error: reference to 'thread' is ambiguous

http://beefy12.nyi.freebsd.org/data/head-amd64-default/p509571_s351370/logs/cufflinks-2.2.1.83_1.log (IPv6)

cufflinks.cpp:1176:17: warning: unused variable 'map_mass' [-Wunused-variable]
    long double map_mass = rg_props->normalized_map_mass();
                ^
cufflinks.cpp:1522:3: error: reference to 'thread' is ambiguous
                thread asmbl(assemble_bundle,
                ^
/usr/include/c++/v1/__threading_support:397:24: note: candidate found by name lookup is 'std::__1::thread'
class _LIBCPP_TYPE_VIS thread;
                       ^
/usr/local/include/boost/thread/detail/thread.hpp:163:29: note: candidate found by name lookup is 'boost::thread'
    class BOOST_THREAD_DECL thread
                            ^
In file included from cufflinks.cpp:23:
In file included from ./filters.h:18:
./genes.h:210:6: warning: private field '_id' is not used [-Wunused-private-field]
        int _id;
            ^

cole-trapnell-lab / cufflinks

error: reference to 'thread' is ambiguous #123