From da55ed10a59a82004c3bb17cd66c0783f3bb2f2c Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Thu, 2 Apr 2026 12:32:21 +0200 Subject: [PATCH] gnu: r-cner: Remove custom phases, enable all tests. * gnu/packages/bioconductor.scm (r-cner)[arguments]: Remove phases 'disable-bad-tests and 'fix-gcc-14-strictness. Change-Id: I116538acce4dacad5550727dba14bb72bb8905f4 --- gnu/packages/bioconductor.scm | 23 ----------------------- 1 file changed, 23 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 2b5c7c7310..ccfc3f9e19 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -26035,29 +26035,6 @@ decompression of raw bead-level data from the Illumina BeadArray platform.") (base32 "18ii60kxr3f1rsydj29ml49gjicnciq7ypvrm1dz2rv4app0bp5j")))) (properties '((upstream-name . "CNEr"))) - (arguments - (list - #:phases - '(modify-phases %standard-phases - (add-after 'unpack 'disable-bad-tests - (lambda _ - ;; These require Internet access to download data from UCSC. - (delete-file "tests/testthat/test_Axt.R") - (substitute* "tests/testthat/test_CNE.R" - ((".*test_CNE.*" m) - (string-append m "skip('guix')\n"))))) - (add-before 'install 'fix-gcc-14-strictness - (lambda _ - ;; XXX FIXME: $HOME/.R/Makevars seems to be the only way to - ;; set custom CFLAGS for R? - (setenv "HOME" (getcwd)) - (mkdir-p ".R") - (with-directory-excursion ".R" - (with-output-to-file "Makevars" - (lambda _ - (display (string-append - "CFLAGS=-g -O2" - " -std=gnu11 \n")))))))))) (build-system r-build-system) (inputs (list zlib)) (propagated-inputs