
||||
- R -q -e 'install.packages(".", repos = NULL, quiet = FALSE); packageVersion("rBinaries")'
|
||||
- mkdir -p /root/.R && echo -e "CXX_STD = CXX14\nCC=ccache gcc\nCPP=ccache gcc\nCXX=ccache g++\nCXX11=ccache g++\nCXX14=ccache g++\nCXX17=ccache g++\nF77=ccache /usr/bin/gfortran\nFC=ccache /usr/bin/gfortran" > /root/.R/Makevars
|
||||
# manually install some packages into the cache so that some builds don't fail
|
||||
# Hmisc -> ABCanalysis
|
||||
- R -q -e 'Sys.setenv(PKG_SYSREQS = TRUE, PKG_SYSREQS_VERBOSE = TRUE, PKG_SYSREQS_PLATFORM = "redhat-9"); pak::pak(c("Hmisc", "pls", "abd", "doRNG", "devtools"))'
|
||||
- mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/binaries /mnt/cache/ccache
|
||||
- R -q -e 'options(crayon.enabled = TRUE, Ncpus = 6, future.globals.onReference = "error"); pkgs = tools::CRAN_package_db()[[1]][26:40]; library(rBinaries); future::plan("multisession", workers = 5, rscript_startup = quote(options(crayon.enabled = TRUE))); foo = lapply(pkgs, function(x) build_binary_package(x, build_for_minor=FALSE, debug = FALSE, force = TRUE))'
|
||||
backend_options:
|
||||
kubernetes:
|
||||
resources:
|
||||
requests:
|
||||
memory: 25Gi
|
||||
cpu: 12000m
|
||||
limits:
|
||||
memory: 28Gi
|
||||
cpu: 16000m
|
||||
nodeSelector:
|
||||
kubernetes.io/arch: 'arm64'
|
||||
# - name: Sleep
|
||||
# image: alpine:3.20
|
||||
# commands: sleep 10
|
||||
# - name: Build binaries
|
||||
# secrets: [red_hat_dev_pw, aws_access_key_id, aws_secret_access_key, pgpass, git_ro_token]
|
||||
# image: docker.io/pats22/arm-binaries-r-ubi9
|
||||
# pull: true
|
||||
# # to ensure the PACKAGES upload step is being executed
|
||||
# failure: ignore
|
||||
# environment:
|
||||
# GIT_USER: pat-s
|
||||
# # set the location of the 'pkgcache' cache dir which persists the R package dependencies needed to install the packages themselves
|
||||
# R_PKG_CACHE_DIR: /mnt/cache/pkgcache
|
||||
# R_LIBS_USER: /mnt/cache/R-pkgs
|
||||
# CCACHE_DIR: /mnt/cache/ccache
|
||||
# volumes:
|
||||
# - arm-binaries-r-dep-cache-rhel9:/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/arm64-r-binaries.git && cd arm64-r-binaries
|
||||
# - rm -rf /mnt/cache/R-pkgs/00LOCK-arm64-r-binaries
|
||||
# - R -q -e 'pak::pak("dyfanjones/s3fs")'
|
||||
# - R -q -e 'pak::local_install(); packageVersion("rBinaries")'
|
||||
# - mkdir -p /root/.R && echo -e "CXX_STD = CXX14\nCC=ccache gcc\nCPP=ccache gcc\nCXX=ccache g++\nCXX11=ccache g++\nCXX14=ccache g++\nCXX17=ccache g++\nF77=ccache /usr/bin/gfortran\nFC=ccache /usr/bin/gfortran" > /root/.R/Makevars
|
||||
# # manually install some packages into the cache so that some builds don't fail
|
||||
# # Hmisc -> ABCanalysis
|
||||
# - R -q -e 'Sys.setenv(PKG_SYSREQS = TRUE, PKG_SYSREQS_VERBOSE = TRUE, PKG_SYSREQS_PLATFORM = "redhat-9"); pak::pak(c("Hmisc", "pls", "abd", "doRNG", "devtools"))'
|
||||
# # more complicated system dependencies which pak cannot resolve
|
||||
# -
|
||||
# - mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/binaries /mnt/cache/ccache
|
||||
# - R -q -e 'options(crayon.enabled = TRUE, Ncpus = 6, future.globals.onReference = "error"); pkgs = tools::CRAN_package_db()[[1]][26:40]; library(rBinaries); future::plan("multisession", workers = 5, rscript_startup = quote(options(crayon.enabled = TRUE))); foo = lapply(pkgs, function(x) build_binary_package(x, build_for_minor=FALSE, debug = FALSE, force = TRUE))'
|
||||
# backend_options:
|
||||
# kubernetes:
|
||||
# resources:
|
||||
# requests:
|
||||
# memory: 25Gi
|
||||
# cpu: 12000m
|
||||
# limits:
|
||||
# memory: 28Gi
|
||||
# cpu: 16000m
|
||||
# nodeSelector:
|
||||
# kubernetes.io/arch: 'arm64'
|
||||
- name: Upload PACKAGES files
|
||||
secrets: [red_hat_dev_pw, aws_access_key_id, aws_secret_access_key, pgpass, git_ro_token]
|
||||
image: docker.io/pats22/arm-binaries-r-ubi9
|
||||
|
|
@ -70,17 +69,17 @@ steps:
|
|||
# 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/arm64-r-binaries.git && cd arm64-r-binaries
|
||||
- R -q -e 'install.packages(".", repos = NULL, quiet = TRUE); packageVersion("rBinaries")'
|
||||
- R -q -e 'pak::local_install(); packageVersion("rBinaries")'
|
||||
- R -q -e 'options(crayon.enabled = TRUE); library(rBinaries); upload_package_index()'
|
||||
- R -q -e 'files = list.files("/mnt/cache/binaries/", include.dirs = FALSE, full.names = TRUE, recursive = TRUE); foo = file.remove(files)'
|
||||
backend_options:
|
||||
kubernetes:
|
||||
resources:
|
||||
requests:
|
||||
memory: 300Mi
|
||||
memory: 1000Mi
|
||||
cpu: 0m
|
||||
limits:
|
||||
memory: 500Mi
|
||||
memory: 1300Mi
|
||||
cpu: 1000m
|
||||
nodeSelector:
|
||||
kubernetes.io/arch: 'arm64'
|
||||
|
|
|
|||
|
|
@ -19,6 +19,11 @@ upload_single_binary_to_s3 <- function(
|
|||
local_bin_path <- set_bin_path(r_minor_version, build_for_minor, local_build_root = local_build_root, codename)
|
||||
remote_bin_path <- set_bin_path(r_minor_version, build_for_minor, local_build_root = bucket, codename)
|
||||
|
||||
if (!file.exists(sprintf("%s/%s", local_bin_path, tarball_name))) {
|
||||
cli::cli_alert("{.fun upload_single_binary_to_s3}: File {.pkg {package_name}} {.field {tag}} does not exist locally - skipping upload.")
|
||||
return(TRUE)
|
||||
}
|
||||
|
||||
if (debug) {
|
||||
cli::cli_alert_warning("DEBUG: local_bin_path: {local_bin_path}")
|
||||
cli::cli_alert_warning("DEBUG: remote_bin_path: {remote_bin_path}")
|
||||
|
|
|
|||
Loading…
Reference in a new issue