=> Bootstrap dependency digest>=20010302: found digest-20190127
===> Building for openbabel-3.0.0nb1
Scanning dependencies of target openbabel
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In member function 'void OpenBabel::OBMol::ConnectTheDots()':
cc1plus: warning: 'void* __builtin_memset(void*, int, long unsigned int)': specified size 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
[  5%] Building CXX object src/CMakeFiles/openbabel.dir/obconversion.cpp.o
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In file included from /tmp/pkgbuild/biology/openbabel/work.alpha/.buildlink/include/eigen2/Eigen/Array:28:0,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/.buildlink/include/eigen2/Eigen/Geometry:8,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/math/align.cpp:33:
/tmp/pkgbuild/biology/openbabel/work.alpha/.buildlink/include/eigen2/Eigen/src/Array/Functors.h:266:31: warning: 'template<class _Operation> class std::binder2nd' is deprecated [-Wdeprecated-declarations]
 struct ei_functor_traits<std::binder2nd<T> >
                               ^~~~~~~~~
In file included from /usr/include/g++/bits/stl_function.h:1127:0,
                 from /usr/include/g++/string:48,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/mol.h:45,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/math/align.h:22,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/math/align.cpp:24:
/usr/include/g++/backward/binders.h:143:11: note: declared here
     class binder2nd
           ^~~~~~~~~
In file included from /tmp/pkgbuild/biology/openbabel/work.alpha/.buildlink/include/eigen2/Eigen/Array:28:0,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/.buildlink/include/eigen2/Eigen/Geometry:8,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/math/align.cpp:33:
/tmp/pkgbuild/biology/openbabel/work.alpha/.buildlink/include/eigen2/Eigen/src/Array/Functors.h:270:31: warning: 'template<class _Operation> class std::binder1st' is deprecated [-Wdeprecated-declarations]
 struct ei_functor_traits<std::binder1st<T> >
                               ^~~~~~~~~
In file included from /usr/include/g++/bits/stl_function.h:1127:0,
                 from /usr/include/g++/string:48,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/mol.h:45,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/math/align.h:22,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/math/align.cpp:24:
/usr/include/g++/backward/binders.h:108:11: note: declared here
     class binder1st
           ^~~~~~~~~
[ 12%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/stereo.cpp.o
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/tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/stereo/perception.cpp: In function 'void OpenBabel::StereoRefToImplicit(OpenBabel::OBMol&, OpenBabel::OBStereo::Ref)':
/tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/stereo/perception.cpp:2880:16: warning: 'template<class _Operation> class std::binder1st' is deprecated [-Wdeprecated-declarations]
     const std::binder1st<std::equal_to<OBStereo::Ref> > equal_to_atomId = std::bind1st (equal_to<OBStereo::Ref>(), atomId);
                ^~~~~~~~~
In file included from /usr/include/g++/bits/stl_function.h:1127:0,
                 from /usr/include/g++/bits/stl_tree.h:65,
                 from /usr/include/g++/map:60,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/base.h:26,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/stereo/stereo.h:27,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/stereo/tetranonplanar.h:27,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/stereo/tetrahedral.h:27,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/stereo/perception.cpp:26:
/usr/include/g++/backward/binders.h:108:11: note: declared here
     class binder1st
           ^~~~~~~~~
/tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/stereo/perception.cpp: In function 'void OpenBabel::ImplicitRefToStereo(OpenBabel::OBMol&, OpenBabel::OBStereo::Ref, OpenBabel::OBStereo::Ref)':
/tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/stereo/perception.cpp:2912:16: warning: 'template<class _Operation> class std::binder1st' is deprecated [-Wdeprecated-declarations]
     const std::binder1st<std::equal_to<OBStereo::Ref> > equal_to_implicitRef = std::bind1st (equal_to<OBStereo::Ref>(), (OBStereo::Ref) OBStereo::ImplicitRef);
                ^~~~~~~~~
In file included from /usr/include/g++/bits/stl_function.h:1127:0,
                 from /usr/include/g++/bits/stl_tree.h:65,
                 from /usr/include/g++/map:60,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/base.h:26,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/stereo/stereo.h:27,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/stereo/tetranonplanar.h:27,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/include/openbabel/stereo/tetrahedral.h:27,
                 from /tmp/pkgbuild/biology/openbabel/work.alpha/openbabel-openbabel-3-0-0/src/stereo/perception.cpp:26:
/usr/include/g++/backward/binders.h:108:11: note: declared here
     class binder1st
           ^~~~~~~~~
[ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/facade.cpp.o
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ld: CMakeFiles/test_runner.dir/addhtest.cpp.o: in function `addh_check(OpenBabel::OBMol*)':
(.text+0x3c): warning: Warning: reference to the libc supplied alloca(3); this most likely will not work. Please use the compiler provided version of alloca(3), by supplying the appropriate compiler flags (e.g. not -std=c89).
ld: (.text+0x3c): undefined reference to `alloca'
ld: (.text+0x4c): undefined reference to `alloca'
*** Error code 1

Stop.
make[2]: stopped in /tmp/pkgbuild/biology/openbabel/work.alpha/build
*** Error code 1

Stop.
make[1]: stopped in /tmp/pkgbuild/biology/openbabel/work.alpha/build
*** Error code 1

Stop.
make: stopped in /tmp/pkgbuild/biology/openbabel/work.alpha/build
*** Error code 1

Stop.
make[1]: stopped in /usr/pkgsrc/biology/openbabel
*** Error code 1

Stop.
make: stopped in /usr/pkgsrc/biology/openbabel