Author	SHA1	Message	Date
pat-s	d558e27c11	feat: R-minor-sensitive binary builds (full + iterative) (#84) ... ## Summary Builds R-minor-sensitive CRAN packages once per installed R minor version (into per-minor S3 slots `…/contrib/<x.y>/`) and everything else once into the generic slot, driven by bincraft 4.2.0's ABI classifier. Both the full and iterative pipelines are covered. ## What's in here **Detection / precompute** - `local/r-minor-helpers.R` — pure `classify_from_metadata()` (NeedsCompilation / risky `LinkingTo`) + `parse_build_args()`, with unit tests. - `local/packages-to-build.R` — adds a per-package `r_minor_sensitive` flag: cheap CRAN-metadata rules first, source download + `bincraft::needs_per_minor_recompile()` only for the ambiguous compiled subset (fail-safe to sensitive). Classified once per package, applied to all versions. **Full build** - `local/build-all.R` — passes the per-row `is_r_minor_sensitive` flag; new `--sensitive-only` mode builds just the risky subset. - `.crow/build-all-versions-{amd64,arm64}.yaml` — install-deps persists the sensitive subset; build step runs a sensitive-only pass under each non-primary `/opt/R/*` minor; new step uploads the generic index plus a per-minor index for each minor. **Iterative build** - All 14 `.crow/process-updates-*.yaml` — primary pass uses `r_minor_detection = 'classifier'`; a sensitive-only multi-R pass builds risky updates under each other minor; per-minor index upload added. **Tooling / housekeeping** - Pins bincraft `v4.1.1` → `v4.2.0` across all workflows; removes the superseded standalone `build-r-minor-sensitive-packages.yaml`. - Adds prek/pre-commit hooks (prettier, markdownlint, editorconfig-checker, yamllint, air) and applies them repo-wide; excludes the verbatim GPL `LICENSE.md` and auxiliary shell scripts. - Design + implementation docs under `docs/superpowers/`. ## Requires before merge - A `v4.2.0` git tag must be pushed on the bincraft repo (codefloe.com/rpkgs/bincraft) — the workflow install steps pin `@v4.2.0`. The full-build install-deps clones `main`, so it is unaffected. Reviewed-on: #84	2026-06-14 08:04:40 +00:00
pat-s	53da568749	refactor: single source of truth for excluded packages (#79) ... ## Summary `local/build-all.R` had a 75-name hardcoded `exclude <- c(...)` vector that had drifted from `local/excluded-packages.json` — `RcmdrPlugin.ROC` was in the R vector but missing from the JSON. `.crow/weekly-rebuild-missing-*.yaml` already reads the JSON via `jsonlite::fromJSON(...)[["package"]]`. This brings `build-all.R` in line with that pattern. Changes: - **`local/excluded-packages.json`**: add the missing `RcmdrPlugin.ROC` entry (reason `"hang"`, matching siblings). - **`local/build-all.R`**: replace the 16-line hardcoded vector with one `jsonlite::fromJSON(...)` call. - **`.crow/build-all-versions-install-deps-{amd,arm}64.yaml`**: add `jsonlite` to the install-deps `pak::pak()` list so it's available in `/mnt/cache/R-pkgs` for the build step. - **`.crow/build-all-versions-arm64.yaml`**: drop the dead base64-encoded `SKIP_PKGS` docs comment that nobody was passing as a `--var` anyway; replace with a one-line pointer to the JSON. Reviewed-on: #79	2026-06-08 08:30:19 +00:00
pat-s	8c5362b7ab	refactor: R_VERSION syntax	2026-05-27 22:36:09 +02:00
pat-s	6faa3772d1	refactor(ci): use multi-R-version images across workflows (#70) ... ## Summary - Switches all 64 `.crow/*.yaml` workflows, the `Justfile`, and the commented-out `build-all-versions-install-deps.yaml` template to the new multi-R-version container images. - Each image tag drops `-${R_VERSION}` (e.g. `build-env-alpine:3.22-4.5` → `build-env-alpine:3.22`); workflows pick an R version by calling `/opt/R/${R_VERSION}/bin/R` explicitly. - Pattern-1 workflows (hard-coded image tag) gain a single `R_VERSION:` env var per file. - Pattern-2 workflows (`build-all-versions-*`, matrix-driven) continue to receive `R_VERSION` via `crow pipeline create --var`. ## Platform → R_VERSION mapping | Platform | Image | R_VERSION | | --- | --- | --- | | alpine 3.22 / 3.23 | `build-env-alpine:3.{22,23}` | 4.5.3 | | ubuntu jammy / noble | `build-env-ubuntu:{jammy,noble}` | 4.4.3 | | redhat 8 / 9 | `build-env-redhat:{8,9}` | 4.4.3 | | redhat 10 | `build-env-redhat:10` | 4.5.3 | The `alpine-321` audit-only workflows fall back to `build-env-alpine:3.23` since no 3.21 image exists in the new scheme; the audits only query S3/CRAN, so the container OS does not affect correctness. ## Bug fixes folded in 1. All six `weekly-audit-missing-alpine-*.yaml` files were pinned to `alpine:3.23-4.5` regardless of platform. Now each one points at its own alpine image. 2. All fourteen `update-package-index-*.yaml` files were pinned to `build-env-ubuntu:noble-4.4` (or `noble-4.5` for `redhat-10-amd64`) regardless of platform. Now each one uses its own platform's image. 3. `process-updates-ubuntu-2404-{amd64,arm64}.yaml` had `R_VERSION` of `4.4` (no patch) baked into the tag. Aligned to `4.4.3`, matching the audit and rebuild counterparts. ## Smoke targets (post-merge) One workflow per shape, ready to dry-run: - `process-updates-alpine-322-amd64.yaml` - `weekly-rebuild-missing-redhat-9-amd64.yaml` - `weekly-audit-missing-ubuntu-2204-amd64.yaml` - `update-package-index-redhat-10-amd64.yaml` - `archive-missed-packages.yaml` - `build-all-versions-amd64.yaml` (with its install-deps predecessor) - `build-r-minor-sensitive-packages.yaml` ## Follow-ups (out of scope, surfaced during review) - `process-updates-redhat-10-{amd64,arm64}.yaml` set `codename = "rhel9"` in their `upload_package_index(...)` calls. Pre-existing bug — should be `"rhel10"`. The `update-package-index-redhat-10-*` counterparts already use `"rhel10"` correctly. - `update-package-index-redhat-8-amd64.yaml` is missing the `packageVersion("bincraft")` diagnostic line that every sibling file has. Pre-existing asymmetry between amd64 and arm64. ## Spec & plan - Spec: `docs/superpowers/specs/2026-05-25-multi-r-version-images-design.md` - Plan: `docs/superpowers/plans/2026-05-25-multi-r-version-images.md` Reviewed-on: #70	2026-05-26 08:51:27 +00:00
pat-s	9b27b3e650	refactor: extract build-all R one-liner into local/build-all.R ... - Load bincraft eagerly via library() to avoid lazy-load memory spike - Do bulk S3 listing upfront and pass as s3_package_cache to avoid per-package S3 calls that accumulate memory and trigger fork failures - Consolidate amd64/arm64 exclude lists into single script - Much easier to read and maintain than a YAML-embedded one-liner	2026-04-17 19:01:08 +02:00
pat-s	e47949f546	fix: remove force=TRUE to preserve error metadata tracking ... force=TRUE bypasses the error-DB filter and overwrites build metadata, causing failed packages to be retried indefinitely. Since the precompute step already filters to missing versions, force is unnecessary.	2026-04-17 18:35:59 +02:00
pat-s	a732993d2b	feat: iterate over (package, version) pairs in build-all pipeline ... Build step now reads precomputed package+version pairs and passes specific tags with force=TRUE, eliminating all per-package precondition I/O.	2026-04-17 18:22:36 +02:00
pat-s	9330bef97c	chore: adjust matrix split counts for amd64 and arm64 builds	2026-04-15 10:13:16 +02:00
pat-s	a64dea6b23	refactor: separate install-deps workflows for arch	2026-04-11 09:49:44 +02:00
pat-s	ce8d74d0eb	refactor: apply same build improvements to arm64 workflow ... Uses install-deps step, precomputed package list, weston compositor, stderr redirect, sequential plan with progress output, and unique X server numbers.	2026-04-11 09:47:04 +02:00
pat-s	688c299138	chore: redirect stderr to stdout in build commands to surface R errors	2026-04-09 23:01:40 +02:00
pat-s	dae04820f8	fix: add -- separator to xwfb-run invocations to prevent flag interception ... xwfb-run uses argparse and was consuming R's -q flag as its own argument, causing build failures.	2026-04-09 22:51:37 +02:00
pat-s	0f8d36cb51	chore: use xwfb-run conditionally for RHEL 10 support	2026-03-24 11:31:23 +01:00
pat-s	e959d9743f	refactor: migrate to backblaze	2026-03-22 00:32:03 +01:00
pat-s	50c4138aa2	chore: ignore gwlasso	2025-12-21 00:22:16 +01:00
pat-s	1ca51368f9	fix: quotes in R call	2025-12-15 18:07:04 +01:00
pat-s	2ebe7ba567	chore: only build 5 most recent releases	2025-12-13 00:10:16 +01:00
pat-s	b153d70b92	build alpine 3.23	2025-12-07 00:07:39 +01:00
pat-s	510bff292a	ci: GIT_RO_TOKEN -> REPO_RO_TOKEN	2025-10-17 14:45:07 +02:00
pat-s	5dbfe1127b	reprocess packages without history	2025-07-03 22:45:19 +02:00
pat-s	944e5f4880	make build workflow more generic	2025-06-30 11:15:45 +02:00
pat-s	15eaa91bf7	remove install-deps step for arm64 builds	2025-06-26 23:34:24 +02:00
pat-s	7454d942e0	build missing arm64 alpine	2025-06-26 23:20:18 +02:00
pat-s	ec99df2fa8	ignore pkgs	2025-06-25 23:22:01 +02:00
pat-s	30753d8871	use new postgres db and user	2025-06-25 15:53:40 +02:00
pat-s	89d903a5d1	chore: correct image for alpine322 updates	2025-06-24 21:31:32 +02:00
pat-s	441ebdf504	ignore pkgs	2025-06-22 18:42:35 +01:00
pat-s	9144833a09	ignore pkgs	2025-06-21 22:42:27 +01:00
pat-s	5bbaca801d	ignore pkgs	2025-06-20 23:19:40 +01:00
pat-s	0ec555d31d	ignore pkgs	2025-06-20 10:53:23 +01:00
pat-s	6246d79cd8	chore: ignore pkgs	2025-06-19 11:33:11 +01:00
pat-s	2668b526a5	chore: ignore ff	2025-06-18 14:37:19 +02:00
pat-s	6c499afe1c	fix: use separate yamls for arm and amd	2025-06-18 12:52:41 +02:00