=> Bootstrap dependency digest>=20211023: found digest-20220214 => Checksum BLAKE2s OK for openmpi-4.1.4.tar.bz2 => Checksum SHA512 OK for openmpi-4.1.4.tar.bz2 ===> Installing dependencies for openmpi-4.1.4 ========================================================================== The supported build options for openmpi are: debug f90 java sge slurm The currently selected options are: f90 You can select which build options to use by setting PKG_DEFAULT_OPTIONS or the following variable. Its current value is shown: PKG_OPTIONS.openmpi (not defined) ========================================================================== => 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 mktools-[0-9]*: found mktools-20220614 => Tool dependency nbpatch-[0-9]*: found nbpatch-20151107 => Tool dependency cwrappers>=20150314: found cwrappers-20220403 => Tool dependency checkperms>=1.1: found checkperms-1.12 => Full dependency perl>=5.8.0: found perl-5.38.2 => Full dependency gcc12>=: found gcc12-12.3.0 => Full dependency gcc12>=12.1.0nb1: found gcc12-12.3.0 => Full dependency libltdl>=2.4.2: found libltdl-2.4.7 ===> Overriding tools for openmpi-4.1.4 ===> Extracting for openmpi-4.1.4 ===> Patching for openmpi-4.1.4 => Applying pkgsrc patches for openmpi-4.1.4 => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ak => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ak Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-ak,v 1.6 2022/08/25 22:09:14 thor Exp $ | |# Use pkgsrc variables | |--- ompi/etc/Makefile.in.orig 2016-09-02 01:30:09.000000000 +0000 |+++ ompi/etc/Makefile.in -------------------------- Patching file ompi/etc/Makefile.in using Plan A... Hunk #1 succeeded at 89. Hunk #2 succeeded at 1863 (offset 131 lines). Hunk #3 succeeded at 1886 (offset 131 lines). done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-config_opal__setup__wrappers.m4 => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-config_opal__setup__wrappers.m4 Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-config_opal__setup__wrappers.m4,v 1.1 2016/02/28 19:47:41 joerg Exp $ | |Do not second guess the compiler's choice of DT_RPATH vs DT_RUNPATH. | |--- config/opal_setup_wrappers.m4.orig 2016-02-24 13:18:55.229667898 +0000 |+++ config/opal_setup_wrappers.m4 -------------------------- Patching file config/opal_setup_wrappers.m4 using Plan A... Hunk #1 succeeded at 202 (offset 25 lines). done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-configure => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-configure Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-configure,v 1.3 2022/08/25 22:09:14 thor Exp $ | |# Portability of test command | |--- configure.orig 2022-07-29 20:55:26.095390777 +0000 |+++ configure -------------------------- Patching file configure using Plan A... Hunk #1 succeeded at 156118. Hunk #2 succeeded at 338377. Hunk #3 succeeded at 338385. Hunk #4 succeeded at 338393. Hunk #5 succeeded at 338401. Hunk #6 succeeded at 338409. Hunk #7 succeeded at 361527. done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ompi_mca_io_romio321_romio_configure => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ompi_mca_io_romio321_romio_configure Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-ompi_mca_io_romio321_romio_configure,v 1.1 2022/08/25 22:09:14 thor Exp $ | |# POSIX sh compat | |--- ompi/mca/io/romio321/romio/configure.orig 2019-02-05 14:00:57.202743253 +0000 |+++ ompi/mca/io/romio321/romio/configure -------------------------- Patching file ompi/mca/io/romio321/romio/configure using Plan A... Hunk #1 succeeded at 22994 (offset -3 lines). done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ompi_mca_sharedfp_sm_sharedfp__sm.c => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ompi_mca_sharedfp_sm_sharedfp__sm.c Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-ompi_mca_sharedfp_sm_sharedfp__sm.c,v 1.1 2022/08/25 22:09:14 thor Exp $ | |# Fix missing constants | |--- ompi/mca/sharedfp/sm/sharedfp_sm.c.orig 2022-07-29 23:04:14.067867314 +0000 |+++ ompi/mca/sharedfp/sm/sharedfp_sm.c -------------------------- Patching file ompi/mca/sharedfp/sm/sharedfp_sm.c using Plan A... Hunk #1 succeeded at 26. done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ompi_mpi_java_java_Makefile.in => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-ompi_mpi_java_java_Makefile.in Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-ompi_mpi_java_java_Makefile.in,v 1.1 2015/12/13 06:49:01 markd Exp $ | |Don't install jdocs - its dependent on particular javadoc version | |--- ompi/mpi/java/java/Makefile.in.orig 2015-09-16 10:13:10.000000000 +0000 |+++ ompi/mpi/java/java/Makefile.in -------------------------- Patching file ompi/mpi/java/java/Makefile.in using Plan A... Hunk #1 succeeded at 2247 (offset 230 lines). done => Verifying /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-opal_tools_wrappers_opal__wrapper.c => Applying pkgsrc patch /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi/patches/patch-opal_tools_wrappers_opal__wrapper.c Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-opal_tools_wrappers_opal__wrapper.c,v 1.1 2022/08/25 22:09:14 thor Exp $ | |# Add rpath support | |--- opal/tools/wrappers/opal_wrapper.c.orig 2022-07-30 14:00:47.068421047 +0000 |+++ opal/tools/wrappers/opal_wrapper.c -------------------------- Patching file opal/tools/wrappers/opal_wrapper.c using Plan A... Hunk #1 succeeded at 57. Hunk #2 succeeded at 348. Hunk #3 succeeded at 361. done ===> Creating toolchain wrappers for openmpi-4.1.4 ===> Configuring for openmpi-4.1.4 => 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 => Replacing Perl interpreter in ompi/tools/wrappers/mpijavac.pl.in ompi/mca/common/monitoring/*.pl. => Checking for portability problems in extracted files checking for perl... /opt/pkg/bin/perl ============================================================================ == Configuring Open MPI ============================================================================ *** Startup tests checking build system type... x86_64-apple-darwin22 checking host system type... x86_64-apple-darwin22 checking target system type... x86_64-apple-darwin22 checking for x86_64-apple-darwin22-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 we are using the GNU C compiler... yes checking whether clang accepts -g... yes checking for clang option to accept ISO C89... none needed checking whether clang understands -c and -o together... yes checking how to run the C preprocessor... clang -E checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking for a BSD-compatible install... /usr/bin/install -c -o pbulk -g staff checking whether build environment is sane... yes checking for a thread-safe mkdir -p... config/install-sh -c -d checking for gawk... /opt/pkg/bin/nawk checking whether make sets $(MAKE)... yes checking for style of include used by make... GNU checking whether make supports nested variables... yes checking whether UID '500' is supported by ustar format... yes checking whether GID '20' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking dependency style of clang... gcc3 checking whether make supports nested variables... (cached) yes checking directory of build tree... /Users/pbulk/build/parallel/openmpi/work/openmpi-4.1.4 checking directory of source tree... . checking directory of prefix... /opt/pkg *** Checking versions checking for repo version... v4.1.4 checking Open MPI version... 4.1.4 checking Open MPI release date... May 26, 2022 checking Open MPI repository version... v4.1.4 checking for repo version... v4.1.4 checking Open MPI Run-Time Environment version... 4.1.4 checking Open MPI Run-Time Environment release date... May 26, 2022 checking Open MPI Run-Time Environment repository version... v4.1.4 checking for repo version... v4.1.4 checking Open SHMEM version... 4.1.4 checking Open SHMEM release date... May 26, 2022 checking Open SHMEM repository version... v4.1.4 checking for repo version... v4.1.4 checking Open Portable Access Layer version... 4.1.4 checking Open Portable Access Layer release date... May 26, 2022 checking Open Portable Access Layer repository version... v4.1.4 checking for bootstrap Autoconf version... 2.69 checking for bootstrap Automake version... 1.15 checking for boostrap Libtool version... 2.4.6 *** Initialization, setup configure: builddir: /Users/pbulk/build/parallel/openmpi/work/openmpi-4.1.4 configure: srcdir: /Users/pbulk/build/parallel/openmpi/work/openmpi-4.1.4 installing to directory "/opt/pkg" *** OPAL Configuration options checking if want to run code coverage... no checking if want to compile with branch probabilities... no checking if want to debug memory usage... no checking if want to profile memory usage... no checking if want developer-level compiler pickyness... no checking if want developer-level debugging code... no checking if want to developer-level timing framework... no checking if want to install project-internal header files... no checking if want pretty-print stacktrace... yes checking if want pty support... yes checking if want weak symbol support... yes checking if want dlopen support... yes checking for default value of mca_base_component_show_load_errors... enabled by default checking if want heterogeneous support... no checking if word-sized integers must be word-size aligned... no checking if want IPv6 support... no checking if want package/brand string... Open MPI pbulk@/bin/hostname Distribution checking if want ident string... 4.1.4 checking if want to use an alternative checksum algo for messages... no checking maximum length of processor name... 256 checking maximum length of error string... 256 checking maximum length of object name... 64 checking maximum length of info key... 36 checking maximum length of info val... 256 checking maximum length of port name... 1024 checking maximum length of datarep string... 128 checking if want getpwuid support... yes checking for zlib in... (default search paths) checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes looking for library without search path checking for library containing deflate... -lz checking will zlib support be built... yes checking __NetBSD__... no checking __FreeBSD__... no checking __OpenBSD__... no checking __DragonFly__... no checking __386BSD__... no checking __bsdi__... no checking __APPLE__... yes checking __linux__... no checking __sun__... no checking __sun... no checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking netinet/tcp.h usability... yes checking netinet/tcp.h presence... yes checking for netinet/tcp.h... yes checking for struct sockaddr_in... yes checking if --with-cuda is set... not set (--with-cuda=) checking whether CU_POINTER_ATTRIBUTE_SYNC_MEMOPS is declared... no checking whether cuPointerGetAttributes is declared... no checking if have cuda support... no checking if user requested PMI support... no checking if user requested internal PMIx support()... no checking for pmix.h in /usr... not found checking for pmix.h in /usr/include... not found configure: WARNING: discovered external PMIx version is less than internal version 3.x configure: WARNING: using internal PMIx *** ORTE Configuration options checking if want orterun "--prefix" behavior to be enabled by default... no *** OMPI Configuration options checking if want compile-time warnings inside of mpi.h... yes checking if want sparse process groups... no checking if want peruse support... no checking if want Fortran MPI bindings... yes (default) checking if want C++ bindings... no checking if want MPI::SEEK_SET support... yes checking if want run-time MPI parameter checking... runtime *** OSHMEM Configuration options checking if want oshmem... no checking if want SGI/Quadrics compatibility mode... yes checking if want OSHMEM API parameter checking... always checking for on_exit... no checking if want pshmem... yes checking if want to build OSHMEM fortran bindings... yes no checking if want custom libmpi(_FOO) name... mpi checking if want wrapper compiler rpath support... yes checking if want wrapper compiler runpath support... yes ============================================================================ == Compiler and preprocessor tests ============================================================================ *** C compiler and preprocessor checking for x86_64-apple-darwin22-gcc... (cached) clang checking whether we are using the GNU C compiler... (cached) yes checking whether clang accepts -g... (cached) yes checking for clang option to accept ISO C89... (cached) none needed checking whether clang understands -c and -o together... (cached) yes checking if clang requires a flag for C11... no configure: verifying clang supports C11 without a flag checking if clang supports C11 _Thread_local... yes checking if clang supports C11 atomic variables... yes checking if clang supports C11 _Atomic keyword... yes checking if clang supports C11 _Generic keyword... yes checking if clang supports C11 _Static_assert... yes checking if clang supports C11 atomic_fetch_xor_explicit... yes configure: no flag required for C11 support checking if clang supports __thread... yes checking if clang supports C11 _Thread_local... yes checking for the C compiler vendor... gnu checking for ANSI C header files... (cached) yes checking if clang supports -finline-functions... yes checking if clang supports -fno-strict-aliasing... yes configure: WARNING: -fno-strict-aliasing has been added to CFLAGS checking if clang supports __builtin_expect... yes checking if clang supports __builtin_prefetch... yes checking if clang supports __builtin_clz... yes checking for C optimization flags... -O3 -DNDEBUG -pipe -Os -I/opt/pkg/include -finline-functions -fno-strict-aliasing checking for Interix environment... no checking for C ident string support... static const char checking for int8_t... yes checking for uint8_t... yes checking for int16_t... yes checking for uint16_t... yes checking for int32_t... yes checking for uint32_t... yes checking for int64_t... yes checking for uint64_t... yes checking for int128_t... no checking for __int128... yes checking for uint128_t... no checking for long long... yes checking for __float128... no checking for long double... yes checking complex.h usability... yes checking complex.h presence... yes checking for complex.h... yes checking for float _Complex... yes checking for double _Complex... yes checking for long double _Complex... yes checking for intptr_t... yes checking for uintptr_t... yes checking for mode_t... yes checking for ssize_t... yes checking for ptrdiff_t... yes checking size of _Bool... 1 checking size of char... 1 checking size of short... 2 checking size of int... 4 checking size of long... 8 checking size of long long... 8 checking size of float... 4 checking size of double... 8 checking size of long double... 16 checking size of float _Complex... 8 checking size of double _Complex... 16 checking size of long double _Complex... 32 checking size of void *... 8 checking size of size_t... 8 checking size of ssize_t... 8 checking size of ptrdiff_t... 8 checking size of wchar_t... 4 checking size of pid_t... 4 checking size of atomic_short... 2 checking size of atomic_int... 4 checking size of atomic_long... 8 checking size of atomic_llong... 8 checking alignment of bool... 1 checking alignment of int8_t... 1 checking alignment of int16_t... 2 checking alignment of int32_t... 4 checking alignment of int64_t... 8 checking alignment of char... 1 checking alignment of short... 2 checking alignment of wchar_t... 4 checking alignment of int... 4 checking alignment of long... 8 checking alignment of long long... 8 checking alignment of float... 4 checking alignment of double... 8 checking alignment of long double... 16 checking alignment of float _Complex... 4 checking alignment of double _Complex... 8 checking alignment of long double _Complex... 16 checking alignment of void *... 8 checking alignment of size_t... 8 checking for weak symbol support... no checking for macro weak symbol support... no checking for functional offsetof macro... yes *** C++ compiler and preprocessor checking whether we are using the GNU C++ compiler... yes checking whether clang++ accepts -g... yes checking dependency style of clang++... gcc3 checking how to run the C++ preprocessor... clang++ -E checking for the C++ compiler vendor... gnu checking if clang++ supports -finline-functions... yes configure: WARNING: -finline-functions has been added to CXXFLAGS checking if C and C++ are link compatible... yes checking for C++ optimization flags... -O3 -DNDEBUG -pipe -Os -I/opt/pkg/include -finline-functions checking size of bool... 1 checking alignment of bool... (cached) 1 *** C++ compiler and preprocessor checking whether we are using the GNU C++ compiler... (cached) yes checking whether clang++ accepts -g... (cached) yes checking dependency style of clang++... (cached) gcc3 checking how to run the C++ preprocessor... clang++ -E checking if C++ compiler works... yes checking if clang++ supports -finline-functions... yes configure: WARNING: -finline-functions has been added to CXXFLAGS checking if C and C++ are link compatible... (cached) yes checking for C++ optimization flags... -O3 -DNDEBUG -pipe -Os -I/opt/pkg/include -finline-functions checking size of bool... (cached) 1 checking alignment of bool... (cached) 1 checking if able to build the MPI C++ bindings... no checking if want C++ exception handling... skipped *** Compiler characteristics checking for __attribute__... yes checking for __attribute__(aligned)... yes checking for __attribute__(always_inline)... yes checking for __attribute__(cold)... yes checking for __attribute__(const)... yes checking for __attribute__(deprecated)... yes checking for __attribute__(deprecated_argument)... yes checking for __attribute__(error)... yes checking for __attribute__(format)... yes checking for __attribute__(format_funcptr)... no checking for __attribute__(hot)... yes checking for __attribute__(malloc)... yes checking for __attribute__(may_alias)... yes checking for __attribute__(no_instrument_function)... yes checking for __attribute__(noinline)... yes checking for __attribute__(nonnull)... yes checking for __attribute__(noreturn)... yes checking for __attribute__(noreturn_funcptr)... yes checking for __attribute__(packed)... yes checking for __attribute__(pure)... yes checking for __attribute__(sentinel)... yes checking for __attribute__(unused)... yes checking for __attribute__(visibility)... yes checking for __attribute__(warn_unused_result)... yes checking for __attribute__(weak_alias)... no checking for __attribute__(destructor)... yes checking for __attribute__(optnone)... yes checking for __attribute__(extension)... yes checking for compiler familyid... 1 checking for compiler familyname... GNU checking for compiler version... 262657 checking for compiler version_str... 4.2.1 *** Java MPI bindings checking if want Java bindings... no *** OpenSHMEM profiling checking if pshmem will be enabled... no (OpenSHMEM disabled) *** Assembler checking dependency style of clang... gcc3 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 for fgrep... /usr/bin/grep -F checking for __atomic builtin atomics... yes checking for __atomic_compare_exchange_n... yes checking if __atomic_compare_exchange_n() gives correct results... yes checking if __int128 atomic compare-and-swap is always lock-free... yes checking if .proc/endp is needed... no checking directive for setting text section... .text checking directive for exporting symbols... .globl checking for objdump... objdump checking if .note.GNU-stack is needed... /Library/Developer/CommandLineTools/usr/bin/objdump: error: 'conftest.o': Invalid/Unsupported object file format no checking suffix for labels... : checking prefix for global symbol labels... none configure: error: Could not determine global symbol label prefix *** Error code 1 Stop. bmake[1]: stopped in /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi *** Error code 1 Stop. bmake: stopped in /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-x86_64/parallel/openmpi