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| author | Ricardo Wurmus <rekado@elephly.net> | 2024-11-29 22:41:41 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2024-12-03 16:59:59 +0100 |
| commit | 8f7196cbae1e96fdae62687a4fc661678256d983 (patch) | |
| tree | d3077ea2d8b7316411eadeeab4c0d45791eda82f /gnu/packages/bioconductor.scm | |
| parent | eb04b8ca591db81586b779a20932f7e45fdd44c0 (diff) | |
| download | guix-8f7196cbae1e96fdae62687a4fc661678256d983.tar.gz guix-8f7196cbae1e96fdae62687a4fc661678256d983.zip | |
gnu: r-rcas: Add missing inputs
* gnu/packages/bioconductor.scm (r-rcas)[native-inputs]: Add r-biocmanager.
[arguments]: Add phases 'skip-bad-tests and 'set-HOME.
Change-Id: I952ae31347776dc35cf012aaa8146f38b375957a
Diffstat (limited to 'gnu/packages/bioconductor.scm')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 17 |
1 files changed, 16 insertions, 1 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 40d3b2853e..cef8721591 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -11776,6 +11776,21 @@ the graph algorithms contained in the Boost library.") "0sg3ngb7jwh8gyhmmm7fkxn9ixj590j47rfcfdcnbbk9pwd9y07p")))) (properties `((upstream-name . "RCAS"))) (build-system r-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + (add-after 'unpack 'set-HOME + (lambda _ (setenv "HOME" "/tmp"))) + (add-after 'unpack 'skip-bad-tests + (lambda _ + ;; These tests need Internet access. + (with-directory-excursion "tests/testthat" + (substitute* "test_database_functions.R" + ((".*Testing createDB function.*" m) + (string-append m "skip('guix')\n"))) + (delete-file "test_report.R") + (delete-file "test_motif.R"))))))) (inputs (list pandoc)) (propagated-inputs (list r-biocgenerics @@ -11806,7 +11821,7 @@ the graph algorithms contained in the Boost library.") r-seqlogo r-txdbmaker)) (native-inputs - (list r-knitr r-testthat)) + (list r-biocmanager r-knitr r-testthat)) (synopsis "RNA-centric annotation system") (description "RCAS aims to be a standalone RNA-centric annotation system that provides |