GH-48013: [R] Add CI job for musl (Alpine Linux) to replicate CRAN checks #48014

thisisnic · 2025-10-31T10:55:55Z

Rationale for this change

CRAN have added Alpine Linux to their additional jobs - we should make sure we can test for this on CI

What changes are included in this PR?

Add CI job for Alpine Linux

Are these changes tested?

Yeah, the CI job should pass

Are there any user-facing changes?

No

GitHub Issue: [R] Add CI job for musl (Alpine Linux) to replicate CRAN checks #48013

github-actions · 2025-10-31T10:56:19Z

⚠️ GitHub issue #48013 has been automatically assigned in GitHub to PR creator.

thisisnic · 2025-10-31T10:58:06Z

@github-actions crossbow submit test-r-alpine-linux

Testing the CI job without the nixlibs change first...

github-actions · 2025-10-31T11:00:20Z

Revision: ab2dbc9

Submitted crossbow builds: ursacomputing/crossbow @ actions-75a7216cba

Task	Status
test-r-alpine-linux

thisisnic · 2025-11-03T16:36:10Z

@github-actions crossbow submit test-r-alpine-linux

github-actions · 2025-11-03T16:37:19Z

Unable to match any tasks for `test-r-alpine-linux`
The Archery job run can be found at: https://github.com/apache/arrow/actions/runs/19041901360

thisisnic · 2025-11-03T16:53:46Z

@github-actions crossbow submit test-r-alpine-linux

github-actions · 2025-11-03T16:56:11Z

Revision: ae89e8b

Submitted crossbow builds: ursacomputing/crossbow @ actions-2bcbb2c1d0

Task	Status
test-r-alpine-linux

thisisnic · 2025-11-03T17:10:35Z

@github-actions crossbow submit test-r-alpine-linux

github-actions · 2025-11-03T17:12:51Z

Revision: 97dd549

Submitted crossbow builds: ursacomputing/crossbow @ actions-5ba8e7e3d4

Task	Status
test-r-alpine-linux

thisisnic · 2025-11-03T17:25:15Z

@github-actions crossbow submit test-r-alpine-linux

github-actions · 2025-11-03T17:30:00Z

Revision: f1daf26

Submitted crossbow builds: ursacomputing/crossbow @ actions-edaae374e2

Task	Status
test-r-alpine-linux

thisisnic · 2025-11-27T12:44:03Z

Latest failure:

/arrow/ci/scripts/r_docker_configure.sh: line 44: apt-get: command not found

So next we just need to update that script to use whatever Alpine Linux uses as a package manager

thisisnic · 2025-11-29T09:32:29Z

@github-actions crossbow submit test-r-alpine-linux

github-actions · 2025-11-29T09:34:35Z

Revision: 0e3a348

Submitted crossbow builds: ursacomputing/crossbow @ actions-c2627c1668

Task	Status
test-r-alpine-linux

thisisnic · 2025-11-29T09:39:46Z

@github-actions crossbow submit test-r-alpine-linux

github-actions · 2025-11-29T09:41:57Z

Revision: 22fadf7

Submitted crossbow builds: ursacomputing/crossbow @ actions-f5214c8c49

Task	Status
test-r-alpine-linux

thisisnic · 2025-11-29T09:52:27Z

@github-actions crossbow submit test-r-alpine-linux

github-actions · 2025-11-29T09:54:38Z

Revision: c45e0f7

Submitted crossbow builds: ursacomputing/crossbow @ actions-70688aa0b2

Task	Status
test-r-alpine-linux

thisisnic · 2025-12-17T12:07:14Z

@github-actions crossbow submit test-r-alpine-linux-cran

github-actions · 2025-12-17T12:09:34Z

Revision: b4f611c

Submitted crossbow builds: ursacomputing/crossbow @ actions-65f1d7dddc

Task	Status
test-r-alpine-linux-cran

thisisnic · 2025-12-17T14:50:37Z

~~@jonkeane So I needed to set NOT_CRAN to FALSE otherwise it runs the Python tests, not sure exactly why but will have a dig and see if I can work it out.~~

Never mind, we had some missing parentheses in one of our test scripts on CI. Good catch spotting that it shouldn't be doing that, have updated now!

thisisnic · 2025-12-17T15:14:13Z

@github-actions crossbow submit test-r-alpine-linux-cran

github-actions · 2025-12-17T15:17:47Z

Revision: 9a81605

Submitted crossbow builds: ursacomputing/crossbow @ actions-4156adbfba

Task	Status
test-r-alpine-linux-cran

bastistician · 2025-12-17T15:48:17Z

If you get a segfault when reticulate loads python then this is probably from a known numpy/openblas bug (rstudio/reticulate#1858), which you could work around by setting environment variable UV_NO_BINARY_PACKAGE=numpy.

bastistician · 2025-12-17T15:48:58Z

ci/scripts/r_test.sh

  }

-  if (!as_cran && requireNamespace('reticulate', quietly = TRUE) && reticulate::py_module_available('pyarrow')) {
+  if (!as_cran && (requireNamespace('reticulate', quietly = TRUE)) && reticulate::py_module_available('pyarrow')) {


I don't understand the added parentheses here, they shouldn't make a difference.

Hmm...they don't - I tried it locally before/after, and whatever was invoking a Python module install must have succeeded when I ran the "before" version, and so when I ran it again "after", I conflated the change in the environment (and thus no console output) with the code change working.

thisisnic · 2025-12-17T16:22:27Z

Right, we need to manually set NOT_CRAN=false because in r_test.sh if it's empty, it gets set to TRUE.

thisisnic · 2025-12-17T16:25:02Z

@github-actions crossbow submit test-r-alpine-linux-cran

github-actions · 2025-12-17T16:27:20Z

Revision: 5fa4d16

Submitted crossbow builds: ursacomputing/crossbow @ actions-bb37eb6094

Task	Status
test-r-alpine-linux-cran

…ecks (#48014) ### Rationale for this change CRAN have added Alpine Linux to their additional jobs - we should make sure we can test for this on CI ### What changes are included in this PR? Add CI job for Alpine Linux ### Are these changes tested? Yeah, the CI job should pass ### Are there any user-facing changes? No * GitHub Issue: #48013 Authored-by: Nic Crane <thisisnic@gmail.com> Signed-off-by: Nic Crane <thisisnic@gmail.com>

conbench-apache-arrow · 2025-12-24T05:24:15Z

After merging your PR, Conbench analyzed the 3 benchmarking runs that have been run so far on merge-commit 5de6aa6.

There were no benchmark performance regressions. 🎉

The full Conbench report has more details. It also includes information about 20 possible false positives for unstable benchmarks that are known to sometimes produce them.

github-actions bot added the awaiting committer review Awaiting committer review label Oct 31, 2025

thisisnic force-pushed the GH-48013_alpine branch from ab2dbc9 to 4b110a1 Compare November 3, 2025 16:26

thisisnic added 7 commits November 29, 2025 09:32

Add Alpine Linux R Dockerfile

ca514cc

Remove RE2

786095d

Add more docker CI boilerpate

a9b2fad

Add stuff to actually install Arrow

1266ee2

Add image to compose file

1f34820

Add bash

4282113

Add alpine-specific commands

0e3a348

thisisnic force-pushed the GH-48013_alpine branch from 53116cb to 0e3a348 Compare November 29, 2025 09:32

Add to system dependencies script too

22fadf7

add linux headers

c45e0f7

github-actions bot added the awaiting changes Awaiting changes label Dec 17, 2025

Don't build vignettes

b4f611c

github-actions bot added awaiting change review Awaiting change review and removed awaiting changes Awaiting changes labels Dec 17, 2025

github-actions bot added awaiting changes Awaiting changes and removed awaiting change review Awaiting change review labels Dec 17, 2025

Add missing parentheses

9a81605

github-actions bot added awaiting change review Awaiting change review and removed awaiting changes Awaiting changes labels Dec 17, 2025

bastistician reviewed Dec 17, 2025

View reviewed changes

github-actions bot added awaiting changes Awaiting changes and removed awaiting change review Awaiting change review labels Dec 17, 2025

Revert unnecessary brace and manually set 'NOT_CRAN'

5fa4d16

github-actions bot added awaiting change review Awaiting change review and removed awaiting changes Awaiting changes labels Dec 17, 2025

thisisnic merged commit 5de6aa6 into apache:main Dec 17, 2025
38 of 40 checks passed

thisisnic removed the awaiting change review Awaiting change review label Dec 17, 2025

This was referenced Dec 17, 2025

[R] Add CI job for musl (Alpine Linux) to replicate CRAN checks #48013

Closed

[R] CRAN packaging checklist for version 22.0.0.1 #48621

Open

GH-48013: [R] Add CI job for musl (Alpine Linux) to replicate CRAN checks #48014

GH-48013: [R] Add CI job for musl (Alpine Linux) to replicate CRAN checks #48014

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