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ci: fix R CMD check — rebuild stringfish against installed RcppParallel #212

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ci: fix R CMD check — rebuild stringfish against installed RcppParallel #212

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23efd34
ci: rebuild stringfish from source (RcppParallel oneTBB ABI skew)
seonghobae Aug 4, 2026
e5790d2
ci: rebuild all RcppParallel-linked packages (qs2 hit the same oneTBB…
seonghobae Aug 4, 2026
02a366b
ci: source-build stringfish before dep setup (SimDesign source builds…
seonghobae Aug 4, 2026
1da25b7
ci: pass explicit repos (R_PROFILE_USER=/dev/null blanks setup-r repo…
seonghobae Aug 4, 2026
d810009
ci: real source rebuilds via CRAN cloud (RSPM serves linux binaries f…
seonghobae Aug 4, 2026
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21 changes: 21 additions & 0 deletions .github/workflows/r.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -35,12 +35,33 @@ jobs:
r-version: release
use-public-rspm: true

# ponytail: source-build stringfish BEFORE dependency setup — packages built
# from source during install (e.g. SimDesign) load it at build time and die
# on the broken prebuilt binary (oneTBB ABI skew). Drop with the step below.
# repos= must be a real source repo: RSPM serves prebuilt Linux binaries via
# source-style URLs, so type="source" against RSPM does NOT recompile.
# repos= is explicit because R_PROFILE_USER=/dev/null blanks setup-r's repos.
- name: Source-build stringfish (RcppParallel oneTBB ABI skew)
run: >-
Rscript -e 'install.packages(c("RcppParallel", "stringfish"), type = "source",
repos = "https://cloud.r-project.org")'

- name: Set up R package dependencies
uses: r-lib/actions/setup-r-dependencies@d3c5be51b12e724e68f33216ca3c148b66d5f0b6
with:
extra-packages: any::rcmdcheck
needs: check

# ponytail: CRAN/RSPM binary skew — prebuilt binaries (stringfish, qs2, ...) lag
# RcppParallel's oneTBB update (undefined tbb::internal / tbb::task symbols).
# Rebuild everything LinkingTo RcppParallel from source so it links the installed
# copy. Drop once upstream binaries re-sync.
- name: Rebuild RcppParallel-linked packages from source (oneTBB ABI skew)
run: >-
Rscript -e 'r <- "https://cloud.r-project.org"; install.packages("RcppParallel", type = "source", repos = r);
bad <- tools::dependsOnPkgs("RcppParallel", dependencies = "LinkingTo");
if (length(bad)) install.packages(bad, type = "source", repos = r)'

- name: Run R CMD check
uses: r-lib/actions/check-r-package@6f6e5bc62fba3a704f74e7ad7ef7676c5c6a2590
with:
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