=> Checksum BLAKE2s OK for R-4.5.2.tar.gz => Checksum SHA512 OK for R-4.5.2.tar.gz ===> Installing dependencies for R-4.5.2 ========================================================================== The following variables will affect the build process of this package, R-4.5.2. Their current value is shown below: * CURSES_DEFAULT = ncurses * JPEG_DEFAULT = libjpeg-turbo * SSLBASE (defined) * SSLCERTBUNDLE (not defined) * SSLCERTS = /opt/pkg/etc/openssl/certs * SSLDIR = /opt/pkg/etc/openssl * SSLKEYS = /opt/pkg/etc/openssl/private Based on these variables, the following variables have been set: * CURSES_TYPE = ncurses * JPEGBASE (defined, but empty) * JPEG_TYPE = libjpeg-turbo * TERMCAP_TYPE = curses You may want to abort the process now with CTRL-C and change the value of variables in the first group before continuing. Be sure to run `/opt/pkg/bin/bmake clean' after the changes. ========================================================================== => Tool dependency glib2-tools-[0-9]*: found glib2-tools-2.86.4 => Tool dependency libtool-fortran>=2.4.2nb9: found libtool-fortran-2.4.7nb1 => Tool dependency libtool-base>=2.4.2nb9: found libtool-base-2.4.7nb1 => Tool dependency automake>=1.9: found automake-1.18 => Tool dependency autoconf>=2.58: found autoconf-2.72 => Tool dependency gmake>=3.81: found gmake-4.4.1 => Tool dependency gtar-base>=1.13.25: found gtar-base-1.35 => Tool dependency gtexinfo>=5.1: found gtexinfo-7.2nb1 => Tool dependency nbpatch-[0-9]*: found nbpatch-20151107 => Tool dependency pkgconf-[0-9]*: found pkgconf-2.5.1 => Tool dependency cwrappers>=20150314: found cwrappers-20220403 => Tool dependency checkperms>=1.1: found checkperms-1.12 => Build dependency gcc14>=14.2: found gcc14-14.2.0 => Full dependency pkg_install-info-[0-9]*: found pkg_install-info-4.5nb3 => Full dependency perl>=5.0: found perl-5.42.0nb1 => Full dependency bzip2>=1.0.5: found bzip2-1.0.8 => Full dependency cairo>=1.18.4nb3: found cairo-1.18.4nb3 => Full dependency curl>=8.18.0nb2: found curl-8.18.0nb2 => Full dependency gcc14-libs>=14.2.0: found gcc14-libs-14.2.0 => Full dependency gettext-lib>=0.22: found gettext-lib-0.22.5 => Full dependency glib2>=2.84.4nb1: found glib2-2.86.4 => Full dependency libiconv>=1.9.1nb4: found libiconv-1.18 => Full dependency libjpeg-turbo>=1.1.0: found libjpeg-turbo-3.1.3 => Full dependency pango>=1.57.0nb2: found pango-1.57.0nb2 => Full dependency pcre2>=10.47: found pcre2-10.47 => Full dependency png>=1.6.0nb1: found png-1.6.55 => Full dependency readline>=6.0: found readline-8.3nb1 => Full dependency tiff>=4.7.0nb3: found tiff-4.7.1 => Full dependency tk>=8.6.13nb1: found tk-8.6.17 => Full dependency xz>=5.0.0: found xz-5.8.2 => Full dependency zlib>=1.2.3: found zlib-1.3.1 => Build dependency xcb-proto>=1.4: found xcb-proto-1.17.0nb6 => Build dependency xorgproto>=2016.1: found xorgproto-2025.1 => Full dependency brotli>=1.0.1: found brotli-1.2.0 => Full dependency cyrus-sasl>=2.1.12: found cyrus-sasl-2.1.28nb2 => Full dependency expat>=1.95.7: found expat-2.7.4 => Full dependency fontconfig>=2.17.0: found fontconfig-2.17.1nb1 => Full dependency freetype2>=2.13.0: found freetype2-2.14.1 => Full dependency fribidi>=0.19.1: found fribidi-1.0.16 => Full dependency graphite2>=1.2: found graphite2-1.3.14nb3 => Full dependency harfbuzz>=2.1.1: found harfbuzz-12.3.2nb1 => Full dependency jbigkit>=2.0: found jbigkit-2.1nb1 => Full dependency lerc>=4.0.0: found lerc-4.0.0 => Full dependency libX11>=1.1: found libX11-1.8.13 => Full dependency libXScrnSaver>=1.1.2: found libXScrnSaver-1.2.5nb1 => Full dependency libXau>=1.0: found libXau-1.0.12 => Full dependency libXdmcp>=0.99: found libXdmcp-1.1.5 => Full dependency libXext>=0.99.0: found libXext-1.3.7 => Full dependency libXft>=2.1.10: found libXft-2.3.9 => Full dependency libXrender>=0.9.2: found libXrender-0.9.12 => Full dependency libffi>=1.20: found libffi-3.5.2 => Full dependency libidn2>=2.0.0: found libidn2-2.3.7 => Full dependency libssh2>=0.18: found libssh2-1.11.1 => Full dependency libunistring>=0.9.3: found libunistring-1.2 => Full dependency libxcb>=1.6: found libxcb-1.17.0 => Full dependency libxml2>=2.6.2: found libxml2-2.15.1 => Full dependency lzo>=2.01: found lzo-2.10 => Full dependency ncurses>=5.3nb1: found ncurses-6.6 => Full dependency nghttp2>=1.0.0: found nghttp2-1.68.0nb1 => Full dependency openldap-client>=2.4.6: found openldap-client-2.6.12 => Full dependency openssl>=3.0: found openssl-3.6.1 => Full dependency pixman>=0.40.0: found pixman-0.46.4 => Full dependency tcl>=8.5.7: found tcl-8.6.17nb1 ===> Overriding tools for R-4.5.2 ===> Extracting for R-4.5.2 /opt/pkg/bin/gtar: Ignoring unknown extended header keyword 'LIBARCHIVE.xattr.com.apple.provenance' ===> Patching for R-4.5.2 => Applying pkgsrc patches for R-4.5.2 => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-configure.ac => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-configure.ac Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-configure.ac,v 1.14 2026/02/16 23:44:02 mef Exp $ | |on NetBSD/amd64 9.4: getting | |autoreconf: running: libtoolize --copy --force |libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'tools'. |libtoolize: copying file 'tools/ltmain.sh' |libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac, | ... | ... |loading site script './config.site' |loading build-specific script './config.site' |./configure: 4429: Syntax error: Word "blas" unexpected (expecting ")") |*** Error code 2 | | |configure(s) generated are different on 10.99.12 and 9.4 |release line # |-------- ------ |10.99.12 4770 withval=$with_blas; if test "${withval}" = no; then | 9.3 4392 withval=$with_blas; R_ARG_USE(blas) | |--- configure.ac 2026-01-03 17:00:22.984847292 +0900 |+++ configure.ac 2026-01-03 17:00:22.984847292 +0900 -------------------------- Patching file configure.ac using Plan A... Hunk #1 succeeded at 33. Hunk #2 succeeded at 323 (offset 5 lines). done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_extra_xdr_xdr__mem.c => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_extra_xdr_xdr__mem.c Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_extra_xdr_xdr__mem.c,v 1.1 2025/01/20 21:26:02 he Exp $ | |Don't do the ntohl() / htonl() dance on NetBSD. | |--- ./src/extra/xdr/xdr_mem.c.orig 2025-01-20 17:36:36.874607200 +0000 |+++ ./src/extra/xdr/xdr_mem.c -------------------------- Patching file ./src/extra/xdr/xdr_mem.c using Plan A... Hunk #1 succeeded at 24. Hunk #2 succeeded at 35. done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_extra_xdr_xdr__stdio.c => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_extra_xdr_xdr__stdio.c Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_extra_xdr_xdr__stdio.c,v 1.2 2026/02/16 23:44:02 mef Exp $ | |Don't do the ntohl() / htonl() dance on NetBSD. | |--- src/extra/xdr/xdr_stdio.c.orig 2025-03-14 08:02:03.000000000 +0900 |+++ src/extra/xdr/xdr_stdio.c 2026-01-03 18:55:12.260979571 +0900 -------------------------- Patching file src/extra/xdr/xdr_stdio.c using Plan A... Hunk #1 succeeded at 44. Hunk #2 succeeded at 57. done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_include_R__ext_Error.h => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_include_R__ext_Error.h Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_include_R__ext_Error.h,v 1.5 2026/02/16 23:44:02 mef Exp $ | |Fix building with C++. | |--- src/include/R_ext/Error.h.orig 2025-04-22 07:15:01.000000000 +0900 |+++ src/include/R_ext/Error.h 2026-01-03 18:52:17.619139182 +0900 -------------------------- Patching file src/include/R_ext/Error.h using Plan A... Hunk #1 succeeded at 39. done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_library_grDevices_src_devPS.c => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_library_grDevices_src_devPS.c Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_library_grDevices_src_devPS.c,v 1.1 2026/02/16 23:44:02 mef Exp $ | |devPS.c: In function 'PDF_endfile': |devPS.c:8173:9: error: implicit declaration of function 'unlink' [-Wimplicit-function-declaration] | 8173 | unlink(pd->filename); | | ^~~~~~ |gmake[5]: *** [../../../../etc/Makeconf:202: devPS.o] Error 1 | |--- src/library/grDevices/src/devPS.c.orig 2025-03-14 08:02:05.000000000 +0900 |+++ src/library/grDevices/src/devPS.c 2026-01-03 19:41:50.895118374 +0900 -------------------------- Patching file src/library/grDevices/src/devPS.c using Plan A... Hunk #1 succeeded at 29. done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_library_stats_src_Makefile.in => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_library_stats_src_Makefile.in Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_library_stats_src_Makefile.in,v 1.2 2016/07/26 04:53:33 wen Exp $ | |${R_INCLUDE_DIR} is used in the default compiler flags. | |--- src/library/stats/src/Makefile.in.orig 2016-07-26 01:57:49.000000000 +0000 |+++ src/library/stats/src/Makefile.in -------------------------- Patching file src/library/stats/src/Makefile.in using Plan A... Hunk #1 succeeded at 10. done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_main_character.c => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-arm64/math/R/patches/patch-src_main_character.c Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_main_character.c,v 1.7 2024/02/15 07:48:50 markd Exp $ | |rename strtoi() to avoild conflict with NetBSD function. | |--- src/main/character.c.orig 2023-07-04 22:15:01.000000000 +0000 |+++ src/main/character.c -------------------------- Patching file src/main/character.c using Plan A... Hunk #1 succeeded at 1753 (offset 4 lines). Hunk #2 succeeded at 1786 (offset 4 lines). done ===> Creating toolchain wrappers for R-4.5.2 /opt/pkg/bin/nbsed -e '/^#/d' -e 's,@LIBGCC_PREFIX@,/opt/pkg/gcc14/aarch64-apple-darwin23,g' < ../../extra/gcc14-macos-libs/files/specs.pkgsrc > /Users/pbulk/build/math/R/work/.cwrapper/specs.pkgsrc ===> Configuring for R-4.5.2 autoreconf: export WARNINGS= autoreconf: Entering directory '.' autoreconf: configure.ac: not using Gettext autoreconf: running: aclocal --force configure.ac:1898: warning: macro 'AM_LANGINFO_CODESET' not found in library configure.ac:2483: warning: macro 'AM_NLS' not found in library configure.ac:2487: warning: macro 'AM_GNU_GETTEXT_VERSION' not found in library configure.ac:2488: warning: macro 'AM_GNU_GETTEXT' not found in library autoreconf: configure.ac: tracing configure.ac: warning: AM_GNU_GETTEXT is used, but not AM_GNU_GETTEXT_VERSION or AM_GNU_GETTEXT_REQUIRE_VERSION autoreconf: running: libtoolize --copy --force libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'tools'. libtoolize: copying file 'tools/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am. autoreconf: configure.ac: not using Intltool autoreconf: configure.ac: not using Gtkdoc autoreconf: running: aclocal --force configure.ac:1898: warning: macro 'AM_LANGINFO_CODESET' not found in library configure.ac:2483: warning: macro 'AM_NLS' not found in library configure.ac:2487: warning: macro 'AM_GNU_GETTEXT_VERSION' not found in library configure.ac:2488: warning: macro 'AM_GNU_GETTEXT' not found in library autoreconf: running: /opt/pkg/bin/autoconf --force autoreconf: running: /opt/pkg/bin/autoheader --force autoreconf: configure.ac: not using Automake autoreconf: Leaving directory '.' => Modifying GNU configure scripts to avoid --recheck => Replacing config-guess with pkgsrc versions => Replacing config-sub with pkgsrc versions => Replacing install-sh with pkgsrc version checking build system type... aarch64-apple-darwin23 checking host system type... aarch64-apple-darwin23 loading site script './config.site' loading build-specific script './config.site' checking for pwd... /bin/pwd checking whether builddir is srcdir... yes checking whether ln -s works... yes checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c -o pbulk -g staff checking for sed... /opt/pkg/bin/nbsed checking for which... /usr/bin/which checking for less... /usr/bin/less checking for /opt/pkg/bin/gtar... /opt/pkg/bin/gtar checking for tex... no checking for pdftex... no configure: WARNING: you cannot build PDF versions of the R manuals checking for pdflatex... (cached) no configure: WARNING: you cannot build PDF versions of vignettes and help pages checking for makeindex... no checking for texi2any... /opt/pkg/bin/texi2any checking whether texi2any version is at least 6.1... yes checking for /Users/pbulk/build/math/R/work/.tools/bin/install-info... /Users/pbulk/build/math/R/work/.tools/bin/install-info checking for texi2dvi... /opt/pkg/bin/texi2dvi checking for kpsewhich... no checking for latex inconsolata package... checking for unzip... (cached) /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... (cached) /usr/bin/gzip checking for bzip2... /opt/pkg/bin/bzip2 checking for xdg-open... no checking for firefox... no checking for mozilla... no checking for epiphany... no checking for galeon... no checking for opera... no checking for kfmclient... no checking for gnome-moz-remote... no checking for open... /usr/bin/open using default browser ... /usr/bin/open checking for xdg-open... no checking for acroread... no checking for acroread4... no checking for evince... no checking for atril... no checking for xpdf... no checking for gv... no checking for gnome-gv... no checking for ggv... no checking for okular... no checking for kpdf... no checking for open... /usr/bin/open checking for working aclocal... found checking for working autoconf... found checking for working autoheader... found checking for bison... bison -y checking for notangle... false checking for realpath... /bin/realpath checking for pkg-config... /Users/pbulk/build/math/R/work/.tools/bin/pkg-config checking for aarch64-apple-darwin23-gcc... clang checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether clang accepts -g... yes checking for clang option to enable C11 features... none needed checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for wchar.h... yes checking for minix/config.h... no checking for sys/time.h... yes checking for sys/param.h... yes checking whether it is safe to define __EXTENSIONS__... yes checking whether _XOPEN_SOURCE should be defined... no checking whether clang is a C23 compiler... no checking whether clang -std=gnu23 is a C23 compiler... no checking whether clang -std=gnu2x is a C23 compiler... yes checking how to run the C preprocessor... clang -std=gnu2x -E looking for a modern Fortran compiler checking for aarch64-apple-darwin23-gfortran... gfortran checking whether the compiler supports GNU Fortran... yes checking whether gfortran accepts -g... yes checking whether the compiler supports GNU C++... yes checking whether clang++ accepts -g... yes checking for clang++ option to enable C++11 features... -std=gnu++11 checking whether clang++ -std=gnu++11 -pipe -Os -I/opt/pkg/include -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -D_REENTRANT -I/opt/pkg/include/freetype2 -I/opt/pkg/include/harfbuzz -I/opt/pkg/include/ncurses -DLDAP_DEPRECATED -I/opt/pkg/include/libxml2 can compile C++ code... yes checking how to run the C++ preprocessor... clang++ -std=gnu++11 -E checking whether __attribute__((visibility())) is supported... yes checking whether clang -std=gnu2x accepts -fvisibility... yes checking whether clang++ -std=gnu++11 accepts -fvisibility... yes checking whether gfortran accepts -fvisibility... yes checking for aarch64-apple-darwin23-gcc... no checking for aarch64-apple-darwin23-objcc... no checking for aarch64-apple-darwin23-objc... no checking for aarch64-apple-darwin23-cc... no checking for aarch64-apple-darwin23-CC... no checking for aarch64-apple-darwin23-clang... no checking for gcc... gcc checking whether the compiler supports GNU Objective C... yes checking whether gcc accepts -g... yes checking whether clang -std=gnu17 is a C17 compiler... yes checking whether clang -std=gnu90 is a C90 compiler... yes checking whether clang -std=gnu99 is a C99 compiler... yes checking how to print strings... print -r checking for a sed that does not truncate output... (cached) /opt/pkg/bin/nbsed checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for fgrep... /usr/bin/grep -F checking for ld used by clang -std=gnu2x... (cached) ld checking if the linker (ld) is GNU ld... no checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... (cached) 1048576 checking how to convert aarch64-apple-darwin23 file names to aarch64-apple-darwin23 format... func_convert_file_noop checking how to convert aarch64-apple-darwin23 file names to toolchain format... func_convert_file_noop checking for ld option to reload object files... -r checking for aarch64-apple-darwin23-file... no checking for file... file checking for aarch64-apple-darwin23-objdump... no checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for aarch64-apple-darwin23-dlltool... no checking for dlltool... no checking how to associate runtime and link libraries... print -r -- checking for aarch64-apple-darwin23-ar... (cached) ar checking for archiver @FILE support... no checking for aarch64-apple-darwin23-strip... no checking for strip... strip checking for aarch64-apple-darwin23-ranlib... no checking for ranlib... ranlib checking for gawk... /opt/pkg/bin/nawk checking command to parse /usr/bin/nm -B output from clang -std=gnu2x object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for aarch64-apple-darwin23-mt... no checking for mt... no checking if : is a manifest tool... no checking for aarch64-apple-darwin23-dsymutil... no checking for dsymutil... dsymutil checking for aarch64-apple-darwin23-nmedit... no checking for nmedit... nmedit checking for aarch64-apple-darwin23-lipo... no checking for lipo... lipo checking for aarch64-apple-darwin23-otool... no checking for otool... otool checking for aarch64-apple-darwin23-otool64... no checking for otool64... no checking for -single_module linker flag... ld: warning: -single_module is obsolete no checking for -exported_symbols_list linker flag... yes checking for -force_load linker flag... yes checking for dlfcn.h... yes checking for objdir... .libs checking if clang -std=gnu2x supports -fno-rtti -fno-exceptions... yes checking for clang -std=gnu2x option to produce PIC... -fno-common -DPIC checking if clang -std=gnu2x PIC flag -fno-common -DPIC works... yes checking if clang -std=gnu2x static flag -static works... no checking if clang -std=gnu2x supports -c -o file.o... rm: conftest*: No such file or directory yes checking if clang -std=gnu2x supports -c -o file.o... (cached) yes checking whether the clang -std=gnu2x linker (ld) supports shared libraries... yes checking dynamic linker characteristics... darwin23 dyld checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... clang++ -std=gnu++11 -E checking for ld used by clang++ -std=gnu++11... ld checking if the linker (ld) is GNU ld... no checking whether the clang++ -std=gnu++11 linker (ld) supports shared libraries... yes checking for clang++ -std=gnu++11 option to produce PIC... -fno-common -DPIC checking if clang++ -std=gnu++11 PIC flag -fno-common -DPIC works... yes checking if clang++ -std=gnu++11 static flag -static works... no checking if clang++ -std=gnu++11 supports -c -o file.o... rm: conftest*: No such file or directory yes checking if clang++ -std=gnu++11 supports -c -o file.o... (cached) yes checking whether the clang++ -std=gnu++11 linker (ld) supports shared libraries... yes checking dynamic linker characteristics... darwin23 dyld checking how to hardcode library paths into programs... immediate checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fno-common checking if gfortran PIC flag -fno-common works... yes checking if gfortran static flag -static works... no checking if gfortran supports -c -o file.o... rm: conftest*: No such file or directory yes checking if gfortran supports -c -o file.o... (cached) yes checking whether the gfortran linker (ld) supports shared libraries... yes checking dynamic linker characteristics... darwin23 dyld checking how to hardcode library paths into programs... immediate checking for sin in -lm... yes checking for dlopen in -ldl... yes checking for readline/history.h... yes checking for readline/readline.h... yes checking for rl_callback_read_char in -lreadline... yes checking for history_truncate_file... yes checking for tilde_expand_word... yes checking whether rl_completion_matches exists and is declared... yes checking whether rl_resize_terminal exists and is declared... yes checking whether rl_sort_completion_matches exists and is declared... yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for sys/wait.h that is POSIX.1 compatible... yes checking for dlfcn.h... (cached) yes checking for fcntl.h... yes checking for glob.h... yes checking for grp.h... yes checking for pwd.h... yes checking for sched.h... yes checking for strings.h... (cached) yes checking for sys/resource.h... yes checking for sys/select.h... yes checking for sys/socket.h... yes checking for sys/stat.h... (cached) yes checking for sys/time.h... (cached) yes checking for sys/times.h... yes checking for sys/utsname.h... yes checking for unistd.h... (cached) yes checking for utime.h... yes checking for arpa/inet.h... yes checking for elf.h... no checking for features.h... no checking for floatingpoint.h... no checking for langinfo.h... yes checking for netdb.h... yes checking for netinet/in.h... yes checking for sys/param.h... (cached) yes checking for stdalign.h... yes checking for errno.h... yes checking for inttypes.h... (cached) yes checking for limits.h... yes checking for locale.h... yes checking for stdarg.h... yes checking for stdbool.h... yes checking for stdint.h... (cached) yes checking for string.h... (cached) yes checking for clang -std=gnu2x options needed to detect all undeclared functions... none needed checking whether setjmp.h is POSIX.1 compatible... yes checking whether sigsetjmp is declared... yes checking whether siglongjmp is declared... yes checking for egrep -e... (cached) /usr/bin/egrep checking for GNU C library with version >= 2... no checking for uint64_t... yes checking for int64_t... yes checking for int_fast64_t... yes checking for pid_t... yes checking for size_t... yes checking whether SIZE_MAX is declared... yes checking for blkcnt_t... yes checking for type of socket length... socklen_t * checking for stack_t... yes checking for intptr_t... yes checking for uintptr_t... yes checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for inline... inline checking size of int... 4 checking size of long... 8 checking size of long long... 8 checking size of double... 8 checking size of size_t... 8 checking for C stack direction... down checking size of long double... 8 checking whether we can compute C Make dependencies... yes, using $(CC) -MM checking whether clang -std=gnu2x supports -c -o FILE.lo... yes checking how to get verbose linking output from gfortran... -v checking for Fortran libraries of gfortran... -L/Users/pbulk/build/math/R/work/.buildlink/lib/R/lib -L/Users/pbulk/build/math/R/work/.buildlink/lib -L/opt/pkg/gcc14/lib/gcc/aarch64-apple-darwin23/14.2.0 -L/opt/pkg/gcc14/lib/gcc/aarch64-apple-darwin23/14.2.0/../../../../aarch64-apple-darwin23/lib -L/opt/pkg/gcc14/lib/gcc/aarch64-apple-darwin23/14.2.0/../../.. -L/opt/pkg/gcc14/aarch64-apple-darwin23/lib -lemutls_w -lheapt_w -lgfortran -lquadmath checking how to get verbose linking output from clang -std=gnu2x... -v checking for C libraries of clang -std=gnu2x... -lto_library -L/Users/pbulk/build/math/R/work/.buildlink/lib/R/lib -L/Users/pbulk/build/math/R/work/.buildlink/lib -lSystem /System/Volumes/Data/Applications/Xcode-15.4.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/15.0.0/lib/darwin/libclang_rt.osx.a checking for dummy main to link with Fortran libraries... none checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore checking whether gfortran appends underscores to external names... yes checking whether gfortran appends extra underscores to external names... no checking whether mixed C/Fortran code can be run... yes checking whether gfortran and clang -std=gnu2x agree on int and double... yes checking whether gfortran and clang -std=gnu2x agree on double complex... yes checking whether clang++ -std=gnu++11 accepts -M for generating dependencies... yes checking whether we can compute ObjC Make dependencies... yes, using $(OBJC) -MM checking for ObjC runtime library... checking whether gcc accepts -fobjc-exceptions... yes checking for cached Foundation settings... no checking whether default Foundation framework works... no checking whether -framework Foundation works... yes checking for working Foundation implementation... yes checking for type of 'hidden' Fortran character lengths... size_t checking for xmkmf... no checking whether linker supports dynamic lookup... yes checking whether clang++ supports C++11 features with -std=gnu++11... yes checking whether clang++ supports C++14 features with -std=gnu++14... yes checking whether clang++ supports C++17 features with -std=gnu++17... yes checking whether clang++ supports C++20 features with -std=gnu++20... yes checking whether clang++ supports C++23 features with -std=gnu++23... no checking whether clang++ supports C++23 features with -std=gnu++2b... yes checking whether clang++ supports C++26 features with -std=gnu++26... no checking whether clang++ supports C++26 features with -std=gnu++2... no checking whether clang++ supports C++26 features with -std=c++26... no checking whether clang++ supports C++26 features with +std=c++26... no checking whether clang++ supports C++26 features with -std:c++26... no checking whether clang++ supports C++26 features with -std=c++2... no checking whether clang++ supports C++26 features with +std=c++2... no checking whether clang++ supports C++26 features with -std:c++2... no checking whether clang++ supports C++26 features by default... no configure: No compiler with C++26 support was found checking whether clang++ -std=gnu++17 can compile ObjC++... yes checking for Objective C++ compiler... clang++ -std=gnu++17 checking for option providing pthread_kill... none required checking whether POSIX threads are supported... yes checking for off_t... yes checking for working alloca.h... yes checking for alloca... yes checking whether alloca is declared... yes checking whether expm1 exists and is declared... yes checking whether hypot exists and is declared... yes checking whether log1p exists and is declared... yes checking whether log1pl exists and is declared... yes checking whether log2 exists and is declared... yes checking whether log10 exists and is declared... yes checking whether nearbyint exists and is declared... yes checking whether nearbyintl exists and is declared... yes checking whether powl exists and is declared... yes checking whether rintl exists and is declared... yes checking whether va_copy exists and is declared... yes checking for isblank... yes checking for sunmath.h... no checking for cospi in -lsunmath... no checking for atanpi... no checking for atan2pi... no checking for cospi... no checking for exp10... no checking for pown... no checking for sinpi... no checking for tanpi... no checking for __cospi... yes checking for __sinpi... yes checking for __tanpi... yes checking for fseeko... yes checking for ftello... yes checking whether fcntl exists and is declared... yes checking whether getgrgid exists and is declared... yes checking whether getpwnam exists and is declared... yes checking whether getpwuid exists and is declared... yes checking whether kill exists and is declared... yes checking whether sigaction exists and is declared... yes checking whether sigaltstack exists and is declared... yes checking whether sigemptyset exists and is declared... yes checking whether fdopen exists and is declared... yes checking whether popen exists and is declared... yes checking whether getline exists and is declared... yes checking whether select exists and is declared... yes checking whether setenv exists and is declared... yes checking whether unsetenv exists and is declared... yes checking whether getrlimit exists and is declared... yes checking whether setrlimit exists and is declared... yes checking whether getrusage exists and is declared... yes checking whether getpriority exists and is declared... yes checking whether chmod exists and is declared... yes checking whether mkfifo exists and is declared... yes checking whether stat exists and is declared... yes checking whether umask exists and is declared... yes checking whether gettimeofday exists and is declared... yes checking whether utimes exists and is declared... yes checking whether times exists and is declared... yes checking whether gmtime_r exists and is declared... yes checking whether localtime_r exists and is declared... yes checking whether nl_langinfo exists and is declared... yes checking whether access exists and is declared... yes checking whether chdir exists and is declared... yes checking whether execv exists and is declared... yes checking whether ftruncate exists and is declared... yes checking whether getcwd exists and is declared... yes checking whether geteuid exists and is declared... yes checking whether getuid exists and is declared... yes checking whether link exists and is declared... yes checking whether readlink exists and is declared... yes checking whether symlink exists and is declared... yes checking whether sysconf exists and is declared... yes checking whether sched_setaffinity exists and is declared... no checking whether sched_getaffinity exists and is declared... no checking whether utime exists and is declared... yes checking whether utimensat exists and is declared... yes checking for clock_gettime in -lrt... no checking whether clock_gettime exists and is declared... yes checking whether timespec_get exists and is declared... yes checking for putenv... yes checking whether putenv is declared... yes checking for vasprintf... yes checking whether vasprintf is declared... yes checking for mempcpy... no checking for realpath... yes checking whether realpath is declared... yes checking whether glob exists and is declared... yes checking for dladdr... yes checking for dlsym... yes checking whether dladdr is declared... yes checking whether dlsym is declared... yes checking whether RTLD_DEFAULT is declared... yes checking whether RTLD_NEXT is declared... yes checking for thread.h... no checking whether thr_stksegment exists and is declared... no checking for stpcpy... yes checking for isnan... yes checking whether isfinite is declared... yes checking whether isnan is declared... yes checking whether you have IEEE 754 floating-point arithmetic... yes checking whether putenv("FOO") can unset an environment variable... no checking whether putenv("FOO=") can unset an environment variable... no checking for nl_langinfo and CODESET... yes checking for mkdtemp... yes checking for strdup... yes checking for strncasecmp... yes checking whether mkdtemp is declared... yes checking whether strdup is declared... yes checking whether strncasecmp is declared... yes checking for library containing connect... none required checking for library containing gethostbyname... none required checking for working calloc... yes checking for working isfinite... yes checking for working log1p... yes checking whether ftell works correctly on files opened for append... yes checking for working sigaction... yes checking whether the base type of an enum can be specified... yes checking for complex.h... yes checking for double complex... yes checking whether C99 double complex is supported... yes checking whether cabs exists and is declared... yes checking whether carg exists and is declared... yes checking whether cexp exists and is declared... yes checking whether clog exists and is declared... yes checking whether csqrt exists and is declared... yes checking whether cpow exists and is declared... yes checking whether ccos exists and is declared... yes checking whether csin exists and is declared... yes checking whether ctan exists and is declared... yes checking whether cacos exists and is declared... yes checking whether casin exists and is declared... yes checking whether catan exists and is declared... yes checking whether ccosh exists and is declared... yes checking whether csinh exists and is declared... yes checking whether ctanh exists and is declared... yes checking for working ctanh... yes checking whether 'struct tm' includes tm_zone... yes checking whether 'struct tm' includes tm_gmtoff... yes checking for dgemm_ in -framework Accelerate... yes checking whether double complex BLAS can be used... Bus error yes checking whether the BLAS is complete... (cached) yes checking for dpstrf_... yes checking for iconv.h... yes checking for iconv... in libiconv checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes checking whether iconv accepts "CP1252"... yes checking for iconvlist... yes checking for iconv... yes checking for iconv declaration... extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for wchar.h... (cached) yes checking for wctype.h... yes checking whether mbrtowc exists and is declared... yes checking whether wcrtomb exists and is declared... yes checking whether wcscoll exists and is declared... yes checking whether wcsftime exists and is declared... yes checking whether wcstod exists and is declared... yes checking whether mbstowcs exists and is declared... yes checking whether wcstombs exists and is declared... yes checking whether wctrans exists and is declared... yes checking whether wctype exists and is declared... yes checking whether iswctype exists and is declared... yes checking whether wcwidth exists and is declared... yes checking whether wcswidth exists and is declared... yes checking for wctrans_t... yes checking for mbstate_t... yes checking for ICU... no checking for ucol_open in -licucore... yes checking for X... disabled using X11 ... no checking whether pkg-config knows about cairo and pango... yes configure: using static pangocairo checking whether cairo including pango is >= 1.2 and works... yes checking for CFStringGetSystemEncoding in CoreFoundation framework... -framework CoreFoundation checking for /opt/pkg/lib/tclConfig.sh... /opt/pkg/lib/tclConfig.sh checking for /opt/pkg/lib/tkConfig.sh... /opt/pkg/lib/tkConfig.sh checking for tcl.h... yes checking for tk.h... yes checking whether compiling/linking Tcl/Tk code works... yes checking for BSD networking... yes checking for rpc/types.h... yes checking for rpc/xdr.h... yes checking for XDR library... none required checking for XDR support... yes checking for inflateInit2_ in -lz... yes checking for zlib.h... yes checking if zlib version >= 1.2.5... (cached) yes checking whether zlib support suffices... yes checking for BZ2_bzlibVersion in -lbz2... yes checking for bzlib.h... yes checking if bzip2 version >= 1.0.6... (cached) yes checking whether bzip2 support suffices... yes checking for lzma_version_number in -llzma... yes checking for lzma.h... yes checking if lzma version >= 5.0.3... yes checking for ZSTD_versionNumber in -lzstd... no checking for libdeflate.h... no checking for pcre2.h... yes checking for pcre2_compile_8 in -lpcre2-8... yes checking if PCRE2 has Unicode support... yes checking whether PCRE support suffices... yes checking for curl-config... /opt/pkg/bin/curl-config checking libcurl version ... 8.18.0 checking for curl/curl.h... yes checking if libcurl is >= 7.28.0... yes checking if libcurl supports https... yes checking if pkg-config knows about libjpeg... yes checking if jpeglib version >= 6b... yes checking for jpeg_destroy_compress in -ljpeg... yes checking if pkg-config knows about libpng... yes checking if libpng version >= 1.2.7... yes checking for png_create_write_struct in -lpng... yes checking if pkg-config knows about libtiff... yes checking for tiffio.h... yes checking for TIFFOpen in -ltiff... yes checking whether leap seconds are treated according to POSIX... yes checking for inline... inline checking for struct stat.st_atim.tv_nsec... no checking for struct stat.st_atimespec.tv_nsec... yes checking for setitimer... yes checking for clang -std=gnu2x option to enable large file support... none needed checking for declarations of fseeko and ftello... yes checking whether KERN_USRSTACK sysctl is supported... yes checking for lpr... lpr checking for paperconf... false checking for Fortran flag to compile .f90 files... none checking for Fortran flag to compile .f95 files... none checking for recommended packages... yes checking whether NLS is requested... yes Configuring src/extra/intl directory checking for a race-free mkdir -p... mkdir -p checking whether we are using the GNU C Library 2 or newer... no checking for aarch64-apple-darwin23-ranlib... ranlib checking for simple visibility declarations... yes checking for stdint.h... yes checking for getpagesize... yes checking for working mmap... yes checking whether integer division by zero raises SIGFPE... no checking for inttypes.h... yes checking for unsigned long long int... yes checking for inttypes.h... (cached) yes checking whether the inttypes.h PRIxNN macros are broken... no checking for ld used by clang -std=gnu2x... ld checking if the linker (ld) is GNU ld... no checking for shared library run path origin... done checking whether imported symbols can be declared weak... no checking for multithread API to use... none checking for argz.h... no checking for inttypes.h... (cached) yes checking for limits.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... (cached) yes checking for getcwd... yes checking for getegid... yes checking for geteuid... yes checking for getgid... yes checking for getuid... yes checking for mempcpy... (cached) no checking for munmap... yes checking for stpcpy... (cached) yes checking for strcasecmp... yes checking for strdup... (cached) yes checking for strtoul... yes checking for tsearch... yes checking for argz_count... no checking for argz_stringify... no checking for argz_next... no checking for __fsetlocking... no checking whether feof_unlocked is declared... yes checking whether fgets_unlocked is declared... no checking for iconv... (cached) yes checking for iconv declaration... (cached) extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for NL_LOCALE_NAME macro... no checking for bison... bison checking version of bison... 2.3, ok checking for long long int... yes checking for long double... yes checking for wchar_t... yes checking for wint_t... yes checking for intmax_t... yes checking whether printf() supports POSIX/XSI format strings... yes checking whether we are using the GNU C Library 2.1 or newer... no checking for stdint.h... (cached) yes checking for SIZE_MAX... yes checking for stdint.h... (cached) yes checking for CFPreferencesCopyAppValue... yes checking for CFLocaleCopyCurrent... yes checking for ptrdiff_t... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for asprintf... yes checking for fwprintf... yes checking for putenv... (cached) yes checking for setenv... yes checking for setlocale... yes checking for snprintf... yes checking for wcslen... yes checking whether _snprintf is declared... no checking whether _snwprintf is declared... no checking whether getc_unlocked is declared... yes checking for nl_langinfo and CODESET... (cached) yes checking for LC_MESSAGES... yes checking for CFPreferencesCopyAppValue... (cached) yes checking for CFLocaleCopyCurrent... (cached) yes checking whether included gettext is requested... no checking for GNU gettext in libc... no checking for GNU gettext in libintl... yes checking whether to use NLS... yes checking where the gettext function comes from... external libintl checking how to link with libintl... -lintl -liconv -Wl,-framework -Wl,CoreFoundation Finished configuring src/extra/intl directory checking whether OpenMP SIMD reduction is supported... no using as R_SHELL for scripts ... /opt/pkg/bin/mksh configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/javaconf config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/tzone/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/graphics/src/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/translations/DESCRIPTION config.status: creating src/library/translations/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/library/utils/src/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/javareconf config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/scripts/rtags config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands rm: libtoolT: No such file or directory config.status: executing stamp-h commands configure: WARNING: --with-libdeflate-compression requires libdeflate R is now configured for aarch64-apple-darwin23 Source directory: . Installation directory: /opt/pkg C compiler: clang -std=gnu2x -pipe -Os -I/opt/pkg/include -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -D_REENTRANT -I/opt/pkg/include/freetype2 -I/opt/pkg/include/harfbuzz -I/opt/pkg/include/ncurses -DLDAP_DEPRECATED -I/opt/pkg/include/libxml2 Fortran fixed-form compiler: gfortran -O Default C++ compiler: clang++ -std=gnu++17 -pipe -Os -I/opt/pkg/include -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -D_REENTRANT -I/opt/pkg/include/freetype2 -I/opt/pkg/include/harfbuzz -I/opt/pkg/include/ncurses -DLDAP_DEPRECATED -I/opt/pkg/include/libxml2 Fortran free-form compiler: gfortran -O Obj-C compiler: gcc -g -O2 -fobjc-exceptions Interfaces supported: aqua, tcltk External libraries: pcre2, readline, BLAS(Accelerate), LAPACK(in blas), curl Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling Capabilities skipped: Options not enabled: shared BLAS, memory profiling Recommended packages: yes configure: WARNING: you cannot build PDF versions of the R manuals configure: WARNING: you cannot build PDF versions of vignettes and help pages => Modifying libtool scripts to use pkgsrc libtool => Modifying libtool scripts to use pkgsrc depcomp