Below is the info of the computer and package versions I’m using
- Operating system: Mac OS Moneteray (Version 12.6.3), M1
- R version 4.3.2
- R studio Version 2023.09.1+494
- brms 2.20.4
- rstan 2.32.3
This is the multilevel regression model I was trying to run. I also downloaded XCode following these instructions.
brm(outcome ~ 1 + (1 | pid/study_day), data = mydf, iter = 3000, warmup = 500, chains = 4, cores = 2)
Below is the error message:
Compiling Stan program...
make cmd is
make -f '/Library/Frameworks/R.framework/Resources/etc/Makeconf' -f '/Library/Frameworks/R.framework/Resources/share/make/shlib.mk' CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB='file953b4d08107.so' OBJECTS='file953b4d08107.o'
make would use
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include/" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include/" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include/unsupported" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/BH/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/StanHeaders/include/src/" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/StanHeaders/include/" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppParallel/include/" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/rstan/include" -DEIGEN_NO_DEBUG -DBOOST_DISABLE_ASSERTS -DBOOST_PENDING_INTEGER_LOG2_HPP -DSTAN_THREADS -DUSE_STANC3 -DSTRICT_R_HEADERS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -include '/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/StanHeaders/include/stan/math/prim/fun/Eigen.hpp' -D_REENTRANT -DRCPP_PARALLEL_USE_TBB=1 -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c file953b4d08107.cpp -o file953b4d08107.o
if test "zfile953b4d08107.o" != "z"; then \
echo clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L"/Library/Frameworks/R.framework/Resources/lib" -L/opt/R/arm64/lib -o file953b4d08107.so file953b4d08107.o '/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/rstan/lib//libStanServices.a' -L'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/StanHeaders/lib/' -lStanHeaders -L'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppParallel/lib/' -ltbb -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation; \
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L"/Library/Frameworks/R.framework/Resources/lib" -L/opt/R/arm64/lib -o file953b4d08107.so file953b4d08107.o '/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/rstan/lib//libStanServices.a' -L'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/StanHeaders/lib/' -lStanHeaders -L'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppParallel/lib/' -ltbb -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation; \
fi
Error in compileCode(f, code, language = language, verbose = verbose) :
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/_mcontext.h:31:2: error: architecture not supported#error architecture not supported ^fatal error: too many errors emitted, stopping now [-ferror-limit=]20 errors generated.make: *** [file953b4d08107.o] Error 1
Error in sink(type = "output") : invalid connection
I searched this up and tried to re-download rstan from source but couldn’t do so either.
When I tried to run this code
install.packages(c("Rcpp", "RcppEigen", "RcppParallel", "StanHeaders"), type = "source")
It asked me if I wanted to restart R – if I clicked Yes, it kept asking me to restart over and over again. If I selected no, it will give hundreds of lines of errors for each package. I included the errors for one package below.
* installing *source* package ‘StanHeaders’ ...
** package ‘StanHeaders’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 12.0.0 (clang-1200.0.32.21)’
using C++ compiler: ‘Apple clang version 12.0.0 (clang-1200.0.32.21)’
using C++17
using SDK: ‘MacOSX10.15.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DNO_FPRINTF_OUTPUT -I"../inst/include" -I"sundials" -include stan_sundials_printf_override.hpp -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -DSTAN_THREADS -DSTRICT_R_HEADERS -DUSE_PTHREAD -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppParallel/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cvodes/cvodes_spils.c -o cvodes/cvodes_spils.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DNO_FPRINTF_OUTPUT -I"../inst/include" -I"sundials" -include stan_sundials_printf_override.hpp -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -DSTAN_THREADS -DSTRICT_R_HEADERS -DUSE_PTHREAD -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppParallel/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cvodes/cvodes_io.c -o cvodes/cvodes_io.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DNO_FPRINTF_OUTPUT -I"../inst/include" -I"sundials" -include stan_sundials_printf_override.hpp -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -DSTAN_THREADS -DSTRICT_R_HEADERS -DUSE_PTHREAD -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppParallel/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cvodes/cvodes_bbdpre.c -o cvodes/cvodes_bbdpre.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DNO_FPRINTF_OUTPUT -I"../inst/include" -I"sundials" -include stan_sundials_printf_override.hpp -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -DSTAN_THREADS -DSTRICT_R_HEADERS -DUSE_PTHREAD -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppParallel/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cvodes/cvodes_nls_stg1.c -o cvodes/cvodes_nls_stg1.o
In file included from cvodes/cvodes_bbdpre.c:23:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.hIn file included from cvodes/cvodes_io.c:18:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:68:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/cdefs.h:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:68:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/cdefs.h:807:2:: 807error:: 2:Unsupported architecture
error: Unsupported architecture
#error Unsupported architecture#error Unsupported architecture
^ ^
In file included from cvodes/cvodes_spils.c:19:
In file included from ../inst/include/cvodes/cvodes_ls.h:21:
In file included from ../inst/include/sundials/sundials_direct.h:22:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:68:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/cdefs.h:807:2: error: Unsupported architecture
#error Unsupported architecture
^
In file included from cvodes/cvodes_nls_stg1.c:17:
In file included from cvodes/cvodes_impl.h:22:
In file included from ../inst/include/cvodes/cvodes.h:20:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:68:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/cdefs.h:807:2: error: Unsupported architecture
#error Unsupported architecture
^
In file included from cvodes/cvodes_io.c:18:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:27:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:33:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/_types.h:34:2:In file included from cvodes/cvodes_spils.cerror:: 19architecture not supported:
In file included from ../inst/include/cvodes/cvodes_ls.h:21:
In file included from ../inst/include/sundials/sundials_direct.h:22:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:27:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:33:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/_types.h#error architecture not supported:
34 ^:
2: error: architecture not supported
#error architecture not supported
^
In file included from cvodes/cvodes_bbdpre.c:23:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:27:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:33:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/_types.h:34:2: error: architecture not supported
#error architecture not supported
^
In file included from cvodes/cvodes_nls_stg1.c:17:
In file included from cvodes/cvodes_impl.h:22:
In file included from ../inst/include/cvodes/cvodes.h:20:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from In file included from cvodes/cvodes_io.c/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h::1827:
:
In file included from In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h::6433:
:
In file included from In file included from cvodes/cvodes_spils.c:19:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/_types.h../inst/include/cvodes/cvodes_ls.h::3421::
2In file included from :../inst/include/sundials/sundials_direct.h :error:: architecture not supported
22:
27In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:
:64/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:
:In file included from 55/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h::971::
In file included from error/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h: :unknown type name '__int64_t'27
:
#error architecture not supported
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:55:9: error: unknown type name '__int64_t'
typedef __int64_t __darwin_blkcnt_t; /* total blocks */
typedef __int64_t __darwin_blkcnt_t; /* total blocks */ ^
^
In file included from cvodes/cvodes_bbdpre.c:23:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:27:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:55:9: error: unknown type name '__int64_t'
typedef __int64_t __darwin_blkcnt_t; /* total blocks */
^
In file included from cvodes/cvodes_nls_stg1.c:17:
In file included from cvodes/cvodes_impl.h:22:
In file included from ../inst/include/cvodes/cvodes.h:20:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:27:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:55:9: error: unknown type name '__int64_t'
typedef __int64_t __darwin_blkcnt_t; /* total blocks */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:56:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:56:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_blksize_t; /* preferred block size */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:56:typedef __int32_t __darwin_blksize_t; /* preferred block size */9
: ^
error: unknown type name '__int32_t'; did you mean '__int128_t'?
note: '__int128_t' declared here
typedef __int32_t __darwin_blksize_t; /* preferred block size */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:57:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:56:9: /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:57:9: error: errorunknown type name '__int32_t'; did you mean '__int128_t'?
: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_dev_t; /* dev_t */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:note57: :'__int128_t' declared here9typedef __int32_t __darwin_dev_t; /* dev_t */
^:
typedef __int32_t __darwin_blksize_t; /* preferred block size */
error ^
: unknown type name '__int32_t'; did you mean '__int128_t'?note
: '__int128_t' declared here
note: '__int128_t' declared here
typedef __int32_t __darwin_dev_t; /* dev_t */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:57:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_dev_t; /* dev_t */
^
note: '__int128_t' declared here/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:60:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:60:
9: error9: unknown type name '__uint32_t'; did you mean '__uint128_t'?:
error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_gid_t; /* [???] process and group IDs */
^typedef __uint32_t __darwin_gid_t; /* [???] process and group IDs */
^
note: '__uint128_t' declared herenote
: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:60:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_gid_t; /* [???] process and group IDs */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:60:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_gid_t; /* [???] process and group IDs */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:61:9/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:: 61error:: 9unknown type name '__uint32_t'; did you mean '__uint128_t'?:
:error61: :unknown type name '__uint32_t'; did you mean '__uint128_t'?9
: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_id_t; /* [XSI] pid_t, uid_t, or gid_t*/
^
typedef __uint32_t __darwin_id_t; /* [XSI] pid_t, uid_t, or gid_t*/note
: ^'__uint128_t' declared here
typedef __uint32_t __darwin_id_t; /* [XSI] pid_t, uid_t, or gid_t*/note
: ^'__uint128_t' declared here
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:61:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h::62:9: error: unknown type name '__uint64_t'
typedef __uint32_t __darwin_id_t; /* [XSI] pid_t, uid_t, or gid_t*/62
: ^9
:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h :error62:: typedef __uint64_t __darwin_ino64_t; /* [???] Used for 64 bit inodes */unknown type name '__uint64_t'
9note: : error'__uint128_t' declared here:
unknown type name '__uint64_t'
^
typedef __uint64_t __darwin_ino64_t; /* [???] Used for 64 bit inodes */
^
typedef __uint64_t __darwin_ino64_t; /* [???] Used for 64 bit inodes */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:62:9: error: unknown type name '__uint64_t'
typedef __uint64_t __darwin_ino64_t; /* [???] Used for 64 bit inodes */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:68:9: error: unknown type name '__darwin_natural_t'/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:68:9:
error: unknown type name '__darwin_natural_t'
typedef __darwin_natural_t __darwin_mach_port_name_t; /* Used by mach */
^
typedef __darwin_natural_t __darwin_mach_port_name_t; /* Used by mach */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:68:9: error: unknown type name '__darwin_natural_t'
typedef __darwin_natural_t __darwin_mach_port_name_t; /* Used by mach */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:70:9: error: unknown type name '__uint16_t'; did you mean '__uint128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:70:9: error: unknown type name '__uint16_t'; did you mean '__uint128_t'?
typedef __uint16_t __darwin_mode_t; /* [???] Some file attributes */
^
note: '__uint128_t' declared here
typedef __uint16_t __darwin_mode_t; /* [???] Some file attributes */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:71:9: error: unknown type name '__int64_t'
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:71:9: error: unknown type name '__int64_t'
typedef __int64_t __darwin_off_t; /* [???] Used for file sizes */
^
typedef __int64_t __darwin_off_t; /* [???] Used for file sizes */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:70:9: error: unknown type name '__uint16_t'; did you mean '__uint128_t'?
typedef __uint16_t __darwin_mode_t; /* [???] Some file attributes */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:72:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:72:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_pid_t; /* [???] process and group IDs */
^
note: '__int128_t' declared here
typedef __int32_t __darwin_pid_t; /* [???] process and group IDs */
^
note: '__int128_t' declared here/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:71:9: error
: unknown type name '__int64_t'
typedef __int64_t __darwin_off_t; /* [???] Used for file sizes */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:73:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:72:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:73typedef __uint32_t __darwin_sigset_t; /* [???] signal set */:
9 ^:
errornote: : unknown type name '__uint32_t'; did you mean '__uint128_t'?'__uint128_t' declared here
typedef __int32_t __darwin_pid_t; /* [???] process and group IDs */
^
note: '__int128_t' declared here
typedef __uint32_t __darwin_sigset_t; /* [???] signal set */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:68:9: error: unknown type name '__darwin_natural_t'
typedef __darwin_natural_t __darwin_mach_port_name_t; /* Used by mach */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:74:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:74:9typedef __int32_t __darwin_suseconds_t; /* [???] microseconds */
: error: unknown type name '__int32_t'; did you mean '__int128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:73:9 ^:typedef __int32_t __darwin_suseconds_t; /* [???] microseconds */
^error
: unknown type name '__uint32_t'; did you mean '__uint128_t'?
note: '__int128_t' declared here
typedef __uint32_t __darwin_sigset_t; /* [???] signal set */
^
note: '__uint128_t' declared here
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:70:9: error: unknown type name '__uint16_t'; did you mean '__uint128_t'?
typedef __uint16_t __darwin_mode_t; /* [???] Some file attributes */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:74:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:typedef __int32_t __darwin_suseconds_t; /* [???] microseconds */
^
note: '__int128_t' declared here
75:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:71:9: error: unknown type name '__int64_t'
typedef __uint32_t __darwin_uid_t; /* [???] user IDs */
^
typedef __int64_t __darwin_off_t; /* [???] Used for file sizes */
note: '__uint128_t' declared here
^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:75:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_uid_t; /* [???] user IDs */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:75:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_uid_t; /* [???] user IDs */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:72:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_pid_t; /* [???] process and group IDs */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:76:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_useconds_t; /* [???] microseconds */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:76:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_useconds_t; /* [???] microseconds */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:76:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_useconds_t; /* [???] microseconds */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:73:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_sigset_t; /* [???] signal set */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:74:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_suseconds_t; /* [???] microseconds */
^
note: '__int128_t' declared here
In file included from cvodes/cvodes_spils.c:19:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h../inst/include/cvodes/cvodes_ls.h::7521::
9In file included from :../inst/include/sundials/sundials_direct.h :error22: :
unknown type name '__uint32_t'; did you mean '__uint128_t'?In file included from
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:43:9: typedef __uint32_t __darwin_uid_t; /* [???] user IDs */error
: ^unknown type name '__uint32_t'; did you mean '__uint128_t'?
note: '__uint128_t' declared here
typedef __uint32_t __darwin_wctype_t;
^
In file included from notecvodes/cvodes_io.c: :'__uint128_t' declared here18
:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:43:9In file included from :cvodes/cvodes_nls_stg1.c :error17: :
unknown type name '__uint32_t'; did you mean '__uint128_t'?In file included from
cvodes/cvodes_impl.h:22:
In file included from typedef __uint32_t __darwin_wctype_t;../inst/include/cvodes/cvodes.h
: ^20
:
In file included from note/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h: :'__uint128_t' declared here64
:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:43:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_wctype_t;
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:76:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_useconds_t; /* [???] microseconds */
^
note: '__uint128_t' declared here
In file included from cvodes/cvodes_spils.c:19:
In file included from ../inst/include/cvodes/cvodes_ls.h:21:
In file included from ../inst/include/sundials/sundials_direct.h:22:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:75:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types/_va_list.h:31:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/types.h:37:2: error: architecture not supported
#error architecture not supported
^
In file included from cvodes/cvodes_nls_stg1.c:17:
In file included from cvodes/cvodes_impl.h:22:
In file included from ../inst/include/cvodes/cvodes.h:20:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:75:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types/_va_list.h:31:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/types.h:37:2: error: architecture not supported
In file included from cvodes/cvodes_io.c:18:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:75:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types/_va_list.h:31:
#error architecture not supported/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/types.h
: ^37
:2: error: architecture not supported
#error architecture not supported
^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
fatal error: too many errors emitted, stopping now [-ferror-limit=]
fatal error: too many errors emitted, stopping now [-ferror-limit=]
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
make: *** [cvodes/cvodes_spils.o] Error 1
make: *** Waiting for unfinished jobs....
20 errors generated.
20 errors generated.
make: *** [cvodes/cvodes_nls_stg1.o] Error 1
20 errors generated.
make: *** [cvodes/cvodes_bbdpre.o] Error 1
make: *** [cvodes/cvodes_io.o] Error 1
ERROR: compilation failed for package ‘StanHeaders’
* removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/StanHeaders’
* restoring previous ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/StanHeaders’
Warning in install.packages :
installation of package ‘StanHeaders’ had non-zero exit status
The downloaded source packages are in
‘/private/var/folders/tj/qn23sbps7qxbhtqsj4tmncyr0000gn/T/RtmpS63G3u/downloaded_packages’
Thank you so much!!