devxy/build-cran-binaries
Watch
1
0
Fork
You've already forked build-cran-binaries
 0
Code Issues 11 Pull requests Releases Activity
build-cran-binaries/.crow/build-all-versions.yaml
pat-s f3c18b6805
 refactor: migrate package installation from pak to uvr 
bincraft dropped pak in favour of uvr, so the pipelines, helper scripts
and images in this repo move with it.

- add local/uvr-install.sh as the single replacement for pak::pak(); it
  bootstraps a pinned uvr, mints a throwaway project under TMPDIR and
  runs `uvr add --no-install` + `uvr sync --library`, because `uvr add`
  refuses to run outside a project and only `sync` honours --library
- install bincraft via its Forgejo spec (forgejo::codefloe.com/rpkgs/
  bincraft@<tag>) instead of a git:: URL, keeping the git ls-remote tag
  resolution
- pass UVR_R_BIN/UVR_TARGET_LIB from install-bincraft.R so the
  per-R-minor passes target their own R and library
- replace R_PKG_CACHE_DIR with UVR_CACHE_DIR/UVR_PACKAGES_DIR on the
  persistent volume, preserving the amd64-off/arm64-on split
- drop trim_pkgcache_metadata() and its test; uvr's cache does not grow
  the way pkgcache's _metadata dir did
- let uvr install system requirements from its vendored
  r-system-requirements rules, replacing pak::sysreqs_db_update()
- migrate the shiny app image, the alpine reprex and the CRAN loading
  test; ship uvr-install.sh in the build-one image
- track the uvr pin with renovate
2026-07-31 12:16:45 +00:00

197 lines
7.4 KiB
YAML
Raw Blame History

### Manual full rebuild of all CRAN binaries for one OS/arch.
# Set the variables below in the manual-run form (or via --var on the CLI).
# `target_arch` routes the matrix; OS/OS_VERSION/R_VERSION select the platform
# image and cache volume. Placement is via the group label (rpkgs-amd64/rpkgs-arm64).
# Skip list lives in local/excluded-packages.json (read by local/build-all.R).
variables:
target_arch:
description: 'Architecture to build.'
options:
- amd64
- arm64
default: amd64
OS:
description: 'Base OS image name.'
options:
- alpine
- redhat
- ubuntu
default: alpine
OS_VERSION:
description: 'OS image tag. Must match OS (alpine: 3.24; redhat: 8/9/10; ubuntu: jammy/noble).'
options:
- '3.22'
- '3.23'
- '3.24'
- '8'
- '9'
- '10'
- 'jammy'
- 'noble'
- 'resolute'
default: '3.24'
R_VERSION:
description: 'Primary R version under /opt/R.'
options:
- 4.5.3
- 4.4.3
default: 4.5.3
when:
- event: manual
evaluate: 'target_arch == "${ARCH}"'
skip_clone: true
labels:
platform: linux/${ARCH}
group: rpkgs-${ARCH}
# Empty UVR_CACHE_DIR/UVR_PACKAGES_DIR fall back to uvr's container-local
# ~/.uvr defaults; amd64 deliberately does not persist them (as with the
# pkgcache dir it replaces), arm64 does.
matrix:
include:
- ARCH: amd64
UVR_CACHE_DIR: ''
UVR_PACKAGES_DIR: ''
SPLIT_INTO: 4
SPLIT_INDEX: 1
- ARCH: amd64
UVR_CACHE_DIR: ''
UVR_PACKAGES_DIR: ''
SPLIT_INTO: 4
SPLIT_INDEX: 2
- ARCH: amd64
UVR_CACHE_DIR: ''
UVR_PACKAGES_DIR: ''
SPLIT_INTO: 4
SPLIT_INDEX: 3
- ARCH: amd64
UVR_CACHE_DIR: ''
UVR_PACKAGES_DIR: ''
SPLIT_INTO: 4
SPLIT_INDEX: 4
- ARCH: arm64
UVR_CACHE_DIR: /mnt/cache/uvr/cache
UVR_PACKAGES_DIR: /mnt/cache/uvr/packages
SPLIT_INTO: 4
SPLIT_INDEX: 1
- ARCH: arm64
UVR_CACHE_DIR: /mnt/cache/uvr/cache
UVR_PACKAGES_DIR: /mnt/cache/uvr/packages
SPLIT_INTO: 4
SPLIT_INDEX: 2
- ARCH: arm64
UVR_CACHE_DIR: /mnt/cache/uvr/cache
UVR_PACKAGES_DIR: /mnt/cache/uvr/packages
SPLIT_INTO: 4
SPLIT_INDEX: 3
- ARCH: arm64
UVR_CACHE_DIR: /mnt/cache/uvr/cache
UVR_PACKAGES_DIR: /mnt/cache/uvr/packages
SPLIT_INTO: 4
SPLIT_INDEX: 4
depends_on:
- build-all-versions-install-deps
steps:
- name: 'Build binaries'
image: 'reg.devxy.io/rpkgs/build-env-${OS}:${OS_VERSION}'
pull: true
environment:
OTEL_R_TRACES_EXPORTER: none
OTEL_R_LOGS_EXPORTER: none
OTEL_R_METRICS_EXPORTER: none
RED_HAT_DEV_PW:
from_secret: RED_HAT_DEV_PW
B2_S3_ACCESS_KEY:
from_secret: B2_S3_ACCESS_KEY
B2_S3_SECRET_KEY:
from_secret: B2_S3_SECRET_KEY
PGPASS:
from_secret: PGPASS
REPO_RO_TOKEN:
from_secret: REPO_RO_TOKEN
GITHUB_PAT:
from_secret: GITHUB_PAT
# normal env vars
GIT_USER: pat-s
# set the location of uvr's caches, which persist the R package
# dependencies needed to install the packages themselves
UVR_CACHE_DIR: ${UVR_CACHE_DIR}
UVR_PACKAGES_DIR: ${UVR_PACKAGES_DIR}
R_LIBS_USER: /mnt/cache/R-pkgs
CCACHE_DIR: /mnt/cache/ccache
NCPUS: 2
volumes:
- ${ARCH}-binaries-r-dep-cache-${OS}-${OS_VERSION//./}:/mnt/cache
commands:
- git clone -q https://pat-s:$$REPO_RO_TOKEN@git.devxy.io/devxy/build-cran-binaries.git .
- mkdir -p /mnt/cache/uvr/cache /mnt/cache/uvr/packages /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages
# The primary pass must not rely on build-all-versions-install-deps having
# run on *this* agent: depends_on only orders the steps, but the cache
# volume is per-agent, so a job landing on an agent where install-deps did
# not run would otherwise use a stale bincraft (which resolves `platform`
# to a zero-length value and breaks every metadata query and the sysdeps
# install). Pin bincraft here, exactly like the R-minor pass below.
- rm -rf /mnt/cache/R-pkgs/00LOCK-*
- /opt/R/$R_VERSION/bin/Rscript local/install-bincraft.R
- XVFB=$(command -v xwfb-run 2>/dev/null || command -v xvfb-run); XVFB_ARGS=""; if command -v xwfb-run >/dev/null 2>&1; then dnf install -y -q weston 2>/dev/null; XVFB_ARGS="-c weston"; fi
- $XVFB $XVFB_ARGS -n $SPLIT_INDEX -- /opt/R/$R_VERSION/bin/Rscript local/build-all.R $SPLIT_INTO $SPLIT_INDEX $NCPUS 2>&1
- |
PRIMARY_MINOR=$(echo "$R_VERSION" | cut -d. -f1-2)
for RBIN in /opt/R/[0-9]*/bin/R; do
RV=$(basename "$(dirname "$(dirname "$RBIN")")")
RMINOR=$(echo "$RV" | cut -d. -f1-2)
[ "$RMINOR" = "$PRIMARY_MINOR" ] && continue
echo "=== R-minor-sensitive pass under R $RV ==="
LIB="/mnt/cache/R-pkgs-$RMINOR"
mkdir -p "$LIB"
R_LIBS_USER="$LIB" "$(dirname "$RBIN")/Rscript" local/install-bincraft.R || true
R_LIBS_USER="$LIB" $XVFB $XVFB_ARGS -n $SPLIT_INDEX -- "$(dirname "$RBIN")/Rscript" local/build-all.R --sensitive-only $SPLIT_INTO $SPLIT_INDEX $NCPUS 2>&1 || true
done
# archive missed packages; first arg is the codename (e.g. "alpine324"),
# derived via bincraft like the upload step, not paste(OS, OS_VERSION).
- /opt/R/$R_VERSION/bin/R -q -e "bincraft::process_unarchived_pkgs(bincraft::set_codename(NULL), Sys.getenv('ARCH'), s3_endpoint = 'https://s3.eu-central-003.backblazeb2.com', s3_region = 'eu-central-003', s3_bucket = 'devxy-rpkgs-binaries', s3_access_key_id = Sys.getenv('B2_S3_ACCESS_KEY'), s3_secret_access_key = Sys.getenv('B2_S3_SECRET_KEY'), workers = $NCPUS)"
backend_options:
docker:
resources:
requests:
memory: 5Gi
cpu: 1000m
limits:
memory: 20Gi
cpu: 2000m
- name: 'Upload package indexes'
image: 'reg.devxy.io/rpkgs/build-env-${OS}:${OS_VERSION}'
pull: true
environment:
OTEL_R_TRACES_EXPORTER: none
OTEL_R_LOGS_EXPORTER: none
OTEL_R_METRICS_EXPORTER: none
B2_S3_ACCESS_KEY:
from_secret: B2_S3_ACCESS_KEY
B2_S3_SECRET_KEY:
from_secret: B2_S3_SECRET_KEY
R_LIBS_USER: /mnt/cache/R-pkgs
volumes:
- ${ARCH}-binaries-r-dep-cache-${OS}-${OS_VERSION//./}:/mnt/cache
commands:
- |
CODENAME=$(/opt/R/$R_VERSION/bin/Rscript -e "cat(bincraft::set_codename(NULL))")
/opt/R/$R_VERSION/bin/R -q -e "bincraft::upload_package_index(codename = '$CODENAME', s3_endpoint = 'https://s3.eu-central-003.backblazeb2.com', s3_region = 'eu-central-003', s3_bucket = 'devxy-rpkgs-binaries', s3_access_key_id = Sys.getenv('B2_S3_ACCESS_KEY'), s3_secret_access_key = Sys.getenv('B2_S3_SECRET_KEY'))"
for RBIN in /opt/R/[0-9]*/bin/R; do
RMINOR=$(basename "$(dirname "$(dirname "$RBIN")")" | cut -d. -f1-2)
/opt/R/$R_VERSION/bin/R -q -e "bincraft::upload_package_index(codename = '$CODENAME', r_minor = '$RMINOR', s3_endpoint = 'https://s3.eu-central-003.backblazeb2.com', s3_region = 'eu-central-003', s3_bucket = 'devxy-rpkgs-binaries', s3_access_key_id = Sys.getenv('B2_S3_ACCESS_KEY'), s3_secret_access_key = Sys.getenv('B2_S3_SECRET_KEY'))" || true
done
backend_options:
docker:
resources:
requests:
memory: 5Gi
cpu: 1000m
limits:
memory: 20Gi
cpu: 2000m
Reference in a new issue View git blame Copy permalink