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Date:      Sun, 15 Sep 2019 03:20:49 GMT
From:      pkg-fallout@FreeBSD.org
To:        pkg-fallout@FreeBSD.org
Subject:   [package - 112armv6-quarterly][biology/unanimity] Failed for unanimity-3.4.1_1 in build
Message-ID:  <201909150320.x8F3KnqD021407@beefy15.nyi.freebsd.org>

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You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.

Maintainer:     jwb@FreeBSD.org
Last committer: jbeich@FreeBSD.org
Ident:          $FreeBSD: branches/2019Q3/biology/unanimity/Makefile 498698 2019-04-12 06:36:31Z jbeich $
Log URL:        http://beefy15.nyi.freebsd.org/data/112armv6-quarterly/512050/logs/unanimity-3.4.1_1.log
Build URL:      http://beefy15.nyi.freebsd.org/build.html?mastername=112armv6-quarterly&build=512050
Log:

=>> Building biology/unanimity
build started at Sun Sep 15 03:16:46 UTC 2019
port directory: /usr/ports/biology/unanimity
package name: unanimity-3.4.1_1
building for: FreeBSD 112armv6-quarterly-job-15 11.2-RELEASE-p14 FreeBSD 11.2-RELEASE-p14 1102000 arm
maintained by: jwb@FreeBSD.org
Makefile ident:      $FreeBSD: branches/2019Q3/biology/unanimity/Makefile 498698 2019-04-12 06:36:31Z jbeich $
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=======================<phase: check-sanity   >============================
===>  License BSD3CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   unanimity-3.4.1_1 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.11.1.txz
[112armv6-quarterly-job-15] Installing pkg-1.11.1...
[112armv6-quarterly-job-15] Extracting pkg-1.11.1: .......... done
===>   unanimity-3.4.1_1 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of unanimity-3.4.1_1
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by unanimity-3.4.1_1 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by unanimity-3.4.1_1 for building
=> SHA256 Checksum OK for PacificBiosciences-unanimity-v3.4.1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
<snip>
/usr/include/c++/v1/iterator:1425:74: note: in instantiation of member function 'std::__1::__vector_base<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> >::~__vector_base' requested here
    template <class _Tp, class _Alloc> friend class _LIBCPP_TEMPLATE_VIS vector;
                                                                         ^
/usr/include/c++/v1/memory:1860:64: note: qualify call to silence this warning
    _LIBCPP_INLINE_VISIBILITY void destroy(pointer __p) {__p->~_Tp();}
                                                               ^
1 warning generated.
[35/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/Integrator.cpp.o' -MF 'src/25a6634@@unanimity@sha/Integrator.cpp.o.d' -o 'src/25a6634@@unanimity@sha/Integrator.cpp.o' -c ../src/Integrator.cpp
In file included from ../src/Integrator.cpp:7:
In file included from /usr/include/c++/v1/numeric:144:
In file included from /usr/include/c++/v1/functional:487:
/usr/include/c++/v1/memory:1860:58: warning: destructor called on non-final 'PacBio::Consensus::Mutation' that has virtual functions but non-virtual destructor [-Wdelete-non-virtual-dtor]
    _LIBCPP_INLINE_VISIBILITY void destroy(pointer __p) {__p->~_Tp();}
                                                         ^
/usr/include/c++/v1/memory:1727:18: note: in instantiation of member function 'std::__1::allocator<PacBio::Consensus::Mutation>::destroy' requested here
            {__a.destroy(__p);}
                 ^
/usr/include/c++/v1/memory:1595:14: note: in instantiation of function template specialization 'std::__1::allocator_traits<std::__1::allocator<PacBio::Consensus::Mutation> >::__destroy<PacBio::Consensus::Mutation>' requested here
            {__destroy(__has_destroy<allocator_type, _Tp*>(), __a, __p);}
             ^
/usr/include/c++/v1/vector:413:25: note: in instantiation of function template specialization 'std::__1::allocator_traits<std::__1::allocator<PacBio::Consensus::Mutation> >::destroy<PacBio::Consensus::Mutation>' requested here
        __alloc_traits::destroy(__alloc(), _VSTD::__to_raw_pointer(--__soon_to_be_end));
                        ^
/usr/include/c++/v1/vector:356:29: note: in instantiation of member function 'std::__1::__vector_base<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> >::__destruct_at_end' requested here
    void clear() _NOEXCEPT {__destruct_at_end(__begin_);}
                            ^
/usr/include/c++/v1/vector:441:9: note: in instantiation of member function 'std::__1::__vector_base<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> >::clear' requested here
        clear();
        ^
/usr/include/c++/v1/iterator:1425:74: note: in instantiation of member function 'std::__1::__vector_base<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> >::~__vector_base' requested here
    template <class _Tp, class _Alloc> friend class _LIBCPP_TEMPLATE_VIS vector;
                                                                         ^
/usr/include/c++/v1/memory:1860:64: note: qualify call to silence this warning
    _LIBCPP_INLINE_VISIBILITY void destroy(pointer __p) {__p->~_Tp();}
                                                               ^
1 warning generated.
[36/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/IntervalMask.cpp.o' -MF 'src/25a6634@@unanimity@sha/IntervalMask.cpp.o.d' -o 'src/25a6634@@unanimity@sha/IntervalMask.cpp.o' -c ../src/IntervalMask.cpp
[37/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ModelConfig.cpp.o' -MF 'src/25a6634@@unanimity@sha/ModelConfig.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ModelConfig.cpp.o' -c ../src/ModelConfig.cpp
[38/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ModelFactory.cpp.o' -MF 'src/25a6634@@unanimity@sha/ModelFactory.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ModelFactory.cpp.o' -c ../src/ModelFactory.cpp
[39/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ModelFormFactory.cpp.o' -MF 'src/25a6634@@unanimity@sha/ModelFormFactory.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ModelFormFactory.cpp.o' -c ../src/ModelFormFactory.cpp
[40/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ModelSelection.cpp.o' -MF 'src/25a6634@@unanimity@sha/ModelSelection.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ModelSelection.cpp.o' -c ../src/ModelSelection.cpp
[41/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/Mutation.cpp.o' -MF 'src/25a6634@@unanimity@sha/Mutation.cpp.o.d' -o 'src/25a6634@@unanimity@sha/Mutation.cpp.o' -c ../src/Mutation.cpp
[42/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/Polish.cpp.o' -MF 'src/25a6634@@unanimity@sha/Polish.cpp.o.d' -o 'src/25a6634@@unanimity@sha/Polish.cpp.o' -c ../src/Polish.cpp
In file included from ../src/Polish.cpp:3:
In file included from /usr/include/c++/v1/algorithm:643:
/usr/include/c++/v1/memory:1860:58: warning: destructor called on non-final 'PacBio::Consensus::Mutation' that has virtual functions but non-virtual destructor [-Wdelete-non-virtual-dtor]
    _LIBCPP_INLINE_VISIBILITY void destroy(pointer __p) {__p->~_Tp();}
                                                         ^
/usr/include/c++/v1/memory:1727:18: note: in instantiation of member function 'std::__1::allocator<PacBio::Consensus::Mutation>::destroy' requested here
            {__a.destroy(__p);}
                 ^
/usr/include/c++/v1/memory:1595:14: note: in instantiation of function template specialization 'std::__1::allocator_traits<std::__1::allocator<PacBio::Consensus::Mutation> >::__destroy<PacBio::Consensus::Mutation>' requested here
            {__destroy(__has_destroy<allocator_type, _Tp*>(), __a, __p);}
             ^
/usr/include/c++/v1/__split_buffer:296:25: note: in instantiation of function template specialization 'std::__1::allocator_traits<std::__1::allocator<PacBio::Consensus::Mutation> >::destroy<PacBio::Consensus::Mutation>' requested here
        __alloc_traits::destroy(__alloc(), __to_raw_pointer(--__end_));
                        ^
/usr/include/c++/v1/__split_buffer:141:10: note: in instantiation of member function 'std::__1::__split_buffer<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> &>::__destruct_at_end' requested here
        {__destruct_at_end(__new_last, false_type());}
         ^
/usr/include/c++/v1/__split_buffer:88:10: note: in instantiation of member function 'std::__1::__split_buffer<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> &>::__destruct_at_end' requested here
        {__destruct_at_end(__begin_);}
         ^
/usr/include/c++/v1/__split_buffer:341:5: note: in instantiation of member function 'std::__1::__split_buffer<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> &>::clear' requested here
    clear();
    ^
/usr/include/c++/v1/vector:1628:49: note: in instantiation of member function 'std::__1::__split_buffer<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> &>::~__split_buffer' requested here
    __split_buffer<value_type, allocator_type&> __v(__recommend(size() + 1), size(), __a);
                                                ^
/usr/include/c++/v1/vector:1655:9: note: in instantiation of function template specialization 'std::__1::vector<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> >::__emplace_back_slow_path<PacBio::Consensus::Mutation>' requested here
        __emplace_back_slow_path(_VSTD::forward<_Args>(__args)...);
        ^
./src/Polish.cpp:87:50: note: in instantiation of function template specialization 'std::__1::vector<PacBio::Consensus::Mutation, std::__1::allocator<PacBio::Consensus::Mutation> >::emplace_back<PacBio::Consensus::Mutation>' requested here
            if (!containedWithin(last, j)) muts->emplace_back(Mutation::Insertion(i, j));
                                                 ^
/usr/include/c++/v1/memory:1860:64: note: qualify call to silence this warning
    _LIBCPP_INLINE_VISIBILITY void destroy(pointer __p) {__p->~_Tp();}
                                                               ^
/usr/include/c++/v1/memory:1732:17: warning: destructor called on non-final 'PacBio::Consensus::ScoredMutation' that has virtual functions but non-virtual destructor [-Wdelete-non-virtual-dtor]
                __p->~_Tp();
                ^
/usr/include/c++/v1/memory:1595:14: note: in instantiation of function template specialization 'std::__1::allocator_traits<std::__1::allocator<std::__1::__list_node<PacBio::Consensus::ScoredMutation, void *> > >::__destroy<PacBio::Consensus::ScoredMutation>' requested here
            {__destroy(__has_destroy<allocator_type, _Tp*>(), __a, __p);}
             ^
/usr/include/c++/v1/list:1830:34: note: in instantiation of function template specialization 'std::__1::allocator_traits<std::__1::allocator<std::__1::__list_node<PacBio::Consensus::ScoredMutation, void *> > >::destroy<PacBio::Consensus::ScoredMutation>' requested here
            __node_alloc_traits::destroy(__na, _VSTD::addressof(__np->__value_));
                                 ^
/usr/include/c++/v1/list:2131:19: note: in instantiation of member function 'std::__1::list<PacBio::Consensus::ScoredMutation, std::__1::allocator<PacBio::Consensus::ScoredMutation> >::erase' requested here
            __i = erase(__i, __j);
                  ^
./src/Polish.cpp:181:21: note: in instantiation of function template specialization 'std::__1::list<PacBio::Consensus::ScoredMutation, std::__1::allocator<PacBio::Consensus::ScoredMutation> >::remove_if<(lambda at ../src/Polish.cpp:182:13)>' requested here
        scoredMuts->remove_if(
                    ^
/usr/include/c++/v1/memory:1732:23: note: qualify call to silence this warning
                __p->~_Tp();
                      ^
2 warnings generated.
[43/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/PolishResult.cpp.o' -MF 'src/25a6634@@unanimity@sha/PolishResult.cpp.o.d' -o 'src/25a6634@@unanimity@sha/PolishResult.cpp.o' -c ../src/PolishResult.cpp
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[45/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/Recursor.cpp.o' -MF 'src/25a6634@@unanimity@sha/Recursor.cpp.o.d' -o 'src/25a6634@@unanimity@sha/Recursor.cpp.o' -c ../src/Recursor.cpp
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[47/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/Template.cpp.o' -MF 'src/25a6634@@unanimity@sha/Template.cpp.o.d' -o 'src/25a6634@@unanimity@sha/Template.cpp.o' -c ../src/Template.cpp
[48/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_FastaWriter.cpp.o' -MF 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_FastaWriter.cpp.o.d' -o 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_FastaWriter.cpp.o' -c ../src/genomicconsensus/experimental/io/FastaWriter.cpp
[49/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_FastqWriter.cpp.o' -MF 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_FastqWriter.cpp.o.d' -o 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_FastqWriter.cpp.o' -c ../src/genomicconsensus/experimental/io/FastqWriter.cpp
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[51/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_VcfWriter.cpp.o' -MF 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_VcfWriter.cpp.o.d' -o 'src/25a6634@@unanimity@sha/genomicconsensus_experimental_io_VcfWriter.cpp.o' -c ../src/genomicconsensus/experimental/io/VcfWriter.cpp
[52/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/.._third-party_cpp-optparse_OptionParser.cpp.o' -MF 'src/25a6634@@unanimity@sha/.._third-party_cpp-optparse_OptionParser.cpp.o.d' -o 'src/25a6634@@unanimity@sha/.._third-party_cpp-optparse_OptionParser.cpp.o' -c ../third-party/cpp-optparse/OptionParser.cpp
[53/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ChemistryMapping.cpp.o' -MF 'src/25a6634@@unanimity@sha/ChemistryMapping.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ChemistryMapping.cpp.o' -c ../src/ChemistryMapping.cpp
[54/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ChemistryTriple.cpp.o' -MF 'src/25a6634@@unanimity@sha/ChemistryTriple.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ChemistryTriple.cpp.o' -c ../src/ChemistryTriple.cpp
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[56/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ReadId.cpp.o' -MF 'src/25a6634@@unanimity@sha/ReadId.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ReadId.cpp.o' -c ../src/ReadId.cpp
[57/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/SparsePoa.cpp.o' -MF 'src/25a6634@@unanimity@sha/SparsePoa.cpp.o.d' -o 'src/25a6634@@unanimity@sha/SparsePoa.cpp.o' -c ../src/SparsePoa.cpp
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[61/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/ConsensusSettings.cpp.o' -MF 'src/25a6634@@unanimity@sha/ConsensusSettings.cpp.o.d' -o 'src/25a6634@@unanimity@sha/ConsensusSettings.cpp.o' -c ../src/ConsensusSettings.cpp
[62/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/LocalAlignment.cpp.o' -MF 'src/25a6634@@unanimity@sha/LocalAlignment.cpp.o.d' -o 'src/25a6634@@unanimity@sha/LocalAlignment.cpp.o' -c ../src/LocalAlignment.cpp
[63/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_P6C4NoCov_Model.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_P6C4NoCov_Model.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_P6C4NoCov_Model.cpp.o' -c ../src/models/P6C4NoCov_Model.cpp
[64/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_S_P1C1Beta_Model.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_S_P1C1Beta_Model.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_S_P1C1Beta_Model.cpp.o' -c ../src/models/S_P1C1Beta_Model.cpp
[65/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_S_P1C1v1_Model.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_S_P1C1v1_Model.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_S_P1C1v1_Model.cpp.o' -c ../src/models/S_P1C1v1_Model.cpp
[66/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_S_P1C1v2_Model.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_S_P1C1v2_Model.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_S_P1C1v2_Model.cpp.o' -c ../src/models/S_P1C1v2_Model.cpp
[67/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_S_P2C2v5_Model.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_S_P2C2v5_Model.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_S_P2C2v5_Model.cpp.o' -c ../src/models/S_P2C2v5_Model.cpp
[68/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_MarginalModelForm.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_MarginalModelForm.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_MarginalModelForm.cpp.o' -c ../src/models/MarginalModelForm.cpp
[69/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_PwSnrAModelForm.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_PwSnrAModelForm.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_PwSnrAModelForm.cpp.o' -c ../src/models/PwSnrAModelForm.cpp
[70/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_PwSnrModelForm.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_PwSnrModelForm.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_PwSnrModelForm.cpp.o' -c ../src/models/PwSnrModelForm.cpp
[71/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/models_SnrModelForm.cpp.o' -MF 'src/25a6634@@unanimity@sha/models_SnrModelForm.cpp.o.d' -o 'src/25a6634@@unanimity@sha/models_SnrModelForm.cpp.o' -c ../src/models/SnrModelForm.cpp
[72/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/meson-generated_.._ModelInternalInitializer.cpp.o' -MF 'src/25a6634@@unanimity@sha/meson-generated_.._ModelInternalInitializer.cpp.o.d' -o 'src/25a6634@@unanimity@sha/meson-generated_.._ModelInternalInitializer.cpp.o' -c src/ModelInternalInitializer.cpp
[73/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/meson-generated_.._UnanimityVersion.cpp.o' -MF 'src/25a6634@@unanimity@sha/meson-generated_.._UnanimityVersion.cpp.o.d' -o 'src/25a6634@@unanimity@sha/meson-generated_.._UnanimityVersion.cpp.o' -c src/UnanimityVersion.cpp
[74/97] /nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/.._third-party_cssw_ssw_cpp.cpp.o' -MF 'src/25a6634@@unanimity@sha/.._third-party_cssw_ssw_cpp.cpp.o.d' -o 'src/25a6634@@unanimity@sha/.._third-party_cssw_ssw_cpp.cpp.o' -c ../third-party/cssw/ssw_cpp.cpp
FAILED: src/25a6634@@unanimity@sha/.._third-party_cssw_ssw_cpp.cpp.o 
/nxb-bin/usr/bin/c++ -Isrc/25a6634@@unanimity@sha -Isrc -I../src -Iinclude -I../include -I../include/pacbio -I../third-party/cssw/ -I/usr/local/include -Xclang -fcolor-diagnostics -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++14 -O3 -O2 -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -isystem /usr/local/include -fPIC -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -pthread -Wno-unused-parameter -Wno-non-virtual-dtor -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedef -MD -MQ 'src/25a6634@@unanimity@sha/.._third-party_cssw_ssw_cpp.cpp.o' -MF 'src/25a6634@@unanimity@sha/.._third-party_cssw_ssw_cpp.cpp.o.d' -o 'src/25a6634@@unanimity@sha/.._third-party_cssw_ssw_cpp.cpp.o' -c ../third-party/cssw/ssw_cpp.cpp
In file included from ../third-party/cssw/ssw_cpp.cpp:2:
In file included from ../third-party/cssw/ssw.h:17:
In file included from /nxb-bin/usr/lib/clang/6.0.0/include/emmintrin.h:27:
In file included from /nxb-bin/usr/lib/clang/6.0.0/include/xmmintrin.h:27:
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:47:5: error: use of undeclared identifier '__builtin_ia32_emms'; did you mean '__builtin_isless'?
    __builtin_ia32_emms();
    ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:47:5: note: '__builtin_isless' declared here
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:47:25: error: too few arguments to function call, expected 2, have 0
    __builtin_ia32_emms();
                        ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:64:19: error: use of undeclared identifier '__builtin_ia32_vec_init_v2si'
    return (__m64)__builtin_ia32_vec_init_v2si(__i, 0);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:81:12: error: use of undeclared identifier '__builtin_ia32_vec_ext_v2si'
    return __builtin_ia32_vec_ext_v2si((__v2si)__m, 0);
           ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:143:19: error: use of undeclared identifier '__builtin_ia32_packsswb'
    return (__m64)__builtin_ia32_packsswb((__v4hi)__m1, (__v4hi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:173:19: error: use of undeclared identifier '__builtin_ia32_packssdw'
    return (__m64)__builtin_ia32_packssdw((__v2si)__m1, (__v2si)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:203:19: error: use of undeclared identifier '__builtin_ia32_packuswb'
    return (__m64)__builtin_ia32_packuswb((__v4hi)__m1, (__v4hi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:230:19: error: use of undeclared identifier '__builtin_ia32_punpckhbw'
    return (__m64)__builtin_ia32_punpckhbw((__v8qi)__m1, (__v8qi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:253:19: error: use of undeclared identifier '__builtin_ia32_punpckhwd'
    return (__m64)__builtin_ia32_punpckhwd((__v4hi)__m1, (__v4hi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:274:19: error: use of undeclared identifier '__builtin_ia32_punpckhdq'
    return (__m64)__builtin_ia32_punpckhdq((__v2si)__m1, (__v2si)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:301:19: error: use of undeclared identifier '__builtin_ia32_punpcklbw'
    return (__m64)__builtin_ia32_punpcklbw((__v8qi)__m1, (__v8qi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:324:19: error: use of undeclared identifier '__builtin_ia32_punpcklwd'
    return (__m64)__builtin_ia32_punpcklwd((__v4hi)__m1, (__v4hi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:345:19: error: use of undeclared identifier '__builtin_ia32_punpckldq'
    return (__m64)__builtin_ia32_punpckldq((__v2si)__m1, (__v2si)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:366:19: error: use of undeclared identifier '__builtin_ia32_paddb'
    return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:387:19: error: use of undeclared identifier '__builtin_ia32_paddw'
    return (__m64)__builtin_ia32_paddw((__v4hi)__m1, (__v4hi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:408:19: error: use of undeclared identifier '__builtin_ia32_paddd'
    return (__m64)__builtin_ia32_paddd((__v2si)__m1, (__v2si)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:430:19: error: use of undeclared identifier '__builtin_ia32_paddsb'
    return (__m64)__builtin_ia32_paddsb((__v8qi)__m1, (__v8qi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:453:19: error: use of undeclared identifier '__builtin_ia32_paddsw'
    return (__m64)__builtin_ia32_paddsw((__v4hi)__m1, (__v4hi)__m2);
                  ^
/nxb-bin/usr/lib/clang/6.0.0/include/mmintrin.h:475:19: error: use of undeclared identifier '__builtin_ia32_paddusb'
    return (__m64)__builtin_ia32_paddusb((__v8qi)__m1, (__v8qi)__m2);
                  ^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
ninja: build stopped: subcommand failed.
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/unanimity



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