janneke pushed a commit to branch core-packages-team
in repository guix.
commit 0990bd11ca3455c5e8f2f6388383c5ae775377da
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 b5465cfca4..a664f60f83 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.
;;;
@@ -22161,6 +22162,23 @@ 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")
