[r] No more "Last 13 lines of output:" in CI

[johnkerl]

As discussed in Slack

[eddelbuettel]

Likely redundant because of https://github.com/single-cell-data/TileDB-SOMA/blob/main/apis/r/tools/r-ci.sh#L42

[codecov-commenter]

Codecov Report

All modified and coverable lines are covered by tests ✅

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see 34 files with indirect coverage changes

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[johnkerl]

I am seeing CI output I didn't see before. This is a good thing.

[eddelbuettel]

What's the test command? Are you going through r-ci.sh which should have the value, or via R CMD ... directly?

[johnkerl]

@eddelbuettel I am seeing more output before in CI logs linked to from these PRs here in GitHub. I am happy with that fact.

[eddelbuettel]

@johnkerl I am happy you are happy but you did not answer my question to which my curious mind would still love an answer: how did you trigger the tests so that setting YML fixed?

(Longer story R also reflects env variables just for checking from a file ~/.R/check.Renviron, if it exists, so I have been contemplating having the bootstrap step during r-ci.sh run create it. For that more info hence my question.)

[johnkerl]

@eddelbuettel I don't know the answer to your question.

• Before this PR I was seeing "Last 13 lines of output" when clicking through "Checks" links on PRs in this repo
• After this PR I am seeing more output
• I changed nothing other than what you see on this PR
• That is all I know, and all I need to know

[eddelbuettel]

@johnkerl So you are saying that the test was triggered as before by cd apis/r && tools/r-ci.sh run_tests. I asked you because during the ongoing discussions around the CI fail we had brought the topic of triggering the tests differently (e.g. via a call to R CMD check .... So what this shows then is that r-ci.sh was supposed to already supply the setting but didn't. This gives me more to work with so thanks for all your continued help in finding this.