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ivujevic / tachyon

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Unable to compile on M1 Mac mini #2

Open josesho opened 3 years ago

josesho commented 3 years ago

Hi,

I am running a 2020 M1 Mac Mini.

After following the install instructions and running make, I get the following:

(base) josesho@joses-mac-mini build % make
-- Configuring done
-- Generating done
-- Build files have been written to: /Users/josesho/git-repos/tachyon/build
Consolidate compiler generated dependencies of target Utils
[  4%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/FastaFileUtils.cpp.o
clang: error: the clang compiler does not support '-march=native'
make[2]: *** [CMakeFiles/Utils.dir/Utils/Source/FastaFileUtils.cpp.o] Error 1
make[1]: *** [CMakeFiles/Utils.dir/all] Error 2
make: *** [all] Error 2

Removing the line -march=native from CMakeLists.txt produces the following instead:

-- Configuring done
-- Generating done
-- Build files have been written to: /Users/josesho/git-repos/tachyon/build
Consolidate compiler generated dependencies of target Utils
[  4%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/FastaFileUtils.cpp.o
[  8%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/Logger.cpp.o
[ 12%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/StringStream.cpp.o
[ 16%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/Seg.cpp.o
[ 20%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/Timer.cpp.o
[ 25%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/BinaryStream.cpp.o
[ 29%] Building CXX object CMakeFiles/Utils.dir/Utils/Source/DNATranslator.cpp.o
[ 33%] Linking CXX static library libUtils.a
[ 33%] Built target Utils
Consolidate compiler generated dependencies of target Aligner
[ 37%] Building CXX object CMakeFiles/Aligner.dir/Aligner/Source/Aligner.cpp.o
[ 41%] Building CXX object CMakeFiles/Aligner.dir/Aligner/Source/EValue.cpp.o
[ 45%] Building CXX object CMakeFiles/Aligner.dir/Aligner/Source/Opal/opal.cpp.o
In file included from /Users/josesho/git-repos/tachyon/Aligner/Source/Opal/opal.cpp:9:
In file included from /Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/immintrin.h:15:
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:33:5: error: use of undeclared identifier '__builtin_ia32_emms'; did you mean '__builtin_isless'?
    __builtin_ia32_emms();
    ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:33:5: note: '__builtin_isless' declared here
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:33:25: error: too few arguments to function call, expected 2, have 0
    __builtin_ia32_emms();
                        ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:50:19: error: use of undeclared identifier '__builtin_ia32_vec_init_v2si'
    return (__m64)__builtin_ia32_vec_init_v2si(__i, 0);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:67:12: error: use of undeclared identifier '__builtin_ia32_vec_ext_v2si'
    return __builtin_ia32_vec_ext_v2si((__v2si)__m, 0);
           ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:129:19: error: use of undeclared identifier '__builtin_ia32_packsswb'
    return (__m64)__builtin_ia32_packsswb((__v4hi)__m1, (__v4hi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:159:19: error: use of undeclared identifier '__builtin_ia32_packssdw'
    return (__m64)__builtin_ia32_packssdw((__v2si)__m1, (__v2si)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:189:19: error: use of undeclared identifier '__builtin_ia32_packuswb'
    return (__m64)__builtin_ia32_packuswb((__v4hi)__m1, (__v4hi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:216:19: error: use of undeclared identifier '__builtin_ia32_punpckhbw'
    return (__m64)__builtin_ia32_punpckhbw((__v8qi)__m1, (__v8qi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:239:19: error: use of undeclared identifier '__builtin_ia32_punpckhwd'
    return (__m64)__builtin_ia32_punpckhwd((__v4hi)__m1, (__v4hi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:260:19: error: use of undeclared identifier '__builtin_ia32_punpckhdq'
    return (__m64)__builtin_ia32_punpckhdq((__v2si)__m1, (__v2si)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:287:19: error: use of undeclared identifier '__builtin_ia32_punpcklbw'
    return (__m64)__builtin_ia32_punpcklbw((__v8qi)__m1, (__v8qi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:310:19: error: use of undeclared identifier '__builtin_ia32_punpcklwd'
    return (__m64)__builtin_ia32_punpcklwd((__v4hi)__m1, (__v4hi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:331:19: error: use of undeclared identifier '__builtin_ia32_punpckldq'
    return (__m64)__builtin_ia32_punpckldq((__v2si)__m1, (__v2si)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:352:19: error: use of undeclared identifier '__builtin_ia32_paddb'; did you mean '__builtin_arm_addg'?
    return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:352:19: error: first argument of MTE builtin function must be a pointer ('__v8qi' (vector of 8 'char' values) invalid)
    return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
                  ^                    ~~~~~~~~~~~~
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:373:19: error: use of undeclared identifier '__builtin_ia32_paddw'; did you mean '__builtin_arm_addg'?
    return (__m64)__builtin_ia32_paddw((__v4hi)__m1, (__v4hi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
    return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:373:19: error: first argument of MTE builtin function must be a pointer ('__v4hi' (vector of 4 'short' values) invalid)
    return (__m64)__builtin_ia32_paddw((__v4hi)__m1, (__v4hi)__m2);
                  ^                    ~~~~~~~~~~~~
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:394:19: error: use of undeclared identifier '__builtin_ia32_paddd'; did you mean '__builtin_arm_addg'?
    return (__m64)__builtin_ia32_paddd((__v2si)__m1, (__v2si)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
    return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
                  ^
/Library/Developer/CommandLineTools/usr/lib/clang/12.0.5/include/mmintrin.h:394:19: error: first argument of MTE builtin function must be a pointer ('__v2si' (vector of 2 'int' values) invalid)
    return (__m64)__builtin_ia32_paddd((__v2si)__m1, (__v2si)__m2);
                  ^                    ~~~~~~~~~~~~
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.

The issue is exactly the same if I switch from an arm64 architecture to Intel with env /usr/bin/arch -x86_64 /bin/zsh --login

Any help is appreciated!

Joses

ivujevic commented 3 years ago

Hi, many thanks for your report. Opal library is used for SW alignment in Tachyon and it uses Intel SIMD vectorization. That's why you can't compile on your ARM-based M1 Mac mini. I will try to fix it as soon as possible.