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gnu: r-animalcules: Fix tests.

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* gnu/packages/bioconductor.scm (r-animalcules)[properties]: Record
updater-extra-native-inputs.
[arguments]: Add phase 'skip-bad-tests.
[native-inputs]: Add r-glmnet.

Change-Id: I24c6da9b6927cbf2756fb3411a5a29be19594276
This commit is contained in:
Ricardo Wurmus 2025-02-28 12:44:21 +01:00
parent 65025b9445
commit cb2f52c7ea
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GPG key ID: 197A5888235FACAC
1 changed files with 15 additions and 2 deletions
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17
gnu/packages/bioconductor.scm
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@ -4660,8 +4660,21 @@ these biases and construct statistically consistent estimators.")
(sha256
(base32
"02dbfx159b9ivlzgyhd1ikhw2ciq6q7f3b3sdq4hsp49yp6ps7nl"))))
(properties `((upstream-name . "animalcules")))
(properties
'((upstream-name . "animalcules")
(updater-extra-native-inputs . ("r-glmnet"))))
(build-system r-build-system)
(arguments
(list
#:phases
'(modify-phases %standard-phases
(add-after 'unpack 'skip-bad-tests
(lambda _
;; This test needs Internet access.
(with-directory-excursion "tests/testthat"
(substitute* "test-examples.R"
((".*find_taxonomy\\(\\) is working.*" m)
(string-append m "skip('guix')\n")))))))))
(propagated-inputs
(list r-ape
r-assertthat
@ -4694,7 +4707,7 @@ these biases and construct statistically consistent estimators.")
r-umap
r-vegan
r-xml))
(native-inputs (list r-knitr r-testthat))
(native-inputs (list r-glmnet r-knitr r-testthat))
(home-page "https://github.com/compbiomed/animalcules")
(synopsis "Interactive microbiome analysis toolkit")
(description