https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=274927
Bug ID: 274927
Summary: Toolchain fails on the __sync_val_compare_and_swap
function without -march=native (port biology/seqwish)
Product: Base System
Version: 13.2-STABLE
Hardware: Any
OS: Any
Status: New
Severity: Affects Only Me
Priority: ---
Component: bin
Assignee: [email protected]
Reporter: [email protected]
The port biology/seqwish fails when -march=native is removed.
I couldn't reproduce this on a smaller example.
Un-commenting CMAKE_ARGS=-DEXTRA_FLAGS="" in the port's makefile causes removal
of -march=native in the cmake script, which triggers this build failure:
ld: error: undefined symbol: __sync_val_compare_and_swap_16
>>> referenced by transclosure.cpp
>>>
>>> CMakeFiles/seqwish.dir/src/transclosure.cpp.o:(std::__1::__function::__func<seqwish::compute_transitive_closures(seqwish::seqindex_t
>>> const&, mmmulti::iitree<unsigned long, unsigned long>&,
>>> std::__1::basic_string<char, std::__1::char_traits<char>,
>>> std::__1::allocator<char>> const&, mmmulti::iitree<unsigned long, unsigned
>>> long>&, mmmulti::iitree<unsigned long, unsigned long>&, unsigned long,
>>> unsigned long, unsigned long, bool, unsigned long,
>>> std::__1::chrono::time_point<std::__1::chrono::steady_clock,
>>> std::__1::chrono::duration<long long, std::__1::ratio<1l, 1000000000l>>>
>>> const&)::$_5,
>>> std::__1::allocator<seqwish::compute_transitive_closures(seqwish::seqindex_t
>>> const&, mmmulti::iitree<unsigned long, unsigned long>&,
>>> std::__1::basic_string<char, std::__1::char_traits<char>,
>>> std::__1::allocator<char>> const&, mmmulti::iitree<unsigned long, unsigned
>>> long>&, mmmulti::iitree<unsigned long, unsigned long>&, unsigned long,
>>> unsigned long, unsigned long, bool, unsigned long,
>>> std::__1::chrono::time_point<std::__1::chrono::steady_clock,
>>> std::__1::chrono::duration<long long, std::__1::ratio<1l, 1000000000l>>>
>>> const&)::$_5>, void (unsigned long)>::operator()(unsigned long&&))
>>> referenced by transclosure.cpp
>>>
>>> CMakeFiles/seqwish.dir/src/transclosure.cpp.o:(seqwish::DisjointSets::unite(unsigned
>>> long, unsigned long))
>>> referenced by transclosure.cpp
>>>
>>> CMakeFiles/seqwish.dir/src/transclosure.cpp.o:(seqwish::DisjointSets::unite(unsigned
>>> long, unsigned long))
>>> referenced 2 more times
c++: error: linker command failed with exit code 1 (use -v to see invocation)
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