janneke pushed a commit to branch core-packages-team-old in repository guix.
commit d45199cdd7586dc79a8a6731afb28af69b5b8a7f Author: Janneke Nieuwenhuizen <[email protected]> AuthorDate: Fri Jan 3 13:43:45 2025 +0100 gnu: r-acme: Fix build with gcc-14. * gnu/packages/bioconductor.scm (r-acme)[arguments]: New field to relax gcc-14's strictness. Change-Id: Ib71324b6ac3d475bcdd9cd4bc868acb680122eba --- gnu/packages/bioconductor.scm | 18 ++++++++++++++++++ 1 file changed, 18 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index dcce8a69ea..89e35436ef 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -14,6 +14,7 @@ ;;; Copyright © 2021 Nicolas Vallet <[email protected]> ;;; Copyright © 2023 Navid Afkhami <[email protected]> ;;; Copyright © 2024 Spencer King <[email protected]> +;;; Copyright © 2024, 2025 Janneke Nieuwenhuizen <[email protected]> ;;; ;;; This file is part of GNU Guix. ;;; @@ -22085,6 +22086,23 @@ printing and plotting @code{aCGH} objects.") "05lvljiq3wgn0xqax8nhrsfwfxkslch9fyzk8v7qdvi72j0j3g9b")))) (properties `((upstream-name . "ACME"))) (build-system r-build-system) + (arguments + (list + #:phases + #~(modify-phases %standard-phases + (add-before 'install 'relax-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" + " -Wno-error=incompatible-pointer-types\n")))))))))) (propagated-inputs (list r-biobase r-biocgenerics)) (home-page "https://bioconductor.org/packages/aCGH/";) (synopsis "Calculating microarray enrichment")
