Install log for 'hdf5r'

* installing *source* package ‘hdf5r’ ...
** this is package ‘hdf5r’ version ‘1.3.12’
** package ‘hdf5r’ successfully unpacked and MD5 sums checked
** using staged installation
checking for a sed that does not truncate output... /usr/bin/sed
checking for gawk... no
checking for mawk... no
checking for nawk... no
checking for awk... awk
checking for grep that handles long lines and -e... /usr/bin/grep
checking for gcc... clang -arch arm64 -std=gnu23
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 -arch arm64 -std=gnu23 accepts -g... yes
checking for clang -arch arm64 -std=gnu23 option to enable C11 features... -std=gnu11
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 h5cc... /opt/R/arm64/bin/h5cc
checking for HDF5 libraries... yes (version 1.14.5)
checking for hdf5.h... yes
checking for H5Fcreate in -lhdf5... yes
checking for hdf5_hl.h... yes
checking for H5LTpath_valid in -lhdf5_hl... yes
checking for main in -lhdf5_hl... yes
checking for matching HDF5 Fortran wrapper... no
Found hdf5 with version: 1.14.5
checking for ggrep... /usr/bin/grep
checking whether /usr/bin/grep accepts -o... yes
checking for ggrep... (cached) /usr/bin/grep
checking whether /usr/bin/grep accepts -o... yes
Using variables:
HDF5_LIBS= -L/opt/R/arm64/lib  -L/opt/R/arm64/lib  -lsz  -lz  -ldl  -lm  -L. -lhdf5_hl -lhdf5 -lz -lm
HDF5_CFLAGS=
HDF5_CPPFLAGS=-I/opt/R/arm64/include -I/opt/R/arm64/include 
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’
using SDK: ‘MacOSX14.5.sdk’
cp 1_12_0/*.c 1_12_0/*.h .
if [ "" != "" ]; then patch -p2 < patch_; fi
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c const_export.c -o const_export.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c datatype_export.c -o datatype_export.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5A.c -o Wrapper_auto_H5A.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5.c -o Wrapper_auto_H5.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5D.c -o Wrapper_auto_H5D.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5DS.c -o Wrapper_auto_H5DS.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5E.c -o Wrapper_auto_H5E.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5F.c -o Wrapper_auto_H5F.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5G.c -o Wrapper_auto_H5G.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5I.c -o Wrapper_auto_H5I.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5IM.c -o Wrapper_auto_H5IM.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5L.c -o Wrapper_auto_H5L.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5LT.c -o Wrapper_auto_H5LT.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5O.c -o Wrapper_auto_H5O.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5P.c -o Wrapper_auto_H5P.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5R.c -o Wrapper_auto_H5R.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5S.c -o Wrapper_auto_H5S.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5TB.c -o Wrapper_auto_H5TB.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5T.c -o Wrapper_auto_H5T.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5Z.c -o Wrapper_auto_H5Z.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDcore.c -o Wrapper_auto_H5FDcore.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDfamily.c -o Wrapper_auto_H5FDfamily.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDlog.c -o Wrapper_auto_H5FDlog.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDsec2.c -o Wrapper_auto_H5FDsec2.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDstdio.c -o Wrapper_auto_H5FDstdio.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c convert.c -o convert.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c hdf5r_init.c -o hdf5r_init.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c H5Error.c -o H5Error.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c H5ls.c -o H5ls.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_manual_H5T.c -o Wrapper_manual_H5T.o
clang -arch arm64 -std=gnu23 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o hdf5r.so const_export.o datatype_export.o Wrapper_auto_H5A.o Wrapper_auto_H5.o Wrapper_auto_H5D.o Wrapper_auto_H5DS.o Wrapper_auto_H5E.o Wrapper_auto_H5F.o Wrapper_auto_H5G.o Wrapper_auto_H5I.o Wrapper_auto_H5IM.o Wrapper_auto_H5L.o Wrapper_auto_H5LT.o Wrapper_auto_H5O.o Wrapper_auto_H5P.o Wrapper_auto_H5R.o Wrapper_auto_H5S.o Wrapper_auto_H5TB.o Wrapper_auto_H5T.o Wrapper_auto_H5Z.o Wrapper_auto_H5FDcore.o Wrapper_auto_H5FDfamily.o Wrapper_auto_H5FDlog.o Wrapper_auto_H5FDsec2.o Wrapper_auto_H5FDstdio.o convert.o hdf5r_init.o H5Error.o H5ls.o Wrapper_manual_H5T.o -L/opt/R/arm64/lib -L/opt/R/arm64/lib -lsz -lz -ldl -lm -L. -lhdf5_hl -lhdf5 -lz -lm -F/Library/Frameworks/R.framework/.. -framework R
ld: warning: ignoring duplicate libraries: '-lm', '-lz'
cp 1_12_0/*.c 1_12_0/*.h .
if [ "" != "" ]; then patch -p2 < patch_; fi
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c const_export.c -o const_export.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c datatype_export.c -o datatype_export.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5A.c -o Wrapper_auto_H5A.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5.c -o Wrapper_auto_H5.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5D.c -o Wrapper_auto_H5D.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5DS.c -o Wrapper_auto_H5DS.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5E.c -o Wrapper_auto_H5E.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5F.c -o Wrapper_auto_H5F.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5G.c -o Wrapper_auto_H5G.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5I.c -o Wrapper_auto_H5I.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5IM.c -o Wrapper_auto_H5IM.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5L.c -o Wrapper_auto_H5L.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5LT.c -o Wrapper_auto_H5LT.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5O.c -o Wrapper_auto_H5O.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5P.c -o Wrapper_auto_H5P.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5R.c -o Wrapper_auto_H5R.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5S.c -o Wrapper_auto_H5S.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5TB.c -o Wrapper_auto_H5TB.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5T.c -o Wrapper_auto_H5T.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5Z.c -o Wrapper_auto_H5Z.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDcore.c -o Wrapper_auto_H5FDcore.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDfamily.c -o Wrapper_auto_H5FDfamily.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDlog.c -o Wrapper_auto_H5FDlog.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDsec2.c -o Wrapper_auto_H5FDsec2.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_auto_H5FDstdio.c -o Wrapper_auto_H5FDstdio.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c convert.c -o convert.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c hdf5r_init.c -o hdf5r_init.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c H5Error.c -o H5Error.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c H5ls.c -o H5ls.o
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include   -I/opt/R/arm64/include   -D__USE_MINGW_ANSI_STDIO -DH5_USE_110_API -fPIC  -falign-functions=64 -Wall -g -O2  -c Wrapper_manual_H5T.c -o Wrapper_manual_H5T.o
installing to /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00LOCK-hdf5r/00new/hdf5r/libs
** generating debug symbols (dSYM)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/const_export.o: timestamp mismatch between object file (2026-02-05 20:21:10.538916197) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/datatype_export.o: timestamp mismatch between object file (2026-02-05 20:21:10.638913122) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5A.o: timestamp mismatch between object file (2026-02-05 20:21:10.549720617) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5.o: timestamp mismatch between object file (2026-02-05 20:21:10.536108799) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5D.o: timestamp mismatch between object file (2026-02-05 20:21:10.555566330) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5DS.o: timestamp mismatch between object file (2026-02-05 20:21:10.535325502) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5E.o: timestamp mismatch between object file (2026-02-05 20:21:10.600118061) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5F.o: timestamp mismatch between object file (2026-02-05 20:21:10.628171411) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5G.o: timestamp mismatch between object file (2026-02-05 20:21:10.594936437) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5I.o: timestamp mismatch between object file (2026-02-05 20:21:10.608031291) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5IM.o: timestamp mismatch between object file (2026-02-05 20:21:10.619101797) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/Wrapper_auto_H5L.o: timestamp mismatch between object file (2026-02-05 20:21:10.659814497) and debug map (2026-02-05 20:21:09.000000000)
warning: /Volumes/Builds/packages/sonoma-arm64/results/4.6/hdf5r.Rcheck/00_pkg_src/hdf5r/src/convert.o: timestamp mismatch between object file (2026-02-05 20:21:11.048425272) and debug map (2026-02-05 20:21:10.000000000)
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (hdf5r)