=> Bootstrap dependency digest>=20211023: found digest-20220214 ===> Skipping vulnerability checks. WARNING: No /usr/pkg/pkgdb/pkg-vulnerabilities file found. WARNING: To fix run: `/usr/sbin/pkg_admin -K /usr/pkg/pkgdb fetch-pkg-vulnerabilities'. ===> Building for py313-gdal-3.11.0nb1 cd /usr/pkgsrc/geography/py-gdal/work/gdal-3.11.0 && mkdir build && cd build && cmake -DACCEPT_MISSING_SQLITE3_RTREE:BOOL=ON .. && cd swig/python && /usr/bin/make python_generated_files -- The C compiler identification is GNU 10.5.0 -- The CXX compiler identification is GNU 10.5.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/pkgsrc/geography/py-gdal/work/.cwrapper/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/pkgsrc/geography/py-gdal/work/.cwrapper/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Performing Test SSE2NEON_COMPILES -- Performing Test SSE2NEON_COMPILES - Failed -- Performing Test HAVE_STD_FLOAT16_T -- Performing Test HAVE_STD_FLOAT16_T - Failed -- Found SWIG: /usr/pkg/bin/swig4.0 (found version "4.3.1") -- Found Python: /usr/pkgsrc/geography/py-gdal/work/.buildlink/bin/python3 (found suitable version "3.13.5", minimum required is "3.8") found components: Interpreter Development NumPy Development.Module Development.Embed -- Performing Test HAVE_WFLAG_ALL -- Performing Test HAVE_WFLAG_ALL - Success -- Performing Test HAVE_WFLAG_EXTRA -- Performing Test HAVE_WFLAG_EXTRA - Success -- Performing Test HAVE_WFLAG_INIT_SELF -- Performing Test HAVE_WFLAG_INIT_SELF - Success -- Performing Test HAVE_WFLAG_UNUSED_PARAMETER -- Performing Test HAVE_WFLAG_UNUSED_PARAMETER - Success -- Performing Test HAVE_WFLAG_MISSING_PROTOTYPES -- Performing Test HAVE_WFLAG_MISSING_PROTOTYPES - Success -- Performing Test HAVE_WFLAG_MISSING_DECLARATIONS -- Performing Test HAVE_WFLAG_MISSING_DECLARATIONS - Success -- Performing Test HAVE_WFLAG_SHORTEN_64_TO_32 -- Performing Test HAVE_WFLAG_SHORTEN_64_TO_32 - Failed -- Performing Test HAVE_WFLAG_LOGICAL_OP -- Performing Test HAVE_WFLAG_LOGICAL_OP - Success -- Performing Test HAVE_WFLAG_SHADOW -- Performing Test HAVE_WFLAG_SHADOW - Success -- Performing Test HAVE_WFLAG_SHADOW_FIELD -- Performing Test HAVE_WFLAG_SHADOW_FIELD - Failed -- Performing Test HAVE_WFLAG_MISSING_INCLUDE_DIRS -- Performing Test HAVE_WFLAG_MISSING_INCLUDE_DIRS - Success -- Performing Test HAVE_WFLAG_FORMAT_SECURITY -- Performing Test HAVE_WFLAG_FORMAT_SECURITY - Success -- Performing Test HAVE_WFLAG_ERROR_VLA -- Performing Test HAVE_WFLAG_ERROR_VLA - Success -- Performing Test HAVE_WFLAG_NO_CLOBBERED -- Performing Test HAVE_WFLAG_NO_CLOBBERED - Success -- Performing Test HAVE_WFLAG_DATE_TIME -- Performing Test HAVE_WFLAG_DATE_TIME - Success -- Performing Test HAVE_WFLAG_NULL_DEREFERENCE -- Performing Test HAVE_WFLAG_NULL_DEREFERENCE - Success -- Performing Test HAVE_WFLAG_DUPLICATE_COND -- Performing Test HAVE_WFLAG_DUPLICATE_COND - Failed -- Performing Test HAVE_WFLAG_EXTRA_SEMI -- Performing Test HAVE_WFLAG_EXTRA_SEMI - Success -- Performing Test HAVE_WFLAG_COMMA -- Performing Test HAVE_WFLAG_COMMA - Failed -- Performing Test HAVE_WFLAG_FLOAT_CONVERSION -- Performing Test HAVE_WFLAG_FLOAT_CONVERSION - Success -- Performing Test HAVE_WFLAG_DOCUMENTATION_AND_NO_DEPRECATED -- Performing Test HAVE_WFLAG_DOCUMENTATION_AND_NO_DEPRECATED - Failed -- Performing Test HAVE_WFLAG_UNUSED_PRIVATE_FIELD -- Performing Test HAVE_WFLAG_UNUSED_PRIVATE_FIELD - Failed -- Performing Test HAVE_WFLAG_NON_VIRTUAL_DTOR -- Performing Test HAVE_WFLAG_NON_VIRTUAL_DTOR - Success -- Performing Test HAVE_WFLAG_OVERLOADED_VIRTUAL -- Performing Test HAVE_WFLAG_OVERLOADED_VIRTUAL - Success -- Performing Test HAVE_WFLAG_SUGGEST_OVERRIDE -- Performing Test HAVE_WFLAG_SUGGEST_OVERRIDE - Success -- Performing Test HAVE_WFLAG_STRING_CONVERSION -- Performing Test HAVE_WFLAG_STRING_CONVERSION - Failed -- Performing Test HAVE_FLAG_NO_OPERATOR_NAMES -- Performing Test HAVE_FLAG_NO_OPERATOR_NAMES - Success -- Performing Test HAVE_GCC_WARNING_ZERO_AS_NULL_POINTER_CONSTANT -- Performing Test HAVE_GCC_WARNING_ZERO_AS_NULL_POINTER_CONSTANT - Success -- Performing Test HAVE_WFLAG_OLD_STYLE_CAST -- Performing Test HAVE_WFLAG_OLD_STYLE_CAST - Success -- Performing Test HAVE_WFLAG_EFFCXX -- Performing Test HAVE_WFLAG_EFFCXX - Success -- Looking for vsnprintf -- Looking for vsnprintf - found -- Looking for getcwd -- Looking for getcwd - found -- Looking for fcntl.h -- Looking for fcntl.h - found -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for locale.h -- Looking for locale.h - found -- Looking for xlocale.h -- Looking for xlocale.h - not found -- Looking for direct.h -- Looking for direct.h - not found -- Looking for dlfcn.h -- Looking for dlfcn.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of int -- Check size of int - done -- Check size of unsigned long -- Check size of unsigned long - done -- Check size of long int -- Check size of long int - done -- Check size of void* -- Check size of void* - done -- Check size of size_t -- Check size of size_t - done -- Performing Test HAVE__FLOAT16 -- Performing Test HAVE__FLOAT16 - Failed -- Looking for ctime_r -- Looking for ctime_r - found -- Looking for gmtime_r -- Looking for gmtime_r - found -- Looking for localtime_r -- Looking for localtime_r - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Performing Test HAVE_PTHREAD_MUTEX_RECURSIVE -- Performing Test HAVE_PTHREAD_MUTEX_RECURSIVE - Success -- Performing Test HAVE_PTHREAD_MUTEX_ADAPTIVE_NP -- Performing Test HAVE_PTHREAD_MUTEX_ADAPTIVE_NP - Failed -- Performing Test HAVE_PTHREAD_SPIN_LOCK -- Performing Test HAVE_PTHREAD_SPIN_LOCK - Failed -- Performing Test HAVE_5ARGS_MREMAP -- Performing Test HAVE_5ARGS_MREMAP - Success -- Performing Test HAVE_PTHREAD_ATFORK -- Performing Test HAVE_PTHREAD_ATFORK - Success -- Looking for sys/stat.h -- Looking for sys/stat.h - found -- Looking for readlink -- Looking for readlink - found -- Looking for posix_spawnp -- Looking for posix_spawnp - found -- Looking for posix_memalign -- Looking for posix_memalign - found -- Looking for vfork -- Looking for vfork - found -- Looking for mmap -- Looking for mmap - found -- Looking for sigaction -- Looking for sigaction - found -- Looking for statvfs -- Looking for statvfs - found -- Looking for statvfs64 -- Looking for statvfs64 - not found -- Looking for lstat -- Looking for lstat - found -- Looking for getrlimit -- Looking for getrlimit - found -- Looking for RLIMIT_AS -- Looking for RLIMIT_AS - found -- Looking for sys/random.h -- Looking for sys/random.h - found -- Looking for getrandom -- Looking for getrandom - found -- Looking for ftell64 -- Looking for ftell64 - not found -- Looking for ftello64 -- Looking for ftello64 - not found -- Looking for fseek64 -- Looking for fseek64 - not found -- Looking for fseeko64 -- Looking for fseeko64 - not found -- Performing Test VSI_NEED_LARGEFILE64_SOURCE -- Performing Test VSI_NEED_LARGEFILE64_SOURCE - Failed -- Looking for ftello -- Looking for ftello - found -- Looking for fseeko -- Looking for fseeko - found -- Looking for stat64 -- Looking for stat64 - not found -- Performing Test WINDOWS_STAT64 -- Performing Test WINDOWS_STAT64 - Failed -- Looking for fopen64 -- Looking for fopen64 - not found -- Check size of off_t -- Check size of off_t - done -- Looking for pread64 -- Looking for pread64 - not found -- Looking for ftruncate64 -- Looking for ftruncate64 - not found -- Performing Test HAVE_PREAD_BSD -- Performing Test HAVE_PREAD_BSD - Success -- Performing Test HAVE_USELOCALE -- Performing Test HAVE_USELOCALE - Failed -- Performing Test HAVE_HIDE_INTERNAL_SYMBOLS -- Performing Test HAVE_HIDE_INTERNAL_SYMBOLS - Success -- Performing Test HAVE_GCC_ATOMIC_BUILTINS -- Performing Test HAVE_GCC_ATOMIC_BUILTINS - Success -- Performing Test HAVE_GCC_BSWAP -- Performing Test HAVE_GCC_BSWAP - Success -- Performing Test HAVE_SC_PHYS_PAGES -- Performing Test HAVE_SC_PHYS_PAGES - Success -- Performing Test HAVE_SCHED_GETAFFINITY -- Performing Test HAVE_SCHED_GETAFFINITY - Failed -- Performing Test INT128_TEST -- Performing Test INT128_TEST - Failed -- checking if sprintf can be overloaded for GDAL compilation -- Performing Test DEPRECATE_SPRINTF -- Performing Test DEPRECATE_SPRINTF - Failed -- Performing Test HAVE_SHARED_MUTEX -- Performing Test HAVE_SHARED_MUTEX - Success -- Performing Test HAVE_ATOMIC_UINT64_T -- Performing Test HAVE_ATOMIC_UINT64_T - Failed -- Performing Test HAVE_ATOMIC_UINT64_T_WITH_ATOMIC -- Performing Test HAVE_ATOMIC_UINT64_T_WITH_ATOMIC - Failed CMake Error at cmake/helpers/configure.cmake:431 (message): Cannot find libatomic needed to have support for std::atomic Call Stack (most recent call first): gdal.cmake:70 (include) CMakeLists.txt:264 (include) -- Configuring incomplete, errors occurred! *** Error code 1 Stop. make[1]: stopped in /usr/pkgsrc/geography/py-gdal *** Error code 1 Stop. make: stopped in /usr/pkgsrc/geography/py-gdal