CVS commit: pkgsrc/math/R-lme4

["Makoto Fujiwara" <mef%netbsd.org@localhost>]

Module Name:    pkgsrc
Committed By:   mef
Date:           Sat Jun 13 11:04:42 UTC 2026

Modified Files:
        pkgsrc/math/R-lme4: Makefile distinfo
Added Files:
        pkgsrc/math/R-lme4/patches: patch-src_Makevars

Log Message:
(math/R-lme4) Fix build against R 4.6.0


To generate a diff of this commit:
cvs rdiff -u -r1.12 -r1.13 pkgsrc/math/R-lme4/Makefile
cvs rdiff -u -r1.11 -r1.12 pkgsrc/math/R-lme4/distinfo
cvs rdiff -u -r0 -r1.1 pkgsrc/math/R-lme4/patches/patch-src_Makevars

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

Modified files:

Index: pkgsrc/math/R-lme4/Makefile
diff -u pkgsrc/math/R-lme4/Makefile:1.12 pkgsrc/math/R-lme4/Makefile:1.13
--- pkgsrc/math/R-lme4/Makefile:1.12    Sat Feb 15 04:29:47 2025
+++ pkgsrc/math/R-lme4/Makefile Sat Jun 13 11:04:42 2026
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.12 2025/02/15 04:29:47 mef Exp $
+# $NetBSD: Makefile,v 1.13 2026/06/13 11:04:42 mef Exp $
 
 R_PKGNAME=     lme4
 R_PKGVER=      1.1-36
@@ -25,6 +25,17 @@ TEST_DEPENDS+=       R-pbkrtest-[0-9]*:../../m
 
 USE_LANGUAGES= c c++
 
+.include "../../mk/bsd.prefs.mk"
+SUBST_CLASSES+=                pkglibs
+SUBST_STAGE.pkglibs=   pre-configure
+SUBST_FILES.pkglibs=   src/Makevars
+SUBST_MESSAGE.pkglibs=  Add -lexecinfo for *BSD
+.if ${OPSYS} != SunOS && ${OPSYS} != Linux
+SUBST_SED.pkglibs=      -e s,@@PKG_LIBS@@,PKG_LIBS+=-lexecinfo,
+.else
+SUBST_SED.pkglibs=      -e s,@@PKG_LIBS@@,,
+.endif
+
 .include "../../math/R/Makefile.extension"
 .include "../../devel/R-Rcpp/buildlink3.mk"
 .include "../../math/R-RcppEigen/buildlink3.mk"

Index: pkgsrc/math/R-lme4/distinfo
diff -u pkgsrc/math/R-lme4/distinfo:1.11 pkgsrc/math/R-lme4/distinfo:1.12
--- pkgsrc/math/R-lme4/distinfo:1.11    Sat Feb 15 04:29:47 2025
+++ pkgsrc/math/R-lme4/distinfo Sat Jun 13 11:04:42 2026
@@ -1,5 +1,6 @@
-$NetBSD: distinfo,v 1.11 2025/02/15 04:29:47 mef Exp $
+$NetBSD: distinfo,v 1.12 2026/06/13 11:04:42 mef Exp $
 
 BLAKE2s (R/lme4_1.1-36.tar.gz) = 8199e27c9e2265e9b802b3d786ed95a30f1ff1d0f98a19701448b7f9a92b703b
 SHA512 (R/lme4_1.1-36.tar.gz) = 7d9b6b9fca73b920a77c523bd1efaf0aca2dc7934e50e51053444f56556ac8cca0178d660affab5f1831ae22438ded2dbb49fe80812946ed8d42635ed0c3a88e
 Size (R/lme4_1.1-36.tar.gz) = 3294834 bytes
+SHA1 (patch-src_Makevars) = fd51be7db16ba4583758920a0f9523ae12ddc1e8

Added files:

Index: pkgsrc/math/R-lme4/patches/patch-src_Makevars
diff -u /dev/null pkgsrc/math/R-lme4/patches/patch-src_Makevars:1.1
--- /dev/null   Sat Jun 13 11:04:42 2026
+++ pkgsrc/math/R-lme4/patches/patch-src_Makevars       Sat Jun 13 11:04:42 2026
@@ -0,0 +1,16 @@
+$NetBSD: patch-src_Makevars,v 1.1 2026/06/13 11:04:42 mef Exp $
+
+add 
+PKG_LIBS+= -lexecinfo
+for 
+Undefined PLT symbol "backtrace_symbols"
+
+--- src/Makevars.orig  2024-10-02 06:47:22.000000000 +0900
++++ src/Makevars       2026-06-13 10:15:20.973070879 +0900
+@@ -8,5 +8,5 @@ PKG_CXXFLAGS = -DEIGEN_DONT_VECTORIZE
+ ## is bad form.  Better to learn of bugs in an impolite way than not
+ ## to learn of them.
+ PKG_CXXFLAGS = -DNDEBUG -DEIGEN_DONT_VECTORIZE
+-
++@@PKG_LIBS@@
+