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[ 1%] Building CXX object src/CMakeFiles/openbabel.dir/atom.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/atom.cpp.o -MF CMakeFiles/openbabel.dir/atom.cpp.o.d -o CMakeFiles/openbabel.dir/atom.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/atom.cpp } || exit $? 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[ 1%] Building CXX object src/CMakeFiles/openbabel.dir/bond.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/bond.cpp.o -MF CMakeFiles/openbabel.dir/bond.cpp.o.d -o CMakeFiles/openbabel.dir/bond.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/bond.cpp } || exit $? 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[ 2%] Building CXX object src/CMakeFiles/openbabel.dir/builder.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/builder.cpp.o -MF CMakeFiles/openbabel.dir/builder.cpp.o.d -o CMakeFiles/openbabel.dir/builder.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/builder.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/builder.cpp:31: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/canon.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/canon.cpp.o -MF CMakeFiles/openbabel.dir/canon.cpp.o.d -o CMakeFiles/openbabel.dir/canon.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/canon.cpp } || exit $? 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[ 3%] Building CXX object src/CMakeFiles/openbabel.dir/elements.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/elements.cpp.o -MF CMakeFiles/openbabel.dir/elements.cpp.o.d -o CMakeFiles/openbabel.dir/elements.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/elements.cpp } || exit $? 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[ 4%] Building CXX object src/CMakeFiles/openbabel.dir/format.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/format.cpp.o -MF CMakeFiles/openbabel.dir/format.cpp.o.d -o CMakeFiles/openbabel.dir/format.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/format.cpp } || exit $? 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[ 4%] Building CXX object src/CMakeFiles/openbabel.dir/generic.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/generic.cpp.o -MF CMakeFiles/openbabel.dir/generic.cpp.o.d -o CMakeFiles/openbabel.dir/generic.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/generic.cpp } || exit $? 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[ 5%] Building CXX object src/CMakeFiles/openbabel.dir/isomorphism.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/isomorphism.cpp.o -MF CMakeFiles/openbabel.dir/isomorphism.cpp.o.d -o CMakeFiles/openbabel.dir/isomorphism.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/isomorphism.cpp } || exit $? [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/kekulize.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/kekulize.cpp.o -MF CMakeFiles/openbabel.dir/kekulize.cpp.o.d -o CMakeFiles/openbabel.dir/kekulize.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/kekulize.cpp } || exit $? [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/locale.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/locale.cpp.o -MF CMakeFiles/openbabel.dir/locale.cpp.o.d -o CMakeFiles/openbabel.dir/locale.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/locale.cpp } || exit $? [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/matrix.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/matrix.cpp.o -MF CMakeFiles/openbabel.dir/matrix.cpp.o.d -o CMakeFiles/openbabel.dir/matrix.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/matrix.cpp } || exit $? [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/mcdlutil.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/mcdlutil.cpp.o -MF CMakeFiles/openbabel.dir/mcdlutil.cpp.o.d -o CMakeFiles/openbabel.dir/mcdlutil.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/mcdlutil.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:27: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:338:5: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(temp,"%d",k); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5036:95: warning: add explicit braces to avoid dangling else [-Wdangling-else] if (test2) for (j=0; jnBonds(); j++) if (bSTested[j]>=0) (*bondLabel)[j]=1; else (*bondLabel)[j]=0; ^ 3 warnings generated. [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/molchrg.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/molchrg.cpp.o -MF CMakeFiles/openbabel.dir/molchrg.cpp.o.d -o CMakeFiles/openbabel.dir/molchrg.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/molchrg.cpp } || exit $? [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/mol.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/mol.cpp.o -MF CMakeFiles/openbabel.dir/mol.cpp.o.d -o CMakeFiles/openbabel.dir/mol.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/mol.cpp } || exit $? [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/obconversion.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obconversion.cpp.o -MF CMakeFiles/openbabel.dir/obconversion.cpp.o.d -o CMakeFiles/openbabel.dir/obconversion.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obconversion.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obconversion.cpp:48: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obconversion.cpp:53: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/zipstream.h:333: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/zipstreamimpl.h:179:9: warning: reference cannot be bound to dereferenced null pointer in well-defined C++ code; pointer may be assumed to always convert to true [-Wundefined-bool-conversion] if(&_ostream) ~~ ^~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/zipstreamimpl.h:86:5: note: in instantiation of member function 'zlib_stream::basic_zip_streambuf::flush' requested here flush(); ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/zipstream.h:233:14: note: in instantiation of member function 'zlib_stream::basic_zip_streambuf::~basic_zip_streambuf' requested here explicit basic_zip_ostream(ostream_reference ostream, ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obconversion.cpp:398:46: note: in instantiation of member function 'zlib_stream::basic_zip_ostream::basic_zip_ostream' requested here zlib_stream::zip_ostream *zOut = new zlib_stream::zip_ostream(*pOutput, true); ^ 2 warnings generated. [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/oberror.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/oberror.cpp.o -MF CMakeFiles/openbabel.dir/oberror.cpp.o.d -o CMakeFiles/openbabel.dir/oberror.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/oberror.cpp } || exit $? [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/obfunctions.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obfunctions.cpp.o -MF CMakeFiles/openbabel.dir/obfunctions.cpp.o.d -o CMakeFiles/openbabel.dir/obfunctions.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obfunctions.cpp } || exit $? [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/obiter.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obiter.cpp.o -MF CMakeFiles/openbabel.dir/obiter.cpp.o.d -o CMakeFiles/openbabel.dir/obiter.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obiter.cpp } || exit $? [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/obutil.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obutil.cpp.o -MF CMakeFiles/openbabel.dir/obutil.cpp.o.d -o CMakeFiles/openbabel.dir/obutil.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obutil.cpp } || exit $? [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/op.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/op.cpp.o -MF CMakeFiles/openbabel.dir/op.cpp.o.d -o CMakeFiles/openbabel.dir/op.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/op.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/op.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/parsmart.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/parsmart.cpp.o -MF CMakeFiles/openbabel.dir/parsmart.cpp.o.d -o CMakeFiles/openbabel.dir/parsmart.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/parsmart.cpp } || exit $? [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/patty.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/patty.cpp.o -MF CMakeFiles/openbabel.dir/patty.cpp.o.d -o CMakeFiles/openbabel.dir/patty.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/patty.cpp } || exit $? [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/phmodel.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/phmodel.cpp.o -MF CMakeFiles/openbabel.dir/phmodel.cpp.o.d -o CMakeFiles/openbabel.dir/phmodel.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/phmodel.cpp } || exit $? [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/plugin.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/plugin.cpp.o -MF CMakeFiles/openbabel.dir/plugin.cpp.o.d -o CMakeFiles/openbabel.dir/plugin.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/plugin.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/plugin.cpp:20: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/pointgroup.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/pointgroup.cpp.o -MF CMakeFiles/openbabel.dir/pointgroup.cpp.o.d -o CMakeFiles/openbabel.dir/pointgroup.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/pointgroup.cpp } || exit $? 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[ 8%] Building CXX object src/CMakeFiles/openbabel.dir/rand.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/rand.cpp.o -MF CMakeFiles/openbabel.dir/rand.cpp.o.d -o CMakeFiles/openbabel.dir/rand.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/rand.cpp } || exit $? [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/reactionfacade.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/reactionfacade.cpp.o -MF CMakeFiles/openbabel.dir/reactionfacade.cpp.o.d -o CMakeFiles/openbabel.dir/reactionfacade.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/reactionfacade.cpp } || exit $? [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/residue.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/residue.cpp.o -MF CMakeFiles/openbabel.dir/residue.cpp.o.d -o CMakeFiles/openbabel.dir/residue.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/residue.cpp } || exit $? [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/ring.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/ring.cpp.o -MF CMakeFiles/openbabel.dir/ring.cpp.o.d -o CMakeFiles/openbabel.dir/ring.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ring.cpp } || exit $? 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[ 9%] Building CXX object src/CMakeFiles/openbabel.dir/rotor.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/rotor.cpp.o -MF CMakeFiles/openbabel.dir/rotor.cpp.o.d -o CMakeFiles/openbabel.dir/rotor.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/rotor.cpp } || exit $? [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/spectrophore.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/spectrophore.cpp.o -MF CMakeFiles/openbabel.dir/spectrophore.cpp.o.d -o CMakeFiles/openbabel.dir/spectrophore.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/spectrophore.cpp } || exit $? [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/tautomer.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/tautomer.cpp.o -MF CMakeFiles/openbabel.dir/tautomer.cpp.o.d -o CMakeFiles/openbabel.dir/tautomer.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/tautomer.cpp } || exit $? 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[ 10%] Building CXX object src/CMakeFiles/openbabel.dir/tokenst.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/tokenst.cpp.o -MF CMakeFiles/openbabel.dir/tokenst.cpp.o.d -o CMakeFiles/openbabel.dir/tokenst.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/tokenst.cpp } || exit $? [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/transform.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/transform.cpp.o -MF CMakeFiles/openbabel.dir/transform.cpp.o.d -o CMakeFiles/openbabel.dir/transform.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/transform.cpp } || exit $? 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[ 10%] Building CXX object src/CMakeFiles/openbabel.dir/typer.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/typer.cpp.o -MF CMakeFiles/openbabel.dir/typer.cpp.o.d -o CMakeFiles/openbabel.dir/typer.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/typer.cpp } || exit $? [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/obmolecformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obmolecformat.cpp.o -MF CMakeFiles/openbabel.dir/obmolecformat.cpp.o.d -o CMakeFiles/openbabel.dir/obmolecformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obmolecformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/obmolecformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/conformersearch.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/conformersearch.cpp.o -MF CMakeFiles/openbabel.dir/conformersearch.cpp.o.d -o CMakeFiles/openbabel.dir/conformersearch.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/conformersearch.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/conformersearch.cpp:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/confsearch.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/confsearch.cpp.o -MF CMakeFiles/openbabel.dir/confsearch.cpp.o.d -o CMakeFiles/openbabel.dir/confsearch.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/confsearch.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/confsearch.cpp:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/confsearch.cpp:134:59: warning: 'bind2nd, double>' is deprecated [-Wdeprecated-declarations] vec.erase(std::remove_if(vec.begin(), vec.end(), std::bind2nd(std::less(), (cutoff + 0.1) )), vec.end()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, double>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/confsearch.cpp:444:70: warning: 'bind2nd, double>' is deprecated [-Wdeprecated-declarations] transform(_energies.begin(), _energies.end(), _energies.begin(), bind2nd(std::plus(), energy_offset)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, double>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 3 warnings generated. [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/distgeom.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/distgeom.cpp.o -MF CMakeFiles/openbabel.dir/distgeom.cpp.o.d -o CMakeFiles/openbabel.dir/distgeom.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/distgeom.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/distgeom.cpp:38: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o -MF CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o.d -o CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/dlhandler_unix.cpp } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/dlhandler_unix.cpp:168:5: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%s did not load properly.\n Error: %s", ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 1 warning generated. [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/depict/depict.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/depict/depict.cpp.o -MF CMakeFiles/openbabel.dir/depict/depict.cpp.o.d -o CMakeFiles/openbabel.dir/depict/depict.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/depict.cpp } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1238:99: warning: expression does not compute the number of elements in this array; element type is 'const float', not 'double' [-Wsizeof-array-div] static const vector pat = vector(dashpattern,dashpattern + sizeof(dashpattern)/sizeof(double)); ~~~~~~~~~~~ ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1237:24: note: array 'dashpattern' declared here static const float dashpattern[] = {5., 5.}; ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1238:99: note: place parentheses around the 'sizeof(double)' expression to silence this warning static const vector pat = vector(dashpattern,dashpattern + sizeof(dashpattern)/sizeof(double)); ^ 1 warning generated. [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o -MF CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o.d -o CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/svgpainter.cpp } || exit $? [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o -MF CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o.d -o CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/math/matrix3x3.cpp } || exit $? [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/spacegroup.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/spacegroup.cpp.o -MF CMakeFiles/openbabel.dir/math/spacegroup.cpp.o.d -o CMakeFiles/openbabel.dir/math/spacegroup.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/math/spacegroup.cpp } || exit $? [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/transform3d.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/transform3d.cpp.o -MF CMakeFiles/openbabel.dir/math/transform3d.cpp.o.d -o CMakeFiles/openbabel.dir/math/transform3d.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/math/transform3d.cpp } || exit $? [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/vector3.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/vector3.cpp.o -MF CMakeFiles/openbabel.dir/math/vector3.cpp.o.d -o CMakeFiles/openbabel.dir/math/vector3.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/math/vector3.cpp } || exit $? [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/align.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/align.cpp.o -MF CMakeFiles/openbabel.dir/math/align.cpp.o.d -o CMakeFiles/openbabel.dir/math/align.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/math/align.cpp } || exit $? [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/stereo.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/stereo.cpp.o -MF CMakeFiles/openbabel.dir/stereo/stereo.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/stereo.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/stereo.cpp } || exit $? [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/tetranonplanar.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/tetranonplanar.cpp.o -MF CMakeFiles/openbabel.dir/stereo/tetranonplanar.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/tetranonplanar.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/tetranonplanar.cpp } || exit $? 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[ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/squareplanar.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/squareplanar.cpp.o -MF CMakeFiles/openbabel.dir/stereo/squareplanar.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/squareplanar.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/squareplanar.cpp } || exit $? [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/cistrans.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/cistrans.cpp.o -MF CMakeFiles/openbabel.dir/stereo/cistrans.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/cistrans.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/cistrans.cpp } || exit $? [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/tetrahedral.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/tetrahedral.cpp.o -MF CMakeFiles/openbabel.dir/stereo/tetrahedral.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/tetrahedral.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/tetrahedral.cpp } || exit $? [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/perception.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/perception.cpp.o -MF CMakeFiles/openbabel.dir/stereo/perception.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/perception.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:2973:80: warning: 'bind1st, unsigned long>' is deprecated [-Wdeprecated-declarations] const std::binder1st > equal_to_atomId = std::bind1st (equal_to(), atomId); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder1st.h:44:1: note: 'bind1st, unsigned long>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:2973:16: warning: 'binder1st>' is deprecated [-Wdeprecated-declarations] const std::binder1st > equal_to_atomId = std::bind1st (equal_to(), atomId); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder1st.h:25:28: note: 'binder1st>' has been explicitly marked deprecated here class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binder1st ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:3005:85: warning: 'bind1st, unsigned long>' is deprecated [-Wdeprecated-declarations] const std::binder1st > equal_to_implicitRef = std::bind1st (equal_to(), (OBStereo::Ref) OBStereo::ImplicitRef); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder1st.h:44:1: note: 'bind1st, unsigned long>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:3005:16: warning: 'binder1st>' is deprecated [-Wdeprecated-declarations] const std::binder1st > equal_to_implicitRef = std::bind1st (equal_to(), (OBStereo::Ref) OBStereo::ImplicitRef); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder1st.h:25:28: note: 'binder1st>' has been explicitly marked deprecated here class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binder1st ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 4 warnings generated. [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/facade.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/facade.cpp.o -MF CMakeFiles/openbabel.dir/stereo/facade.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/facade.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/facade.cpp } || exit $? [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o -MF CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/gen3dstereohelper.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/gen3dstereohelper.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 14%] Linking CXX shared library ../lib/libopenbabel.dylib { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/openbabel.dir/link.txt --verbose= } || exit $? { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /opt/pkg/bin/cmake -E cmake_symlink_library ../lib/libopenbabel.7.0.0.dylib ../lib/libopenbabel.7.dylib ../lib/libopenbabel.dylib } || exit $? [ 14%] Built target openbabel [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_descriptors_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/cansmidescriptor.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/cansmidescriptor.cpp:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_descriptors_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/cmpdfilter.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/cmpdfilter.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_descriptors_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/groupcontrib.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/groupcontrib.cpp:33: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/groupcontrib.h:27: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_descriptors_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/filters.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/filters.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 15%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_descriptors_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:134:19: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:50: warning: while loop has empty body [-Wempty-body] while(p1!=s1.end() && isdigit(*p1++)); --p1; ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:50: note: put the semicolon on a separate line to silence this warning /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:50: warning: while loop has empty body [-Wempty-body] while(p2!=s2.end() && isdigit(*p2++)); --p2; ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:50: note: put the semicolon on a separate line to silence this warning 4 warnings generated. [ 15%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_descriptors_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/smartsdescriptors.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/descriptors/smartsdescriptors.cpp:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 15%] Linking CXX shared module ../lib/plugin_descriptors.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/plugin_descriptors.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcoordgen', '-ldl', '-lmaeparser', '-lz' [ 15%] Built target plugin_descriptors [ 15%] Building CXX object src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_fingerprints_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o -MF CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o.d -o CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/fingerprints/finger2.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/fingerprints/finger2.cpp:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/fingerprint.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 15%] Building CXX object src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_fingerprints_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o -MF CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o.d -o CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp:27: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/fingerprint.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp:258:34: warning: unsequenced modification and access to 'div' [-Wunsequenced] ngrp = (num + div -1)/div--; //rounds up ~~~ ^ 2 warnings generated. [ 16%] Building CXX object src/CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_fingerprints_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o -MF CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o.d -o CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/fingerprints/fingerecfp.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/fingerprints/fingerecfp.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/fingerprint.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 16%] Linking CXX shared module ../lib/plugin_fingerprints.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/plugin_fingerprints.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcoordgen', '-ldl', '-lmaeparser', '-lz' [ 16%] Built target plugin_fingerprints [ 16%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_forcefields_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 16%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_forcefields_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 16%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_forcefields_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:31: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 16%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_forcefields_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:32: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 17%] Linking CXX shared module ../lib/plugin_forcefields.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/plugin_forcefields.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcoordgen', '-ldl', '-lmaeparser', '-lz' [ 17%] Built target plugin_forcefields [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addfilename.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addfilename.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addinindex.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addinindex.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addpolarh.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addpolarh.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addnonpolarh.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/addnonpolarh.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 18%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/canonical.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/canonical.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 18%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/changecell.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/changecell.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 18%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/delpolarh.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/delpolarh.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 18%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/delnonpolarh.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/delnonpolarh.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 18%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/gen2D.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/gen2D.cpp:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/fillUC.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/fillUC.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/forcefield.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/forcefield.cpp:31: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/gen3d.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/gen3d.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/largest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/largest.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/largest.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/largest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/largest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/largest.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/loader.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/loader.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/loader.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/loader.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/loader.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/loader.cpp:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/neutralize.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/neutralize.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opsplit.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opsplit.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/optransform.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/optransform.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/optransform.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/partialcharges.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/partialcharges.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/readconformers.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/readconformers.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/sort.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/sort.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/sort.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/sort.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/sort.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/sort.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/sort.cpp:32:28: warning: 'binary_function, std::pair, bool>' is deprecated [-Wdeprecated-declarations] struct Order : public std::binary_function, std::pair, bool> ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/sort.cpp:121:44: note: in instantiation of template class 'OpenBabel::Order' requested here std::sort(valvec.begin(),valvec.end(), Order(_pDesc, _rev)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function, std::pair, bool>' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/sort.cpp:32:28: warning: 'binary_function, std::pair, bool>' is deprecated [-Wdeprecated-declarations] struct Order : public std::binary_function, std::pair, bool> ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/sort.cpp:152:44: note: in instantiation of template class 'OpenBabel::Order' requested here std::sort(valvec.begin(),valvec.end(), Order(_pDesc, _rev)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function, std::pair, bool>' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 3 warnings generated. [ 21%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opisomorph.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opisomorph.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opisomorph.h:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 21%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/ophighlight.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/ophighlight.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 21%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/xout.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/xout.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/xout.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/xout.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/xout.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/xout.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 21%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/conformer.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/conformer.cpp:32: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 21%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opalign.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opalign.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 22%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_ops_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opconfab.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/opconfab.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 22%] Linking CXX shared module ../lib/plugin_ops.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/plugin_ops.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcoordgen', '-ldl', '-lmaeparser', '-lz' [ 22%] Built target plugin_ops [ 22%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/eem.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/eem.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/eem.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/eem.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/eem.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/eem.cpp:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 22%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/gasteiger.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/gasteiger.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 23%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/none.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/none.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/none.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/none.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/none.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/none.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 23%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/mmff94.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/mmff94.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 23%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/fromfile.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/fromfile.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 23%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/eqeq.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/eqeq.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/eqeq.h:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 23%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/qeq.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/qeq.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/qeq.h:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 23%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dplugin_charges_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/qtpie.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/qtpie.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/charges/qtpie.h:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 24%] Linking CXX shared module ../lib/plugin_charges.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/plugin_charges.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcoordgen', '-ldl', '-lmaeparser', '-lz' [ 24%] Built target plugin_charges [ 24%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichi_bns.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichi_bns.c.o -MF CMakeFiles/inchi.dir/ichi_bns.c.o.d -o CMakeFiles/inchi.dir/ichi_bns.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichi_bns.c } || exit $? [ 24%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichi_io.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichi_io.c.o -MF CMakeFiles/inchi.dir/ichi_io.c.o.d -o CMakeFiles/inchi.dir/ichi_io.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichi_io.c } || exit $? [ 24%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichican2.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichican2.c.o -MF CMakeFiles/inchi.dir/ichican2.c.o.d -o CMakeFiles/inchi.dir/ichican2.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichican2.c } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichican2.c:3074:25: warning: address of array 'kLeast_rho_fix' will always evaluate to 'true' [-Wpointer-bool-conversion] if ( pzb_rho_fix && kLeast_rho_fix && 0 == qzb_rho_fix ) { ~~ ^~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichican2.c:3076:14: warning: address of array 'kLeast_rho_fix' will always evaluate to 'true' [-Wpointer-bool-conversion] if ( kLeast_rho_fix ) { ~~ ^~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichican2.c:3114:10: warning: address of array 'kLeast_rho' will always evaluate to 'true' [-Wpointer-bool-conversion] if ( kLeast_rho ) { ~~ ^~~~~~~~~~ 3 warnings generated. [ 25%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichicano.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichicano.c.o -MF CMakeFiles/inchi.dir/ichicano.c.o.d -o CMakeFiles/inchi.dir/ichicano.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichicano.c } || exit $? [ 25%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichicans.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichicans.c.o -MF CMakeFiles/inchi.dir/ichicans.c.o.d -o CMakeFiles/inchi.dir/ichicans.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichicans.c } || exit $? [ 25%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiisot.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiisot.c.o -MF CMakeFiles/inchi.dir/ichiisot.c.o.d -o CMakeFiles/inchi.dir/ichiisot.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiisot.c } || exit $? [ 25%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichilnct.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichilnct.c.o -MF CMakeFiles/inchi.dir/ichilnct.c.o.d -o CMakeFiles/inchi.dir/ichilnct.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichilnct.c } || exit $? [ 25%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichimak2.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichimak2.c.o -MF CMakeFiles/inchi.dir/ichimak2.c.o.d -o CMakeFiles/inchi.dir/ichimak2.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichimak2.c } || exit $? [ 25%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichimake.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichimake.c.o -MF CMakeFiles/inchi.dir/ichimake.c.o.d -o CMakeFiles/inchi.dir/ichimake.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichimake.c } || exit $? [ 26%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichimap1.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichimap1.c.o -MF CMakeFiles/inchi.dir/ichimap1.c.o.d -o CMakeFiles/inchi.dir/ichimap1.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichimap1.c } || exit $? [ 26%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichimap2.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichimap2.c.o -MF CMakeFiles/inchi.dir/ichimap2.c.o.d -o CMakeFiles/inchi.dir/ichimap2.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichimap2.c } || exit $? [ 26%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichimap4.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichimap4.c.o -MF CMakeFiles/inchi.dir/ichimap4.c.o.d -o CMakeFiles/inchi.dir/ichimap4.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichimap4.c } || exit $? [ 26%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichinorm.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichinorm.c.o -MF CMakeFiles/inchi.dir/ichinorm.c.o.d -o CMakeFiles/inchi.dir/ichinorm.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichinorm.c } || exit $? [ 26%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiparm.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiparm.c.o -MF CMakeFiles/inchi.dir/ichiparm.c.o.d -o CMakeFiles/inchi.dir/ichiparm.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiparm.c } || exit $? [ 27%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiprt1.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiprt1.c.o -MF CMakeFiles/inchi.dir/ichiprt1.c.o.d -o CMakeFiles/inchi.dir/ichiprt1.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiprt1.c } || exit $? [ 27%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiprt2.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiprt2.c.o -MF CMakeFiles/inchi.dir/ichiprt2.c.o.d -o CMakeFiles/inchi.dir/ichiprt2.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiprt2.c } || exit $? [ 27%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiprt3.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiprt3.c.o -MF CMakeFiles/inchi.dir/ichiprt3.c.o.d -o CMakeFiles/inchi.dir/ichiprt3.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiprt3.c } || exit $? [ 27%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiqueu.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiqueu.c.o -MF CMakeFiles/inchi.dir/ichiqueu.c.o.d -o CMakeFiles/inchi.dir/ichiqueu.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiqueu.c } || exit $? [ 27%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiread.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiread.c.o -MF CMakeFiles/inchi.dir/ichiread.c.o.d -o CMakeFiles/inchi.dir/ichiread.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiread.c } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiread.c:1040:22: warning: address of array 'szMessage' will always evaluate to 'true' [-Wpointer-bool-conversion] if ( szMessage ) ~~ ^~~~~~~~~ 1 warning generated. [ 28%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichiring.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichiring.c.o -MF CMakeFiles/inchi.dir/ichiring.c.o.d -o CMakeFiles/inchi.dir/ichiring.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichiring.c } || exit $? [ 28%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr1.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr1.c.o -MF CMakeFiles/inchi.dir/ichirvr1.c.o.d -o CMakeFiles/inchi.dir/ichirvr1.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr1.c } || exit $? [ 28%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr2.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr2.c.o -MF CMakeFiles/inchi.dir/ichirvr2.c.o.d -o CMakeFiles/inchi.dir/ichirvr2.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr2.c } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr2.c:260:24: warning: unsequenced modification and access to 'jv' [-Wunsequenced] at[jv = at[n_vertex].neighbor[0]].valence + at[jv].num_H == 3 && ^ ~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr2.c:262:24: warning: unsequenced modification and access to 'jn' [-Wunsequenced] at[jn = at[n_vertex].neighbor[1]].valence + at[jn].num_H == 3 && ^ ~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr2.c:3027:19: warning: unsequenced modification and access to 'pvS' [-Wunsequenced] (pvS = pBNS->vert+i)->st_edge.cap == pvS->st_edge.flow && ^ ~~~ 3 warnings generated. [ 28%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr3.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr3.c.o -MF CMakeFiles/inchi.dir/ichirvr3.c.o.d -o CMakeFiles/inchi.dir/ichirvr3.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr3.c } || exit $? [ 28%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr4.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr4.c.o -MF CMakeFiles/inchi.dir/ichirvr4.c.o.d -o CMakeFiles/inchi.dir/ichirvr4.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr4.c } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr4.c:383:23: warning: unsequenced modification and access to 'neigh' [-Wunsequenced] at2[neigh=at2[i].neighbor[0]].chem_bonds_valence > at2[neigh].valence ^ ~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr4.c:3134:48: warning: address of array 'num_prot' will always evaluate to 'true' [-Wpointer-bool-conversion] for ( iComp = 0; iComp < num_components && num_prot; iComp ++ ) { ~~ ^~~~~~~~ 2 warnings generated. [ 28%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr5.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr5.c.o -MF CMakeFiles/inchi.dir/ichirvr5.c.o.d -o CMakeFiles/inchi.dir/ichirvr5.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr5.c } || exit $? [ 29%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr6.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr6.c.o -MF CMakeFiles/inchi.dir/ichirvr6.c.o.d -o CMakeFiles/inchi.dir/ichirvr6.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr6.c } || exit $? [ 29%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr7.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichirvr7.c.o -MF CMakeFiles/inchi.dir/ichirvr7.c.o.d -o CMakeFiles/inchi.dir/ichirvr7.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichirvr7.c } || exit $? [ 29%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichisort.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichisort.c.o -MF CMakeFiles/inchi.dir/ichisort.c.o.d -o CMakeFiles/inchi.dir/ichisort.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichisort.c } || exit $? [ 29%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichister.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichister.c.o -MF CMakeFiles/inchi.dir/ichister.c.o.d -o CMakeFiles/inchi.dir/ichister.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichister.c } || exit $? [ 29%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ichitaut.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ichitaut.c.o -MF CMakeFiles/inchi.dir/ichitaut.c.o.d -o CMakeFiles/inchi.dir/ichitaut.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichitaut.c } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ichitaut.c:3588:31: warning: address of array 'DfsPath' will always evaluate to 'true' [-Wpointer-bool-conversion] if ( !nDfsPathPos || !DfsPath ) { ~^~~~~~~ 1 warning generated. [ 30%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ikey_base26.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ikey_base26.c.o -MF CMakeFiles/inchi.dir/ikey_base26.c.o.d -o CMakeFiles/inchi.dir/ikey_base26.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ikey_base26.c } || exit $? [ 30%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/ikey_dll.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/ikey_dll.c.o -MF CMakeFiles/inchi.dir/ikey_dll.c.o.d -o CMakeFiles/inchi.dir/ikey_dll.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ikey_dll.c } || exit $? /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/ikey_dll.c:265:9: warning: '/*' within block comment [-Wcomment] /* source string ( was sproto[ncp]='\0'; should be sproto[lenproto]='\0'; ) */ ^ 1 warning generated. [ 30%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll.c.o -MF CMakeFiles/inchi.dir/inchi_dll.c.o.d -o CMakeFiles/inchi.dir/inchi_dll.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/inchi_dll.c } || exit $? [ 30%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll_a.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll_a.c.o -MF CMakeFiles/inchi.dir/inchi_dll_a.c.o.d -o CMakeFiles/inchi.dir/inchi_dll_a.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/inchi_dll_a.c } || exit $? [ 30%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll_a2.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll_a2.c.o -MF CMakeFiles/inchi.dir/inchi_dll_a2.c.o.d -o CMakeFiles/inchi.dir/inchi_dll_a2.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/inchi_dll_a2.c } || exit $? [ 31%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll_main.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/inchi_dll_main.c.o -MF CMakeFiles/inchi.dir/inchi_dll_main.c.o.d -o CMakeFiles/inchi.dir/inchi_dll_main.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/inchi_dll_main.c } || exit $? [ 31%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/runichi.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/runichi.c.o -MF CMakeFiles/inchi.dir/runichi.c.o.d -o CMakeFiles/inchi.dir/runichi.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/runichi.c } || exit $? [ 31%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/sha2.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/sha2.c.o -MF CMakeFiles/inchi.dir/sha2.c.o.d -o CMakeFiles/inchi.dir/sha2.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/sha2.c } || exit $? [ 31%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/strutil.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/strutil.c.o -MF CMakeFiles/inchi.dir/strutil.c.o.d -o CMakeFiles/inchi.dir/strutil.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/strutil.c } || exit $? [ 31%] Building C object src/formats/libinchi/CMakeFiles/inchi.dir/util.c.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -D_USRDLL -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -w -MD -MT src/formats/libinchi/CMakeFiles/inchi.dir/util.c.o -MF CMakeFiles/inchi.dir/util.c.o.d -o CMakeFiles/inchi.dir/util.c.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/libinchi/util.c } || exit $? [ 31%] Linking C shared library ../../../lib/libinchi.dylib { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/inchi.dir/link.txt --verbose= } || exit $? { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats/libinchi && /opt/pkg/bin/cmake -E cmake_symlink_library ../../../lib/libinchi.0.4.1.dylib ../../../lib/libinchi.0.dylib ../../../lib/libinchi.dylib } || exit $? [ 31%] Built target inchi [ 31%] Building CXX object src/formats/CMakeFiles/mdlformat.dir/mdlformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmdlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mdlformat.dir/mdlformat.cpp.o -MF CMakeFiles/mdlformat.dir/mdlformat.cpp.o.d -o CMakeFiles/mdlformat.dir/mdlformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:35: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 31%] Linking CXX shared module ../../lib/mdlformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mdlformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 31%] Built target mdlformat [ 31%] Building CXX object src/formats/CMakeFiles/mol2format.dir/mol2format.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmol2format_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mol2format.dir/mol2format.cpp.o -MF CMakeFiles/mol2format.dir/mol2format.cpp.o.d -o CMakeFiles/mol2format.dir/mol2format.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 32%] Linking CXX shared module ../../lib/mol2format.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mol2format.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 32%] Built target mol2format [ 32%] Building CXX object src/formats/CMakeFiles/pdbformat.dir/pdbformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpdbformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pdbformat.dir/pdbformat.cpp.o -MF CMakeFiles/pdbformat.dir/pdbformat.cpp.o.d -o CMakeFiles/pdbformat.dir/pdbformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 33%] Linking CXX shared module ../../lib/pdbformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pdbformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 33%] Built target pdbformat [ 34%] Building CXX object src/formats/CMakeFiles/inchiformat.dir/inchiformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dinchiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/inchiformat.dir/inchiformat.cpp.o -MF CMakeFiles/inchiformat.dir/inchiformat.cpp.o.d -o CMakeFiles/inchiformat.dir/inchiformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:32: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:134:19: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:32: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:50: warning: while loop has empty body [-Wempty-body] while(p1!=s1.end() && isdigit(*p1++)); --p1; ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:50: note: put the semicolon on a separate line to silence this warning /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:50: warning: while loop has empty body [-Wempty-body] while(p2!=s2.end() && isdigit(*p2++)); --p2; ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:50: note: put the semicolon on a separate line to silence this warning 4 warnings generated. [ 34%] Building CXX object src/formats/CMakeFiles/inchiformat.dir/getinchi.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dinchiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/inchiformat.dir/getinchi.cpp.o -MF CMakeFiles/inchiformat.dir/getinchi.cpp.o.d -o CMakeFiles/inchiformat.dir/getinchi.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/getinchi.cpp } || exit $? [ 34%] Building CXX object src/formats/CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dinchiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o -MF CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o.d -o CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/unique.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/unique.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/op.h:25: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/unique.cpp:23: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:134:19: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/ops/unique.cpp:23: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:50: warning: while loop has empty body [-Wempty-body] while(p1!=s1.end() && isdigit(*p1++)); --p1; ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:50: note: put the semicolon on a separate line to silence this warning /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:50: warning: while loop has empty body [-Wempty-body] while(p2!=s2.end() && isdigit(*p2++)); --p2; ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:50: note: put the semicolon on a separate line to silence this warning 4 warnings generated. [ 34%] Linking CXX shared module ../../lib/inchiformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/inchiformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 34%] Built target inchiformat [ 34%] Building CXX object src/formats/CMakeFiles/asciiformat.dir/asciiformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dasciiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/asciiformat.dir/asciiformat.cpp.o -MF CMakeFiles/asciiformat.dir/asciiformat.cpp.o.d -o CMakeFiles/asciiformat.dir/asciiformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/asciiformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/asciiformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 34%] Building CXX object src/formats/CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dasciiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o -MF CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o.d -o CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/asciipainter.cpp } || exit $? [ 35%] Linking CXX shared module ../../lib/asciiformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/asciiformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 35%] Built target asciiformat [ 35%] Building CXX object src/formats/CMakeFiles/copyformat.dir/copyformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcopyformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/copyformat.dir/copyformat.cpp.o -MF CMakeFiles/copyformat.dir/copyformat.cpp.o.d -o CMakeFiles/copyformat.dir/copyformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/copyformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/copyformat.cpp:14: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 35%] Linking CXX shared module ../../lib/copyformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/copyformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 35%] Built target copyformat [ 35%] Building CXX object src/formats/CMakeFiles/MNAformat.dir/MNAformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMNAformat_EXPORTS -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/MNAformat.dir/MNAformat.cpp.o -MF CMakeFiles/MNAformat.dir/MNAformat.cpp.o.d -o CMakeFiles/MNAformat.dir/MNAformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/MNAformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/MNAformat.cpp:31: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 35%] Linking CXX shared module ../../lib/MNAformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/MNAformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 35%] Built target MNAformat [ 36%] Building CXX object src/formats/CMakeFiles/molreport.dir/molreport.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmolreport_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/molreport.dir/molreport.cpp.o -MF CMakeFiles/molreport.dir/molreport.cpp.o.d -o CMakeFiles/molreport.dir/molreport.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/molreport.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/molreport.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 36%] Linking CXX shared module ../../lib/molreport.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/molreport.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 36%] Built target molreport [ 36%] Building CXX object src/formats/CMakeFiles/nulformat.dir/nulformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dnulformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/nulformat.dir/nulformat.cpp.o -MF CMakeFiles/nulformat.dir/nulformat.cpp.o.d -o CMakeFiles/nulformat.dir/nulformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/nulformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/nulformat.cpp:14: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 36%] Linking CXX shared module ../../lib/nulformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/nulformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 36%] Built target nulformat [ 36%] Building CXX object src/formats/CMakeFiles/painterformat.dir/painterformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpainterformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/painterformat.dir/painterformat.cpp.o -MF CMakeFiles/painterformat.dir/painterformat.cpp.o.d -o CMakeFiles/painterformat.dir/painterformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/painterformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/painterformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 37%] Building CXX object src/formats/CMakeFiles/painterformat.dir/__/depict/commandpainter.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpainterformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/painterformat.dir/__/depict/commandpainter.cpp.o -MF CMakeFiles/painterformat.dir/__/depict/commandpainter.cpp.o.d -o CMakeFiles/painterformat.dir/__/depict/commandpainter.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/commandpainter.cpp } || exit $? [ 37%] Linking CXX shared module ../../lib/painterformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/painterformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 37%] Built target painterformat [ 38%] Building CXX object src/formats/CMakeFiles/povrayformat.dir/povrayformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpovrayformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/povrayformat.dir/povrayformat.cpp.o -MF CMakeFiles/povrayformat.dir/povrayformat.cpp.o.d -o CMakeFiles/povrayformat.dir/povrayformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/povrayformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/povrayformat.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/povrayformat.cpp:526:71: warning: 'bind1st, char>' is deprecated [-Wdeprecated-declarations] bond_type.erase(remove_if(bond_type.begin(), bond_type.end(), bind1st(equal_to(), '.')), bond_type.end()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder1st.h:44:1: note: 'bind1st, char>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/povrayformat.cpp:587:71: warning: 'bind1st, char>' is deprecated [-Wdeprecated-declarations] bond_type.erase(remove_if(bond_type.begin(), bond_type.end(), bind1st(equal_to(), '.')), bond_type.end()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder1st.h:44:1: note: 'bind1st, char>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 3 warnings generated. [ 38%] Linking CXX shared module ../../lib/povrayformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/povrayformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 38%] Built target povrayformat [ 38%] Building CXX object src/formats/CMakeFiles/reportformat.dir/reportformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dreportformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/reportformat.dir/reportformat.cpp.o -MF CMakeFiles/reportformat.dir/reportformat.cpp.o.d -o CMakeFiles/reportformat.dir/reportformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/reportformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/reportformat.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 38%] Linking CXX shared module ../../lib/reportformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/reportformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 38%] Built target reportformat [ 38%] Building CXX object src/formats/CMakeFiles/svgformat.dir/svgformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dsvgformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/svgformat.dir/svgformat.cpp.o -MF CMakeFiles/svgformat.dir/svgformat.cpp.o.d -o CMakeFiles/svgformat.dir/svgformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/svgformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/svgformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 38%] Linking CXX shared module ../../lib/svgformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/svgformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 38%] Built target svgformat [ 38%] Building CXX object src/formats/CMakeFiles/textformat.dir/textformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dtextformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/textformat.dir/textformat.cpp.o -MF CMakeFiles/textformat.dir/textformat.cpp.o.d -o CMakeFiles/textformat.dir/textformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/textformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/textformat.cpp:14: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 38%] Linking CXX shared module ../../lib/textformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/textformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 38%] Built target textformat [ 38%] Building CXX object src/formats/CMakeFiles/titleformat.dir/titleformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dtitleformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/titleformat.dir/titleformat.cpp.o -MF CMakeFiles/titleformat.dir/titleformat.cpp.o.d -o CMakeFiles/titleformat.dir/titleformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/titleformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/titleformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 39%] Linking CXX shared module ../../lib/titleformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/titleformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 39%] Built target titleformat [ 39%] Building CXX object src/formats/CMakeFiles/confabreport.dir/confabreport.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dconfabreport_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/confabreport.dir/confabreport.cpp.o -MF CMakeFiles/confabreport.dir/confabreport.cpp.o.d -o CMakeFiles/confabreport.dir/confabreport.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/confabreport.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/confabreport.cpp:34: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 40%] Linking CXX shared module ../../lib/confabreport.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/confabreport.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 40%] Built target confabreport [ 40%] Building CXX object src/formats/CMakeFiles/pngformat.dir/pngformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpngformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pngformat.dir/pngformat.cpp.o -MF CMakeFiles/pngformat.dir/pngformat.cpp.o.d -o CMakeFiles/pngformat.dir/pngformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pngformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pngformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 41%] Linking CXX shared module ../../lib/pngformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pngformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 41%] Built target pngformat [ 41%] Building CXX object src/formats/CMakeFiles/acesformat.dir/acesformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dacesformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/acesformat.dir/acesformat.cpp.o -MF CMakeFiles/acesformat.dir/acesformat.cpp.o.d -o CMakeFiles/acesformat.dir/acesformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/acesformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/acesformat.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 41%] Linking CXX shared module ../../lib/acesformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/acesformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 41%] Built target acesformat [ 42%] Building CXX object src/formats/CMakeFiles/abinitformat.dir/abinitformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dabinitformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/abinitformat.dir/abinitformat.cpp.o -MF CMakeFiles/abinitformat.dir/abinitformat.cpp.o.d -o CMakeFiles/abinitformat.dir/abinitformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/abinitformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/abinitformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 42%] Linking CXX shared module ../../lib/abinitformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/abinitformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 42%] Built target abinitformat [ 42%] Building CXX object src/formats/CMakeFiles/adfformat.dir/adfformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dadfformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/adfformat.dir/adfformat.cpp.o -MF CMakeFiles/adfformat.dir/adfformat.cpp.o.d -o CMakeFiles/adfformat.dir/adfformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:35: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 42%] Linking CXX shared module ../../lib/adfformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/adfformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 42%] Built target adfformat [ 42%] Building CXX object src/formats/CMakeFiles/aoforceformat.dir/aoforceformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Daoforceformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/aoforceformat.dir/aoforceformat.cpp.o -MF CMakeFiles/aoforceformat.dir/aoforceformat.cpp.o.d -o CMakeFiles/aoforceformat.dir/aoforceformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/aoforceformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/aoforceformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 42%] Linking CXX shared module ../../lib/aoforceformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/aoforceformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 42%] Built target aoforceformat [ 42%] Building CXX object src/formats/CMakeFiles/castepformat.dir/castepformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcastepformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/castepformat.dir/castepformat.cpp.o -MF CMakeFiles/castepformat.dir/castepformat.cpp.o.d -o CMakeFiles/castepformat.dir/castepformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/castepformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/castepformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 42%] Linking CXX shared module ../../lib/castepformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/castepformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 42%] Built target castepformat [ 43%] Building CXX object src/formats/CMakeFiles/crystal09format.dir/crystal09format.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcrystal09format_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/crystal09format.dir/crystal09format.cpp.o -MF CMakeFiles/crystal09format.dir/crystal09format.cpp.o.d -o CMakeFiles/crystal09format.dir/crystal09format.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/crystal09format.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/crystal09format.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 43%] Linking CXX shared module ../../lib/crystal09format.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/crystal09format.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 43%] Built target crystal09format [ 43%] Building CXX object src/formats/CMakeFiles/daltonformat.dir/daltonformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Ddaltonformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/daltonformat.dir/daltonformat.cpp.o -MF CMakeFiles/daltonformat.dir/daltonformat.cpp.o.d -o CMakeFiles/daltonformat.dir/daltonformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 44%] Linking CXX shared module ../../lib/daltonformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/daltonformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 44%] Built target daltonformat [ 44%] Building CXX object src/formats/CMakeFiles/dmolformat.dir/dmolformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Ddmolformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/dmolformat.dir/dmolformat.cpp.o -MF CMakeFiles/dmolformat.dir/dmolformat.cpp.o.d -o CMakeFiles/dmolformat.dir/dmolformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/dmolformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/dmolformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 44%] Linking CXX shared module ../../lib/dmolformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/dmolformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 44%] Built target dmolformat [ 45%] Building CXX object src/formats/CMakeFiles/fchkformat.dir/fchkformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfchkformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/fchkformat.dir/fchkformat.cpp.o -MF CMakeFiles/fchkformat.dir/fchkformat.cpp.o.d -o CMakeFiles/fchkformat.dir/fchkformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:668:36: warning: 'bind2nd, int>' is deprecated [-Wdeprecated-declarations] bind2nd(less_equal(), 0)) || ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, int>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:671:36: warning: 'bind2nd, int>' is deprecated [-Wdeprecated-declarations] bind2nd(greater(), MxBond)) || ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, int>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:674:36: warning: 'bind2nd, int>' is deprecated [-Wdeprecated-declarations] bind2nd(less(), 0)) || ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, int>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:677:36: warning: 'bind2nd, int>' is deprecated [-Wdeprecated-declarations] bind2nd(greater(), Natoms))) ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, int>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 5 warnings generated. [ 45%] Linking CXX shared module ../../lib/fchkformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/fchkformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 45%] Built target fchkformat [ 45%] Building CXX object src/formats/CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfhiaimsformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o -MF CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o.d -o CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fhiaimsformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fhiaimsformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 45%] Linking CXX shared module ../../lib/fhiaimsformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/fhiaimsformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 45%] Built target fhiaimsformat [ 45%] Building CXX object src/formats/CMakeFiles/gamessformat.dir/gamessformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgamessformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/gamessformat.dir/gamessformat.cpp.o -MF CMakeFiles/gamessformat.dir/gamessformat.cpp.o.d -o CMakeFiles/gamessformat.dir/gamessformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 45%] Linking CXX shared module ../../lib/gamessformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/gamessformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 45%] Built target gamessformat [ 45%] Building CXX object src/formats/CMakeFiles/gaussformat.dir/gaussformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgaussformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/gaussformat.dir/gaussformat.cpp.o -MF CMakeFiles/gaussformat.dir/gaussformat.cpp.o.d -o CMakeFiles/gaussformat.dir/gaussformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:398:13: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(valbuf,"%f", result[ii]); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:401:9: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(valbuf, "%f", ezpe*eFactor); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:403:9: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(valbuf, "%f", CV); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:405:9: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(valbuf, "%f", CV+Rgas); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:413:17: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(valbuf, "%f", Scomponents[i]); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 6 warnings generated. [ 46%] Linking CXX shared module ../../lib/gaussformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/gaussformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 46%] Built target gaussformat [ 46%] Building CXX object src/formats/CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgausscubeformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o -MF CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o.d -o CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 46%] Linking CXX shared module ../../lib/gausscubeformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/gausscubeformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 46%] Built target gausscubeformat [ 46%] Building CXX object src/formats/CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgausszmatformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o -MF CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o.d -o CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gausszmatformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gausszmatformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 46%] Linking CXX shared module ../../lib/gausszmatformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/gausszmatformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 46%] Built target gausszmatformat [ 46%] Building CXX object src/formats/CMakeFiles/gulpformat.dir/gulpformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgulpformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/gulpformat.dir/gulpformat.cpp.o -MF CMakeFiles/gulpformat.dir/gulpformat.cpp.o.d -o CMakeFiles/gulpformat.dir/gulpformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 46%] Linking CXX shared module ../../lib/gulpformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/gulpformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 46%] Built target gulpformat [ 47%] Building CXX object src/formats/CMakeFiles/hinformat.dir/hinformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dhinformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/hinformat.dir/hinformat.cpp.o -MF CMakeFiles/hinformat.dir/hinformat.cpp.o.d -o CMakeFiles/hinformat.dir/hinformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/hinformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/hinformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 47%] Linking CXX shared module ../../lib/hinformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/hinformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 47%] Built target hinformat [ 47%] Building CXX object src/formats/CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Djaguarformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o -MF CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o.d -o CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/jaguarformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/jaguarformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 48%] Linking CXX shared module ../../lib/jaguarformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/jaguarformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 48%] Built target jaguarformat [ 48%] Building CXX object src/formats/CMakeFiles/molproformat.dir/molproformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmolproformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/molproformat.dir/molproformat.cpp.o -MF CMakeFiles/molproformat.dir/molproformat.cpp.o.d -o CMakeFiles/molproformat.dir/molproformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/molproformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/molproformat.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 48%] Linking CXX shared module ../../lib/molproformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/molproformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 48%] Built target molproformat [ 48%] Building CXX object src/formats/CMakeFiles/mopacformat.dir/mopacformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmopacformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mopacformat.dir/mopacformat.cpp.o -MF CMakeFiles/mopacformat.dir/mopacformat.cpp.o.d -o CMakeFiles/mopacformat.dir/mopacformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 48%] Linking CXX shared module ../../lib/mopacformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mopacformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 48%] Built target mopacformat [ 48%] Building CXX object src/formats/CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dnwchemformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o -MF CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o.d -o CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:310:9: warning: add explicit braces to avoid dangling else [-Wdangling-else] else if (vs[0][0] == '2') ^ 2 warnings generated. [ 48%] Linking CXX shared module ../../lib/nwchemformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/nwchemformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 48%] Built target nwchemformat [ 48%] Building CXX object src/formats/CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpwscfformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o -MF CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o.d -o CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 48%] Linking CXX shared module ../../lib/pwscfformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pwscfformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 48%] Built target pwscfformat [ 49%] Building CXX object src/formats/CMakeFiles/qchemformat.dir/qchemformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dqchemformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/qchemformat.dir/qchemformat.cpp.o -MF CMakeFiles/qchemformat.dir/qchemformat.cpp.o.d -o CMakeFiles/qchemformat.dir/qchemformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/qchemformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/qchemformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 49%] Linking CXX shared module ../../lib/qchemformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/qchemformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 49%] Built target qchemformat [ 49%] Building CXX object src/formats/CMakeFiles/siestaformat.dir/siestaformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dsiestaformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/siestaformat.dir/siestaformat.cpp.o -MF CMakeFiles/siestaformat.dir/siestaformat.cpp.o.d -o CMakeFiles/siestaformat.dir/siestaformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 49%] Linking CXX shared module ../../lib/siestaformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/siestaformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 49%] Built target siestaformat [ 49%] Building CXX object src/formats/CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dturbomoleformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o -MF CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o.d -o CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/turbomoleformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/turbomoleformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 49%] Linking CXX shared module ../../lib/turbomoleformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/turbomoleformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 49%] Built target turbomoleformat [ 50%] Building CXX object src/formats/CMakeFiles/vaspformat.dir/vaspformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dvaspformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/vaspformat.dir/vaspformat.cpp.o -MF CMakeFiles/vaspformat.dir/vaspformat.cpp.o.d -o CMakeFiles/vaspformat.dir/vaspformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:535:28: warning: 'bind2nd, double>' is deprecated [-Wdeprecated-declarations] std::bind2nd(std::not_equal_to(), 0.0)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, double>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:589:29: warning: 'bind2nd, double>' is deprecated [-Wdeprecated-declarations] std::bind2nd(std::divides(), max / 100.0)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binder2nd.h:44:1: note: 'bind2nd, double>' has been explicitly marked deprecated here _LIBCPP_DEPRECATED_IN_CXX11 inline _LIBCPP_INLINE_VISIBILITY ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 3 warnings generated. [ 50%] Linking CXX shared module ../../lib/vaspformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/vaspformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 50%] Built target vaspformat [ 50%] Building CXX object src/formats/CMakeFiles/xsfformat.dir/xsfformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dxsfformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/xsfformat.dir/xsfformat.cpp.o -MF CMakeFiles/xsfformat.dir/xsfformat.cpp.o.d -o CMakeFiles/xsfformat.dir/xsfformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xsfformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xsfformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 50%] Linking CXX shared module ../../lib/xsfformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/xsfformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 50%] Built target xsfformat [ 50%] Building CXX object src/formats/CMakeFiles/zindoformat.dir/zindoformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dzindoformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/zindoformat.dir/zindoformat.cpp.o -MF CMakeFiles/zindoformat.dir/zindoformat.cpp.o.d -o CMakeFiles/zindoformat.dir/zindoformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/zindoformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/zindoformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 51%] Linking CXX shared module ../../lib/zindoformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/zindoformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 51%] Built target zindoformat [ 52%] Building CXX object src/formats/CMakeFiles/maeformat.dir/maeformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmaeformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/maeformat.dir/maeformat.cpp.o -MF CMakeFiles/maeformat.dir/maeformat.cpp.o.d -o CMakeFiles/maeformat.dir/maeformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/maeformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/maeformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 52%] Linking CXX shared module ../../lib/maeformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/maeformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 52%] Built target maeformat [ 53%] Building CXX object src/formats/CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgamessukformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o -MF CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o.d -o CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp:14: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 53%] Linking CXX shared module ../../lib/gamessukformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/gamessukformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 53%] Built target gamessukformat [ 53%] Building CXX object src/formats/CMakeFiles/orcaformat.dir/orcaformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dorcaformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/orcaformat.dir/orcaformat.cpp.o -MF CMakeFiles/orcaformat.dir/orcaformat.cpp.o.d -o CMakeFiles/orcaformat.dir/orcaformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 53%] Linking CXX shared module ../../lib/orcaformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/orcaformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 53%] Built target orcaformat [ 53%] Building CXX object src/formats/CMakeFiles/APIInterface.dir/APIInterface.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DAPIInterface_EXPORTS -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/APIInterface.dir/APIInterface.cpp.o -MF CMakeFiles/APIInterface.dir/APIInterface.cpp.o.d -o CMakeFiles/APIInterface.dir/APIInterface.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/APIInterface.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/APIInterface.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 53%] Linking CXX shared module ../../lib/APIInterface.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/APIInterface.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 53%] Built target APIInterface [ 53%] Building CXX object src/formats/CMakeFiles/CSRformat.dir/CSRformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DCSRformat_EXPORTS -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/CSRformat.dir/CSRformat.cpp.o -MF CMakeFiles/CSRformat.dir/CSRformat.cpp.o.d -o CMakeFiles/CSRformat.dir/CSRformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 53%] Linking CXX shared module ../../lib/CSRformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/CSRformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 53%] Built target CSRformat [ 53%] Building CXX object src/formats/CMakeFiles/PQSformat.dir/PQSformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DPQSformat_EXPORTS -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/PQSformat.dir/PQSformat.cpp.o -MF CMakeFiles/PQSformat.dir/PQSformat.cpp.o.d -o CMakeFiles/PQSformat.dir/PQSformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/PQSformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/PQSformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 53%] Linking CXX shared module ../../lib/PQSformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/PQSformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 53%] Built target PQSformat [ 53%] Building CXX object src/formats/CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DMCDLformat_EXPORTS -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o -MF CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o.d -o CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:214:17: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(line,"%s%d",semis,icons[j]); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:221:17: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(line,",%d",icons[j]); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:477:5: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(temp,"%d",k); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 4 warnings generated. [ 54%] Linking CXX shared module ../../lib/MCDLformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/MCDLformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 54%] Built target MCDLformat [ 54%] Building CXX object src/formats/CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dalchemyformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o -MF CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o.d -o CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/alchemyformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/alchemyformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 54%] Linking CXX shared module ../../lib/alchemyformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/alchemyformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 54%] Built target alchemyformat [ 54%] Building CXX object src/formats/CMakeFiles/acrformat.dir/acrformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dacrformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/acrformat.dir/acrformat.cpp.o -MF CMakeFiles/acrformat.dir/acrformat.cpp.o.d -o CMakeFiles/acrformat.dir/acrformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 55%] Linking CXX shared module ../../lib/acrformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/acrformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 55%] Built target acrformat [ 55%] Building CXX object src/formats/CMakeFiles/amberformat.dir/amberformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Damberformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/amberformat.dir/amberformat.cpp.o -MF CMakeFiles/amberformat.dir/amberformat.cpp.o.d -o CMakeFiles/amberformat.dir/amberformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/amberformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/amberformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 56%] Linking CXX shared module ../../lib/amberformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/amberformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 56%] Built target amberformat [ 56%] Building CXX object src/formats/CMakeFiles/balstformat.dir/balstformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dbalstformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/balstformat.dir/balstformat.cpp.o -MF CMakeFiles/balstformat.dir/balstformat.cpp.o.d -o CMakeFiles/balstformat.dir/balstformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/balstformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/balstformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 56%] Linking CXX shared module ../../lib/balstformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/balstformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 56%] Built target balstformat [ 56%] Building CXX object src/formats/CMakeFiles/bgfformat.dir/bgfformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dbgfformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/bgfformat.dir/bgfformat.cpp.o -MF CMakeFiles/bgfformat.dir/bgfformat.cpp.o.d -o CMakeFiles/bgfformat.dir/bgfformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/bgfformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/bgfformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 56%] Linking CXX shared module ../../lib/bgfformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/bgfformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 56%] Built target bgfformat [ 57%] Building CXX object src/formats/CMakeFiles/boxformat.dir/boxformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dboxformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/boxformat.dir/boxformat.cpp.o -MF CMakeFiles/boxformat.dir/boxformat.cpp.o.d -o CMakeFiles/boxformat.dir/boxformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/boxformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/boxformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 57%] Linking CXX shared module ../../lib/boxformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/boxformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 57%] Built target boxformat [ 57%] Building CXX object src/formats/CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcacaoformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o -MF CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o.d -o CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cacaoformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cacaoformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 57%] Linking CXX shared module ../../lib/cacaoformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cacaoformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 57%] Built target cacaoformat [ 57%] Building CXX object src/formats/CMakeFiles/cacheformat.dir/cacheformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcacheformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cacheformat.dir/cacheformat.cpp.o -MF CMakeFiles/cacheformat.dir/cacheformat.cpp.o.d -o CMakeFiles/cacheformat.dir/cacheformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cacheformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cacheformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 57%] Linking CXX shared module ../../lib/cacheformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cacheformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 57%] Built target cacheformat [ 58%] Building CXX object src/formats/CMakeFiles/carformat.dir/carformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcarformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/carformat.dir/carformat.cpp.o -MF CMakeFiles/carformat.dir/carformat.cpp.o.d -o CMakeFiles/carformat.dir/carformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/carformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/carformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 58%] Linking CXX shared module ../../lib/carformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/carformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 58%] Built target carformat [ 58%] Building CXX object src/formats/CMakeFiles/cccformat.dir/cccformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcccformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cccformat.dir/cccformat.cpp.o -MF CMakeFiles/cccformat.dir/cccformat.cpp.o.d -o CMakeFiles/cccformat.dir/cccformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cccformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cccformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 59%] Linking CXX shared module ../../lib/cccformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cccformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 59%] Built target cccformat [ 59%] Building CXX object src/formats/CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dchem3dformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o -MF CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o.d -o CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chem3dformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chem3dformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 60%] Linking CXX shared module ../../lib/chem3dformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/chem3dformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 60%] Built target chem3dformat [ 60%] Building CXX object src/formats/CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dchemdrawct_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o -MF CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o.d -o CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemdrawct.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemdrawct.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 61%] Linking CXX shared module ../../lib/chemdrawct.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/chemdrawct.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 61%] Built target chemdrawct [ 61%] Building CXX object src/formats/CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dchemtoolformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o -MF CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o.d -o CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemtoolformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemtoolformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 61%] Linking CXX shared module ../../lib/chemtoolformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/chemtoolformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 61%] Built target chemtoolformat [ 62%] Building CXX object src/formats/CMakeFiles/cifformat.dir/cifformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcifformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cifformat.dir/cifformat.cpp.o -MF CMakeFiles/cifformat.dir/cifformat.cpp.o.d -o CMakeFiles/cifformat.dir/cifformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cifformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cifformat.cpp:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 62%] Linking CXX shared module ../../lib/cifformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cifformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 62%] Built target cifformat [ 62%] Building CXX object src/formats/CMakeFiles/cofformat.dir/cofformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcofformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cofformat.dir/cofformat.cpp.o -MF CMakeFiles/cofformat.dir/cofformat.cpp.o.d -o CMakeFiles/cofformat.dir/cofformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 62%] Linking CXX shared module ../../lib/cofformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cofformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 62%] Built target cofformat [ 62%] Building CXX object src/formats/CMakeFiles/crkformat.dir/crkformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcrkformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/crkformat.dir/crkformat.cpp.o -MF CMakeFiles/crkformat.dir/crkformat.cpp.o.d -o CMakeFiles/crkformat.dir/crkformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/crkformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/crkformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 62%] Linking CXX shared module ../../lib/crkformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/crkformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 62%] Built target crkformat [ 62%] Building CXX object src/formats/CMakeFiles/cssrformat.dir/cssrformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcssrformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cssrformat.dir/cssrformat.cpp.o -MF CMakeFiles/cssrformat.dir/cssrformat.cpp.o.d -o CMakeFiles/cssrformat.dir/cssrformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cssrformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cssrformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 62%] Linking CXX shared module ../../lib/cssrformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cssrformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 62%] Built target cssrformat [ 62%] Building CXX object src/formats/CMakeFiles/dlpolyformat.dir/dlpolyformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Ddlpolyformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/dlpolyformat.dir/dlpolyformat.cpp.o -MF CMakeFiles/dlpolyformat.dir/dlpolyformat.cpp.o.d -o CMakeFiles/dlpolyformat.dir/dlpolyformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/dlpolyformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/dlpolyformat.cpp:14: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 62%] Linking CXX shared module ../../lib/dlpolyformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/dlpolyformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 62%] Built target dlpolyformat [ 62%] Building CXX object src/formats/CMakeFiles/exyzformat.dir/exyzformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dexyzformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/exyzformat.dir/exyzformat.cpp.o -MF CMakeFiles/exyzformat.dir/exyzformat.cpp.o.d -o CMakeFiles/exyzformat.dir/exyzformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/exyzformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/exyzformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 63%] Linking CXX shared module ../../lib/exyzformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/exyzformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 63%] Built target exyzformat [ 63%] Building CXX object src/formats/CMakeFiles/fastsearchformat.dir/fastsearchformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfastsearchformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/fastsearchformat.dir/fastsearchformat.cpp.o -MF CMakeFiles/fastsearchformat.dir/fastsearchformat.cpp.o.d -o CMakeFiles/fastsearchformat.dir/fastsearchformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fastsearchformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fastsearchformat.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 63%] Linking CXX shared module ../../lib/fastsearchformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/fastsearchformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 63%] Built target fastsearchformat [ 63%] Building CXX object src/formats/CMakeFiles/fastaformat.dir/fastaformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfastaformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/fastaformat.dir/fastaformat.cpp.o -MF CMakeFiles/fastaformat.dir/fastaformat.cpp.o.d -o CMakeFiles/fastaformat.dir/fastaformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fastaformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fastaformat.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 63%] Linking CXX shared module ../../lib/fastaformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/fastaformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 63%] Built target fastaformat [ 63%] Building CXX object src/formats/CMakeFiles/featformat.dir/featformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfeatformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/featformat.dir/featformat.cpp.o -MF CMakeFiles/featformat.dir/featformat.cpp.o.d -o CMakeFiles/featformat.dir/featformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/featformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/featformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 63%] Linking CXX shared module ../../lib/featformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/featformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 63%] Built target featformat [ 63%] Building CXX object src/formats/CMakeFiles/fhformat.dir/fhformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfhformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/fhformat.dir/fhformat.cpp.o -MF CMakeFiles/fhformat.dir/fhformat.cpp.o.d -o CMakeFiles/fhformat.dir/fhformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fhformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fhformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 64%] Linking CXX shared module ../../lib/fhformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/fhformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 64%] Built target fhformat [ 64%] Building CXX object src/formats/CMakeFiles/fingerprintformat.dir/fingerprintformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfingerprintformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/fingerprintformat.dir/fingerprintformat.cpp.o -MF CMakeFiles/fingerprintformat.dir/fingerprintformat.cpp.o.d -o CMakeFiles/fingerprintformat.dir/fingerprintformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fingerprintformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fingerprintformat.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 64%] Linking CXX shared module ../../lib/fingerprintformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/fingerprintformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 64%] Built target fingerprintformat [ 64%] Building CXX object src/formats/CMakeFiles/fpsformat.dir/fpsformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfpsformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/fpsformat.dir/fpsformat.cpp.o -MF CMakeFiles/fpsformat.dir/fpsformat.cpp.o.d -o CMakeFiles/fpsformat.dir/fpsformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fpsformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/fpsformat.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 65%] Linking CXX shared module ../../lib/fpsformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/fpsformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 65%] Built target fpsformat [ 65%] Building CXX object src/formats/CMakeFiles/freefracformat.dir/freefracformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dfreefracformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/freefracformat.dir/freefracformat.cpp.o -MF CMakeFiles/freefracformat.dir/freefracformat.cpp.o.d -o CMakeFiles/freefracformat.dir/freefracformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/freefracformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/freefracformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 65%] Linking CXX shared module ../../lib/freefracformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/freefracformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 65%] Built target freefracformat [ 65%] Building CXX object src/formats/CMakeFiles/ghemicalformat.dir/ghemicalformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dghemicalformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/ghemicalformat.dir/ghemicalformat.cpp.o -MF CMakeFiles/ghemicalformat.dir/ghemicalformat.cpp.o.d -o CMakeFiles/ghemicalformat.dir/ghemicalformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/ghemicalformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/ghemicalformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 65%] Linking CXX shared module ../../lib/ghemicalformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/ghemicalformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 65%] Built target ghemicalformat [ 65%] Building CXX object src/formats/CMakeFiles/gromos96format.dir/gromos96format.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgromos96format_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/gromos96format.dir/gromos96format.cpp.o -MF CMakeFiles/gromos96format.dir/gromos96format.cpp.o.d -o CMakeFiles/gromos96format.dir/gromos96format.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gromos96format.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/gromos96format.cpp:54: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 65%] Linking CXX shared module ../../lib/gromos96format.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/gromos96format.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 65%] Built target gromos96format [ 65%] Building CXX object src/formats/CMakeFiles/groformat.dir/groformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dgroformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/groformat.dir/groformat.cpp.o -MF CMakeFiles/groformat.dir/groformat.cpp.o.d -o CMakeFiles/groformat.dir/groformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/groformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/groformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 66%] Linking CXX shared module ../../lib/groformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/groformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 66%] Built target groformat [ 66%] Building CXX object src/formats/CMakeFiles/lmpdatformat.dir/lmpdatformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dlmpdatformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/lmpdatformat.dir/lmpdatformat.cpp.o -MF CMakeFiles/lmpdatformat.dir/lmpdatformat.cpp.o.d -o CMakeFiles/lmpdatformat.dir/lmpdatformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/lmpdatformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/lmpdatformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 66%] Linking CXX shared module ../../lib/lmpdatformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/lmpdatformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 66%] Built target lmpdatformat [ 66%] Building CXX object src/formats/CMakeFiles/lpmdformat.dir/lpmdformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dlpmdformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/lpmdformat.dir/lpmdformat.cpp.o -MF CMakeFiles/lpmdformat.dir/lpmdformat.cpp.o.d -o CMakeFiles/lpmdformat.dir/lpmdformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/lpmdformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/lpmdformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 66%] Linking CXX shared module ../../lib/lpmdformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/lpmdformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 66%] Built target lpmdformat [ 66%] Building CXX object src/formats/CMakeFiles/mdffformat.dir/mdffformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmdffformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mdffformat.dir/mdffformat.cpp.o -MF CMakeFiles/mdffformat.dir/mdffformat.cpp.o.d -o CMakeFiles/mdffformat.dir/mdffformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mdffformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mdffformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mdffformat.cpp:136:50: warning: variable 'path' is uninitialized when used within its own initialization [-Wuninitialized] string path = (found == string::npos) ? "" : path.substr(0, found); ~~~~ ^~~~ 2 warnings generated. [ 66%] Linking CXX shared module ../../lib/mdffformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mdffformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 66%] Built target mdffformat [ 67%] Building CXX object src/formats/CMakeFiles/mmcifformat.dir/mmcifformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmmcifformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mmcifformat.dir/mmcifformat.cpp.o -MF CMakeFiles/mmcifformat.dir/mmcifformat.cpp.o.d -o CMakeFiles/mmcifformat.dir/mmcifformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mmcifformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mmcifformat.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 67%] Linking CXX shared module ../../lib/mmcifformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mmcifformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 67%] Built target mmcifformat [ 67%] Building CXX object src/formats/CMakeFiles/mmodformat.dir/mmodformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmmodformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mmodformat.dir/mmodformat.cpp.o -MF CMakeFiles/mmodformat.dir/mmodformat.cpp.o.d -o CMakeFiles/mmodformat.dir/mmodformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mmodformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mmodformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 67%] Linking CXX shared module ../../lib/mmodformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mmodformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 67%] Built target mmodformat [ 67%] Building CXX object src/formats/CMakeFiles/moldenformat.dir/moldenformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmoldenformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/moldenformat.dir/moldenformat.cpp.o -MF CMakeFiles/moldenformat.dir/moldenformat.cpp.o.d -o CMakeFiles/moldenformat.dir/moldenformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/moldenformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/moldenformat.cpp:35: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 67%] Linking CXX shared module ../../lib/moldenformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/moldenformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 67%] Built target moldenformat [ 67%] Building CXX object src/formats/CMakeFiles/mpdformat.dir/mpdformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmpdformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mpdformat.dir/mpdformat.cpp.o -MF CMakeFiles/mpdformat.dir/mpdformat.cpp.o.d -o CMakeFiles/mpdformat.dir/mpdformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mpdformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mpdformat.cpp:22: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 67%] Linking CXX shared module ../../lib/mpdformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mpdformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 67%] Built target mpdformat [ 68%] Building CXX object src/formats/CMakeFiles/mpqcformat.dir/mpqcformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmpqcformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/mpqcformat.dir/mpqcformat.cpp.o -MF CMakeFiles/mpqcformat.dir/mpqcformat.cpp.o.d -o CMakeFiles/mpqcformat.dir/mpqcformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mpqcformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/mpqcformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 68%] Linking CXX shared module ../../lib/mpqcformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/mpqcformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 68%] Built target mpqcformat [ 68%] Building CXX object src/formats/CMakeFiles/msiformat.dir/msiformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmsiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/msiformat.dir/msiformat.cpp.o -MF CMakeFiles/msiformat.dir/msiformat.cpp.o.d -o CMakeFiles/msiformat.dir/msiformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/msiformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/msiformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 68%] Linking CXX shared module ../../lib/msiformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/msiformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 68%] Built target msiformat [ 68%] Building CXX object src/formats/CMakeFiles/msmsformat.dir/msmsformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dmsmsformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/msmsformat.dir/msmsformat.cpp.o -MF CMakeFiles/msmsformat.dir/msmsformat.cpp.o.d -o CMakeFiles/msmsformat.dir/msmsformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/msmsformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/msmsformat.cpp:27: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 69%] Linking CXX shared module ../../lib/msmsformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/msmsformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 69%] Built target msmsformat [ 69%] Building CXX object src/formats/CMakeFiles/opendxformat.dir/opendxformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dopendxformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/opendxformat.dir/opendxformat.cpp.o -MF CMakeFiles/opendxformat.dir/opendxformat.cpp.o.d -o CMakeFiles/opendxformat.dir/opendxformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/opendxformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/opendxformat.cpp:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/opendxformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/opendxformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target opendxformat [ 70%] Building CXX object src/formats/CMakeFiles/outformat.dir/outformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Doutformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/outformat.dir/outformat.cpp.o -MF CMakeFiles/outformat.dir/outformat.cpp.o.d -o CMakeFiles/outformat.dir/outformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/outformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/outformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/outformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/outformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target outformat [ 70%] Building CXX object src/formats/CMakeFiles/pcmodelformat.dir/pcmodelformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpcmodelformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pcmodelformat.dir/pcmodelformat.cpp.o -MF CMakeFiles/pcmodelformat.dir/pcmodelformat.cpp.o.d -o CMakeFiles/pcmodelformat.dir/pcmodelformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pcmodelformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pcmodelformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/pcmodelformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pcmodelformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target pcmodelformat [ 70%] Building CXX object src/formats/CMakeFiles/pdbqtformat.dir/pdbqtformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpdbqtformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pdbqtformat.dir/pdbqtformat.cpp.o -MF CMakeFiles/pdbqtformat.dir/pdbqtformat.cpp.o.d -o CMakeFiles/pdbqtformat.dir/pdbqtformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:24: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/pdbqtformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pdbqtformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target pdbqtformat [ 70%] Building CXX object src/formats/CMakeFiles/pointcloudformat.dir/pointcloudformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpointcloudformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pointcloudformat.dir/pointcloudformat.cpp.o -MF CMakeFiles/pointcloudformat.dir/pointcloudformat.cpp.o.d -o CMakeFiles/pointcloudformat.dir/pointcloudformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pointcloudformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pointcloudformat.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/pointcloudformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pointcloudformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target pointcloudformat [ 70%] Building CXX object src/formats/CMakeFiles/posformat.dir/posformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dposformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/posformat.dir/posformat.cpp.o -MF CMakeFiles/posformat.dir/posformat.cpp.o.d -o CMakeFiles/posformat.dir/posformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/posformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/posformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/posformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/posformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target posformat [ 70%] Building CXX object src/formats/CMakeFiles/pqrformat.dir/pqrformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpqrformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pqrformat.dir/pqrformat.cpp.o -MF CMakeFiles/pqrformat.dir/pqrformat.cpp.o.d -o CMakeFiles/pqrformat.dir/pqrformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pqrformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/pqrformat.cpp:16: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/pqrformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pqrformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target pqrformat [ 70%] Building CXX object src/formats/CMakeFiles/shelxformat.dir/shelxformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dshelxformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/shelxformat.dir/shelxformat.cpp.o -MF CMakeFiles/shelxformat.dir/shelxformat.cpp.o.d -o CMakeFiles/shelxformat.dir/shelxformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/shelxformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/shelxformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 70%] Linking CXX shared module ../../lib/shelxformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/shelxformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target shelxformat [ 70%] Building CXX object src/formats/CMakeFiles/smileyformat.dir/smileyformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dsmileyformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/smileyformat.dir/smileyformat.cpp.o -MF CMakeFiles/smileyformat.dir/smileyformat.cpp.o.d -o CMakeFiles/smileyformat.dir/smileyformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:15: warning: 58 enumeration values not handled in switch: 'NotChiral', 'TH1', 'TH2'... [-Wswitch] switch (chirality) { ^~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:15: note: add missing switch cases switch (chirality) { ^ 2 warnings generated. [ 70%] Linking CXX shared module ../../lib/smileyformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/smileyformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 70%] Built target smileyformat [ 70%] Building CXX object src/formats/CMakeFiles/stlformat.dir/stlformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dstlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/stlformat.dir/stlformat.cpp.o -MF CMakeFiles/stlformat.dir/stlformat.cpp.o.d -o CMakeFiles/stlformat.dir/stlformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/stlformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/stlformat.cpp:32: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 71%] Linking CXX shared module ../../lib/stlformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/stlformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 71%] Built target stlformat [ 72%] Building CXX object src/formats/CMakeFiles/thermoformat.dir/thermoformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dthermoformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/thermoformat.dir/thermoformat.cpp.o -MF CMakeFiles/thermoformat.dir/thermoformat.cpp.o.d -o CMakeFiles/thermoformat.dir/thermoformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/thermoformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/thermoformat.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 72%] Linking CXX shared module ../../lib/thermoformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/thermoformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 72%] Built target thermoformat [ 72%] Building CXX object src/formats/CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dtinkerformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o -MF CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o.d -o CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/tinkerformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/tinkerformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 72%] Linking CXX shared module ../../lib/tinkerformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/tinkerformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 72%] Built target tinkerformat [ 72%] Building CXX object src/formats/CMakeFiles/unichemformat.dir/unichemformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dunichemformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/unichemformat.dir/unichemformat.cpp.o -MF CMakeFiles/unichemformat.dir/unichemformat.cpp.o.d -o CMakeFiles/unichemformat.dir/unichemformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/unichemformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/unichemformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 72%] Linking CXX shared module ../../lib/unichemformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/unichemformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 72%] Built target unichemformat [ 72%] Building CXX object src/formats/CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dviewmolformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o -MF CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o.d -o CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/viewmolformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/viewmolformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 72%] Linking CXX shared module ../../lib/viewmolformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/viewmolformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 72%] Built target viewmolformat [ 72%] Building CXX object src/formats/CMakeFiles/wlnformat.dir/wlnformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dwlnformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/wlnformat.dir/wlnformat.cpp.o -MF CMakeFiles/wlnformat.dir/wlnformat.cpp.o.d -o CMakeFiles/wlnformat.dir/wlnformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/wlnformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/wlnformat.cpp:18: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 72%] Building CXX object src/formats/CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dwlnformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o -MF CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o.d -o CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/wln-nextmove.cpp } || exit $? [ 73%] Linking CXX shared module ../../lib/wlnformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/wlnformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 73%] Built target wlnformat [ 73%] Building CXX object src/formats/CMakeFiles/xedformat.dir/xedformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dxedformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/xedformat.dir/xedformat.cpp.o -MF CMakeFiles/xedformat.dir/xedformat.cpp.o.d -o CMakeFiles/xedformat.dir/xedformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xedformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xedformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 73%] Linking CXX shared module ../../lib/xedformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/xedformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 73%] Built target xedformat [ 74%] Building CXX object src/formats/CMakeFiles/xyzformat.dir/xyzformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dxyzformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/xyzformat.dir/xyzformat.cpp.o -MF CMakeFiles/xyzformat.dir/xyzformat.cpp.o.d -o CMakeFiles/xyzformat.dir/xyzformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xyzformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xyzformat.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 74%] Linking CXX shared module ../../lib/xyzformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/xyzformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 74%] Built target xyzformat [ 74%] Building CXX object src/formats/CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dyasaraformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o -MF CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o.d -o CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:34: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 74%] Linking CXX shared module ../../lib/yasaraformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/yasaraformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 74%] Built target yasaraformat [ 75%] Building CXX object src/formats/CMakeFiles/rxnformat.dir/rxnformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Drxnformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/rxnformat.dir/rxnformat.cpp.o -MF CMakeFiles/rxnformat.dir/rxnformat.cpp.o.d -o CMakeFiles/rxnformat.dir/rxnformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/rxnformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/rxnformat.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 75%] Linking CXX shared module ../../lib/rxnformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/rxnformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 75%] Built target rxnformat [ 75%] Building CXX object src/formats/CMakeFiles/chemdrawcdx.dir/chemdrawcdx.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dchemdrawcdx_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/chemdrawcdx.dir/chemdrawcdx.cpp.o -MF CMakeFiles/chemdrawcdx.dir/chemdrawcdx.cpp.o.d -o CMakeFiles/chemdrawcdx.dir/chemdrawcdx.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemdrawcdx.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemdrawcdx.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemdrawcdx.cpp:62:7: warning: extra tokens at end of #else directive [-Wextra-tokens] #else BYTE_ORDER == LITTLE_ENDIAN ^ // 2 warnings generated. [ 75%] Linking CXX shared module ../../lib/chemdrawcdx.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/chemdrawcdx.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 75%] Built target chemdrawcdx [ 75%] Building CXX object src/formats/CMakeFiles/chemkinformat.dir/chemkinformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dchemkinformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/chemkinformat.dir/chemkinformat.cpp.o -MF CMakeFiles/chemkinformat.dir/chemkinformat.cpp.o.d -o CMakeFiles/chemkinformat.dir/chemkinformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemkinformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemkinformat.cpp:31: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemkinformat.cpp:911:12: warning: enumeration values 'ARRHENIUS' and 'THREEBODY' not handled in switch [-Wswitch] switch(pRD->ReactionType) ^~~~~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemkinformat.cpp:911:12: note: add missing switch cases switch(pRD->ReactionType) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemkinformat.cpp:990:12: warning: enumeration values 'ARRHENIUS' and 'SRI' not handled in switch [-Wswitch] switch(pRD->ReactionType) ^~~~~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/chemkinformat.cpp:990:12: note: add missing switch cases switch(pRD->ReactionType) ^ 3 warnings generated. [ 75%] Linking CXX shared module ../../lib/chemkinformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/chemkinformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 75%] Built target chemkinformat [ 75%] Building CXX object src/formats/CMakeFiles/rinchiformat.dir/rinchiformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Drinchiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/rinchiformat.dir/rinchiformat.cpp.o -MF CMakeFiles/rinchiformat.dir/rinchiformat.cpp.o.d -o CMakeFiles/rinchiformat.dir/rinchiformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/rinchiformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/rinchiformat.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Linking CXX shared module ../../lib/rinchiformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/rinchiformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 76%] Built target rinchiformat [ 76%] Building CXX object src/formats/CMakeFiles/rsmiformat.dir/rsmiformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Drsmiformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/rsmiformat.dir/rsmiformat.cpp.o -MF CMakeFiles/rsmiformat.dir/rsmiformat.cpp.o.d -o CMakeFiles/rsmiformat.dir/rsmiformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/rsmiformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/rsmiformat.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Linking CXX shared module ../../lib/rsmiformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/rsmiformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 76%] Built target rsmiformat [ 76%] Building CXX object src/formats/CMakeFiles/xtcformat.dir/xtcformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dxtcformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/xtcformat.dir/xtcformat.cpp.o -MF CMakeFiles/xtcformat.dir/xtcformat.cpp.o.d -o CMakeFiles/xtcformat.dir/xtcformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xtcformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xtcformat.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Linking CXX shared module ../../lib/xtcformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/xtcformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 76%] Built target xtcformat [ 76%] Building CXX object src/formats/CMakeFiles/png2format.dir/png2format.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpng2format_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/png2format.dir/png2format.cpp.o -MF CMakeFiles/png2format.dir/png2format.cpp.o.d -o CMakeFiles/png2format.dir/png2format.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/png2format.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/png2format.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Building CXX object src/formats/CMakeFiles/png2format.dir/__/depict/cairopainter.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpng2format_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/png2format.dir/__/depict/cairopainter.cpp.o -MF CMakeFiles/png2format.dir/__/depict/cairopainter.cpp.o.d -o CMakeFiles/png2format.dir/__/depict/cairopainter.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/depict/cairopainter.cpp } || exit $? [ 76%] Linking CXX shared module ../../lib/png2format.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/png2format.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 76%] Built target png2format [ 76%] Building CXX object src/formats/CMakeFiles/cdxmlformat.dir/xml/cdxmlformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcdxmlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cdxmlformat.dir/xml/cdxmlformat.cpp.o -MF CMakeFiles/cdxmlformat.dir/xml/cdxmlformat.cpp.o.d -o CMakeFiles/cdxmlformat.dir/xml/cdxmlformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cdxmlformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cdxmlformat.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Building CXX object src/formats/CMakeFiles/cdxmlformat.dir/xml/xml.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcdxmlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cdxmlformat.dir/xml/xml.cpp.o -MF CMakeFiles/cdxmlformat.dir/xml/xml.cpp.o.d -o CMakeFiles/cdxmlformat.dir/xml/xml.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Linking CXX shared module ../../lib/cdxmlformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cdxmlformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 76%] Built target cdxmlformat [ 76%] Building CXX object src/formats/CMakeFiles/cmlformat.dir/xml/cmlformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcmlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cmlformat.dir/xml/cmlformat.cpp.o -MF CMakeFiles/cmlformat.dir/xml/cmlformat.cpp.o.d -o CMakeFiles/cmlformat.dir/xml/cmlformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlformat.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Building CXX object src/formats/CMakeFiles/cmlformat.dir/xml/xml.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcmlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cmlformat.dir/xml/xml.cpp.o -MF CMakeFiles/cmlformat.dir/xml/xml.cpp.o.d -o CMakeFiles/cmlformat.dir/xml/xml.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 76%] Linking CXX shared module ../../lib/cmlformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cmlformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 76%] Built target cmlformat [ 76%] Building CXX object src/formats/CMakeFiles/pubchem.dir/xml/pubchem.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpubchem_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pubchem.dir/xml/pubchem.cpp.o -MF CMakeFiles/pubchem.dir/xml/pubchem.cpp.o.d -o CMakeFiles/pubchem.dir/xml/pubchem.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/pubchem.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/pubchem.cpp:17: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 77%] Building CXX object src/formats/CMakeFiles/pubchem.dir/xml/xml.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpubchem_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pubchem.dir/xml/xml.cpp.o -MF CMakeFiles/pubchem.dir/xml/xml.cpp.o.d -o CMakeFiles/pubchem.dir/xml/xml.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 77%] Linking CXX shared module ../../lib/pubchem.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pubchem.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 77%] Built target pubchem [ 77%] Building CXX object src/formats/CMakeFiles/xmlformat.dir/xml/xmlformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dxmlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/xmlformat.dir/xml/xmlformat.cpp.o -MF CMakeFiles/xmlformat.dir/xml/xmlformat.cpp.o.d -o CMakeFiles/xmlformat.dir/xml/xmlformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xmlformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xmlformat.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 77%] Building CXX object src/formats/CMakeFiles/xmlformat.dir/xml/xml.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dxmlformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/xmlformat.dir/xml/xml.cpp.o -MF CMakeFiles/xmlformat.dir/xml/xml.cpp.o.d -o CMakeFiles/xmlformat.dir/xml/xml.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 78%] Linking CXX shared module ../../lib/xmlformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/xmlformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 78%] Built target xmlformat [ 79%] Building CXX object src/formats/CMakeFiles/cmlreactformat.dir/xml/cmlreactformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcmlreactformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cmlreactformat.dir/xml/cmlreactformat.cpp.o -MF CMakeFiles/cmlreactformat.dir/xml/cmlreactformat.cpp.o.d -o CMakeFiles/cmlreactformat.dir/xml/cmlreactformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlreactformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlreactformat.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlreactformat.cpp:706:10: warning: enumeration value 'ARRHENIUS' not handled in switch [-Wswitch] switch(pRD->ReactionType) ^~~~~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlreactformat.cpp:706:10: note: add missing switch cases switch(pRD->ReactionType) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlreactformat.cpp:734:10: warning: enumeration values 'ARRHENIUS' and 'SRI' not handled in switch [-Wswitch] switch(pRD->ReactionType) ^~~~~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/cmlreactformat.cpp:734:10: note: add missing switch cases switch(pRD->ReactionType) ^ 3 warnings generated. [ 79%] Building CXX object src/formats/CMakeFiles/cmlreactformat.dir/xml/xml.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dcmlreactformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/cmlreactformat.dir/xml/xml.cpp.o -MF CMakeFiles/cmlreactformat.dir/xml/xml.cpp.o.d -o CMakeFiles/cmlreactformat.dir/xml/xml.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/xml/xml.cpp:15: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/xml.h:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 79%] Linking CXX shared module ../../lib/cmlreactformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/cmlreactformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 79%] Built target cmlreactformat [ 79%] Building CXX object src/formats/CMakeFiles/chemdoodlejsonformat.dir/json/chemdoodlejsonformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dchemdoodlejsonformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/chemdoodlejsonformat.dir/json/chemdoodlejsonformat.cpp.o -MF CMakeFiles/chemdoodlejsonformat.dir/json/chemdoodlejsonformat.cpp.o.d -o CMakeFiles/chemdoodlejsonformat.dir/json/chemdoodlejsonformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/json/chemdoodlejsonformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/json/chemdoodlejsonformat.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 79%] Linking CXX shared module ../../lib/chemdoodlejsonformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/chemdoodlejsonformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 79%] Built target chemdoodlejsonformat [ 79%] Building CXX object src/formats/CMakeFiles/pubchemjsonformat.dir/json/pubchemjsonformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dpubchemjsonformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/pubchemjsonformat.dir/json/pubchemjsonformat.cpp.o -MF CMakeFiles/pubchemjsonformat.dir/json/pubchemjsonformat.cpp.o.d -o CMakeFiles/pubchemjsonformat.dir/json/pubchemjsonformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/json/pubchemjsonformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/json/pubchemjsonformat.cpp:21: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 79%] Linking CXX shared module ../../lib/pubchemjsonformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/pubchemjsonformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [ 79%] Built target pubchemjsonformat [ 80%] Building CXX object tools/CMakeFiles/obabel.dir/obabel.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obabel.dir/obabel.cpp.o -MF CMakeFiles/obabel.dir/obabel.cpp.o.d -o CMakeFiles/obabel.dir/obabel.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obabel.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obabel.cpp:43: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 80%] Linking CXX executable ../bin/obabel { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obabel.dir/link.txt --verbose= } || exit $? [ 80%] Built target obabel [ 80%] Building CXX object tools/CMakeFiles/obconformer.dir/obconformer.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obconformer.dir/obconformer.cpp.o -MF CMakeFiles/obconformer.dir/obconformer.cpp.o.d -o CMakeFiles/obconformer.dir/obconformer.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obconformer.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obconformer.cpp:25: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 80%] Linking CXX executable ../bin/obconformer { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obconformer.dir/link.txt --verbose= } || exit $? [ 80%] Built target obconformer [ 81%] Building CXX object tools/CMakeFiles/obenergy.dir/obenergy.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obenergy.dir/obenergy.cpp.o -MF CMakeFiles/obenergy.dir/obenergy.cpp.o.d -o CMakeFiles/obenergy.dir/obenergy.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obenergy.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obenergy.cpp:28: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 81%] Linking CXX executable ../bin/obenergy { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obenergy.dir/link.txt --verbose= } || exit $? [ 81%] Built target obenergy [ 81%] Building CXX object tools/CMakeFiles/obfit.dir/obfit.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obfit.dir/obfit.cpp.o -MF CMakeFiles/obfit.dir/obfit.cpp.o.d -o CMakeFiles/obfit.dir/obfit.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obfit.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obfit.cpp:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obfit.cpp:326:11: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(rmsd_string,"%f", best_rmsd); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 2 warnings generated. [ 81%] Linking CXX executable ../bin/obfit { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obfit.dir/link.txt --verbose= } || exit $? [ 81%] Built target obfit [ 81%] Building CXX object tools/CMakeFiles/obfitall.dir/obfitall.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obfitall.dir/obfitall.cpp.o -MF CMakeFiles/obfitall.dir/obfitall.cpp.o.d -o CMakeFiles/obfitall.dir/obfitall.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obfitall.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obfitall.cpp:40: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obfitall.cpp:308:13: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(rmsd_string,"%f", rmsd); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 2 warnings generated. [ 82%] Linking CXX executable ../bin/obfitall { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obfitall.dir/link.txt --verbose= } || exit $? [ 82%] Built target obfitall [ 82%] Building CXX object tools/CMakeFiles/obgen.dir/obgen.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obgen.dir/obgen.cpp.o -MF CMakeFiles/obgen.dir/obgen.cpp.o.d -o CMakeFiles/obgen.dir/obgen.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obgen.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obgen.cpp:32: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 82%] Linking CXX executable ../bin/obgen { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obgen.dir/link.txt --verbose= } || exit $? [ 82%] Built target obgen [ 83%] Building CXX object tools/CMakeFiles/obminimize.dir/obminimize.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obminimize.dir/obminimize.cpp.o -MF CMakeFiles/obminimize.dir/obminimize.cpp.o.d -o CMakeFiles/obminimize.dir/obminimize.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obminimize.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obminimize.cpp:28: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 83%] Linking CXX executable ../bin/obminimize { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obminimize.dir/link.txt --verbose= } || exit $? [ 83%] Built target obminimize [ 83%] Building CXX object tools/CMakeFiles/obmm.dir/obmm.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obmm.dir/obmm.cpp.o -MF CMakeFiles/obmm.dir/obmm.cpp.o.d -o CMakeFiles/obmm.dir/obmm.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obmm.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obmm.cpp:58: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 83%] Linking CXX executable ../bin/obmm { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obmm.dir/link.txt --verbose= } || exit $? [ 83%] Built target obmm [ 83%] Building CXX object tools/CMakeFiles/obprobe.dir/obprobe.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obprobe.dir/obprobe.cpp.o -MF CMakeFiles/obprobe.dir/obprobe.cpp.o.d -o CMakeFiles/obprobe.dir/obprobe.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obprobe.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obprobe.cpp:32: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 83%] Linking CXX executable ../bin/obprobe { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obprobe.dir/link.txt --verbose= } || exit $? [ 83%] Built target obprobe [ 84%] Building CXX object tools/CMakeFiles/obprop.dir/obprop.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obprop.dir/obprop.cpp.o -MF CMakeFiles/obprop.dir/obprop.cpp.o.d -o CMakeFiles/obprop.dir/obprop.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obprop.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obprop.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 84%] Linking CXX executable ../bin/obprop { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obprop.dir/link.txt --verbose= } || exit $? [ 84%] Built target obprop [ 84%] Building CXX object tools/CMakeFiles/obrotamer.dir/obrotamer.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obrotamer.dir/obrotamer.cpp.o -MF CMakeFiles/obrotamer.dir/obrotamer.cpp.o.d -o CMakeFiles/obrotamer.dir/obrotamer.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obrotamer.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obrotamer.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 85%] Linking CXX executable ../bin/obrotamer { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obrotamer.dir/link.txt --verbose= } || exit $? [ 85%] Built target obrotamer [ 85%] Building CXX object tools/CMakeFiles/obrotate.dir/obrotate.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obrotate.dir/obrotate.cpp.o -MF CMakeFiles/obrotate.dir/obrotate.cpp.o.d -o CMakeFiles/obrotate.dir/obrotate.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obrotate.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obrotate.cpp:43: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 85%] Linking CXX executable ../bin/obrotate { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obrotate.dir/link.txt --verbose= } || exit $? [ 85%] Built target obrotate [ 86%] Building CXX object tools/CMakeFiles/obsym.dir/obsym.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obsym.dir/obsym.cpp.o -MF CMakeFiles/obsym.dir/obsym.cpp.o.d -o CMakeFiles/obsym.dir/obsym.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obsym.cpp } || exit $? 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[ 86%] Linking CXX executable ../bin/obsym { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obsym.dir/link.txt --verbose= } || exit $? [ 86%] Built target obsym [ 86%] Building CXX object tools/CMakeFiles/obtautomer.dir/obtautomer.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obtautomer.dir/obtautomer.cpp.o -MF CMakeFiles/obtautomer.dir/obtautomer.cpp.o.d -o CMakeFiles/obtautomer.dir/obtautomer.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obtautomer.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obtautomer.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Linking CXX executable ../bin/obtautomer { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obtautomer.dir/link.txt --verbose= } || exit $? [ 86%] Built target obtautomer [ 86%] Building CXX object tools/CMakeFiles/obthermo.dir/obthermo.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obthermo.dir/obthermo.cpp.o -MF CMakeFiles/obthermo.dir/obthermo.cpp.o.d -o CMakeFiles/obthermo.dir/obthermo.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obthermo.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obthermo.cpp:27: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Linking CXX executable ../bin/obthermo { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obthermo.dir/link.txt --verbose= } || exit $? [ 86%] Built target obthermo [ 86%] Building CXX object tools/CMakeFiles/obdistgen.dir/obdistgen.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obdistgen.dir/obdistgen.cpp.o -MF CMakeFiles/obdistgen.dir/obdistgen.cpp.o.d -o CMakeFiles/obdistgen.dir/obdistgen.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obdistgen.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obdistgen.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Linking CXX executable ../bin/obdistgen { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obdistgen.dir/link.txt --verbose= } || exit $? [ 86%] Built target obdistgen [ 86%] Building CXX object tools/CMakeFiles/obgrep.dir/obgrep.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obgrep.dir/obgrep.cpp.o -MF CMakeFiles/obgrep.dir/obgrep.cpp.o.d -o CMakeFiles/obgrep.dir/obgrep.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obgrep.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obgrep.cpp:28: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Linking CXX executable ../bin/obgrep { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obgrep.dir/link.txt --verbose= } || exit $? [ 86%] Built target obgrep [ 86%] Building CXX object tools/CMakeFiles/obspectrophore.dir/obspectrophore.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obspectrophore.dir/obspectrophore.cpp.o -MF CMakeFiles/obspectrophore.dir/obspectrophore.cpp.o.d -o CMakeFiles/obspectrophore.dir/obspectrophore.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obspectrophore.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obspectrophore.cpp:10: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Linking CXX executable ../bin/obspectrophore { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obspectrophore.dir/link.txt --verbose= } || exit $? [ 86%] Built target obspectrophore [ 86%] Building CXX object tools/CMakeFiles/obrms.dir/obrms.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT tools/CMakeFiles/obrms.dir/obrms.cpp.o -MF CMakeFiles/obrms.dir/obrms.cpp.o.d -o CMakeFiles/obrms.dir/obrms.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obrms.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/tools/obrms.cpp:33: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Linking CXX executable ../bin/obrms { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/tools && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/obrms.dir/link.txt --verbose= } || exit $? [ 86%] Built target obrms [ 86%] Building CXX object test/CMakeFiles/test_runner.dir/test_runner.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/test_runner.cpp.o -MF CMakeFiles/test_runner.dir/test_runner.cpp.o.d -o CMakeFiles/test_runner.dir/test_runner.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test/test_runner.cpp } || exit $? [ 86%] Building CXX object test/CMakeFiles/test_runner.dir/aligntest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/aligntest.cpp.o -MF CMakeFiles/test_runner.dir/aligntest.cpp.o.d -o CMakeFiles/test_runner.dir/aligntest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/aligntest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/aligntest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Building CXX object test/CMakeFiles/test_runner.dir/aliastest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/aliastest.cpp.o -MF CMakeFiles/test_runner.dir/aliastest.cpp.o.d -o CMakeFiles/test_runner.dir/aliastest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/aliastest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/aliastest.cpp:14: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Building CXX object test/CMakeFiles/test_runner.dir/automorphismtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/automorphismtest.cpp.o -MF CMakeFiles/test_runner.dir/automorphismtest.cpp.o.d -o CMakeFiles/test_runner.dir/automorphismtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/automorphismtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/automorphismtest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 86%] Building CXX object test/CMakeFiles/test_runner.dir/buildertest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/buildertest.cpp.o -MF CMakeFiles/test_runner.dir/buildertest.cpp.o.d -o CMakeFiles/test_runner.dir/buildertest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/buildertest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/buildertest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 87%] Building CXX object test/CMakeFiles/test_runner.dir/canonconsistenttest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/canonconsistenttest.cpp.o -MF CMakeFiles/test_runner.dir/canonconsistenttest.cpp.o.d -o CMakeFiles/test_runner.dir/canonconsistenttest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/canonconsistenttest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/canonconsistenttest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 87%] Building CXX object test/CMakeFiles/test_runner.dir/canonfragmenttest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/canonfragmenttest.cpp.o -MF CMakeFiles/test_runner.dir/canonfragmenttest.cpp.o.d -o CMakeFiles/test_runner.dir/canonfragmenttest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/canonfragmenttest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/canonfragmenttest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 87%] Building CXX object test/CMakeFiles/test_runner.dir/canonstabletest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/canonstabletest.cpp.o -MF CMakeFiles/test_runner.dir/canonstabletest.cpp.o.d -o CMakeFiles/test_runner.dir/canonstabletest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/canonstabletest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/canonstabletest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 87%] Building CXX object test/CMakeFiles/test_runner.dir/carspacegrouptest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/carspacegrouptest.cpp.o -MF CMakeFiles/test_runner.dir/carspacegrouptest.cpp.o.d -o CMakeFiles/test_runner.dir/carspacegrouptest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/carspacegrouptest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/carspacegrouptest.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 87%] Building CXX object test/CMakeFiles/test_runner.dir/cifspacegrouptest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/cifspacegrouptest.cpp.o -MF CMakeFiles/test_runner.dir/cifspacegrouptest.cpp.o.d -o CMakeFiles/test_runner.dir/cifspacegrouptest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cifspacegrouptest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cifspacegrouptest.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 88%] Building CXX object test/CMakeFiles/test_runner.dir/cistranstest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/cistranstest.cpp.o -MF CMakeFiles/test_runner.dir/cistranstest.cpp.o.d -o CMakeFiles/test_runner.dir/cistranstest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cistranstest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cistranstest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 88%] Building CXX object test/CMakeFiles/test_runner.dir/conversiontest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/conversiontest.cpp.o -MF CMakeFiles/test_runner.dir/conversiontest.cpp.o.d -o CMakeFiles/test_runner.dir/conversiontest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/conversiontest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/conversiontest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 88%] Building CXX object test/CMakeFiles/test_runner.dir/graphsymtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/graphsymtest.cpp.o -MF CMakeFiles/test_runner.dir/graphsymtest.cpp.o.d -o CMakeFiles/test_runner.dir/graphsymtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/graphsymtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/graphsymtest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 88%] Building CXX object test/CMakeFiles/test_runner.dir/gziptest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/gziptest.cpp.o -MF CMakeFiles/test_runner.dir/gziptest.cpp.o.d -o CMakeFiles/test_runner.dir/gziptest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/gziptest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/gziptest.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 88%] Building CXX object test/CMakeFiles/test_runner.dir/addhtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/addhtest.cpp.o -MF CMakeFiles/test_runner.dir/addhtest.cpp.o.d -o CMakeFiles/test_runner.dir/addhtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/addhtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/addhtest.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 89%] Building CXX object test/CMakeFiles/test_runner.dir/implicitHtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/implicitHtest.cpp.o -MF CMakeFiles/test_runner.dir/implicitHtest.cpp.o.d -o CMakeFiles/test_runner.dir/implicitHtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/implicitHtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/implicitHtest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 89%] Building CXX object test/CMakeFiles/test_runner.dir/lssrtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/lssrtest.cpp.o -MF CMakeFiles/test_runner.dir/lssrtest.cpp.o.d -o CMakeFiles/test_runner.dir/lssrtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/lssrtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/lssrtest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 89%] Building CXX object test/CMakeFiles/test_runner.dir/isomorphismtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/isomorphismtest.cpp.o -MF CMakeFiles/test_runner.dir/isomorphismtest.cpp.o.d -o CMakeFiles/test_runner.dir/isomorphismtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/isomorphismtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/isomorphismtest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 89%] Building CXX object test/CMakeFiles/test_runner.dir/multicmltest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/multicmltest.cpp.o -MF CMakeFiles/test_runner.dir/multicmltest.cpp.o.d -o CMakeFiles/test_runner.dir/multicmltest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/multicmltest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/multicmltest.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 89%] Building CXX object test/CMakeFiles/test_runner.dir/periodictest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/periodictest.cpp.o -MF CMakeFiles/test_runner.dir/periodictest.cpp.o.d -o CMakeFiles/test_runner.dir/periodictest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/periodictest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/periodictest.cpp:20: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 89%] Building CXX object test/CMakeFiles/test_runner.dir/regressionstest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/regressionstest.cpp.o -MF CMakeFiles/test_runner.dir/regressionstest.cpp.o.d -o CMakeFiles/test_runner.dir/regressionstest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/regressionstest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/regressionstest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 90%] Building CXX object test/CMakeFiles/test_runner.dir/rotortest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/rotortest.cpp.o -MF CMakeFiles/test_runner.dir/rotortest.cpp.o.d -o CMakeFiles/test_runner.dir/rotortest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/rotortest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/rotortest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 90%] Building CXX object test/CMakeFiles/test_runner.dir/shuffletest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/shuffletest.cpp.o -MF CMakeFiles/test_runner.dir/shuffletest.cpp.o.d -o CMakeFiles/test_runner.dir/shuffletest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/shuffletest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/shuffletest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 90%] Building CXX object test/CMakeFiles/test_runner.dir/smilestest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/smilestest.cpp.o -MF CMakeFiles/test_runner.dir/smilestest.cpp.o.d -o CMakeFiles/test_runner.dir/smilestest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smilestest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smilestest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 90%] Building CXX object test/CMakeFiles/test_runner.dir/spectrophoretest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/spectrophoretest.cpp.o -MF CMakeFiles/test_runner.dir/spectrophoretest.cpp.o.d -o CMakeFiles/test_runner.dir/spectrophoretest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/spectrophoretest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/spectrophoretest.cpp:3: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 90%] Building CXX object test/CMakeFiles/test_runner.dir/squareplanartest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/squareplanartest.cpp.o -MF CMakeFiles/test_runner.dir/squareplanartest.cpp.o.d -o CMakeFiles/test_runner.dir/squareplanartest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/squareplanartest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/squareplanartest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 91%] Building CXX object test/CMakeFiles/test_runner.dir/stereotest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/stereotest.cpp.o -MF CMakeFiles/test_runner.dir/stereotest.cpp.o.d -o CMakeFiles/test_runner.dir/stereotest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereotest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereotest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereotest.cpp:102:13: warning: 5 enumeration values not handled in switch: 'ExtendedCisTrans', 'SquarePlanar', 'ExtendedTetrahedral'... [-Wswitch] switch (units.at(i).type) { ^~~~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereotest.cpp:102:13: note: add missing switch cases switch (units.at(i).type) { ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereotest.cpp:132:13: warning: 5 enumeration values not handled in switch: 'ExtendedCisTrans', 'SquarePlanar', 'ExtendedTetrahedral'... [-Wswitch] switch (units.at(i).type) { ^~~~~~~~~~~~~~~~ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereotest.cpp:132:13: note: add missing switch cases switch (units.at(i).type) { ^ 3 warnings generated. [ 91%] Building CXX object test/CMakeFiles/test_runner.dir/stereoperceptiontest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/stereoperceptiontest.cpp.o -MF CMakeFiles/test_runner.dir/stereoperceptiontest.cpp.o.d -o CMakeFiles/test_runner.dir/stereoperceptiontest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp:255:21: warning: backslash and newline separated by space [-Wbackslash-newline-escape] // / \ ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp:270:21: warning: backslash and newline separated by space [-Wbackslash-newline-escape] // / \ ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp:285:16: warning: backslash and newline separated by space [-Wbackslash-newline-escape] // \ ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp:287:21: warning: backslash and newline separated by space [-Wbackslash-newline-escape] // \ ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp:310:21: warning: backslash and newline separated by space [-Wbackslash-newline-escape] // \ ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/stereoperceptiontest.cpp:432:10: warning: backslash and newline separated by space [-Wbackslash-newline-escape] // \ ^ 7 warnings generated. [ 91%] Building CXX object test/CMakeFiles/test_runner.dir/tautomertest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/tautomertest.cpp.o -MF CMakeFiles/test_runner.dir/tautomertest.cpp.o.d -o CMakeFiles/test_runner.dir/tautomertest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tautomertest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tautomertest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 91%] Building CXX object test/CMakeFiles/test_runner.dir/tetrahedraltest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/tetrahedraltest.cpp.o -MF CMakeFiles/test_runner.dir/tetrahedraltest.cpp.o.d -o CMakeFiles/test_runner.dir/tetrahedraltest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tetrahedraltest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tetrahedraltest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 91%] Building CXX object test/CMakeFiles/test_runner.dir/tetranonplanartest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/tetranonplanartest.cpp.o -MF CMakeFiles/test_runner.dir/tetranonplanartest.cpp.o.d -o CMakeFiles/test_runner.dir/tetranonplanartest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tetranonplanartest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tetranonplanartest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 92%] Building CXX object test/CMakeFiles/test_runner.dir/tetraplanartest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/tetraplanartest.cpp.o -MF CMakeFiles/test_runner.dir/tetraplanartest.cpp.o.d -o CMakeFiles/test_runner.dir/tetraplanartest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tetraplanartest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/tetraplanartest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 92%] Building CXX object test/CMakeFiles/test_runner.dir/uniqueidtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/uniqueidtest.cpp.o -MF CMakeFiles/test_runner.dir/uniqueidtest.cpp.o.d -o CMakeFiles/test_runner.dir/uniqueidtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/uniqueidtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/uniqueidtest.cpp:1: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 92%] Building CXX object test/CMakeFiles/test_runner.dir/maereadertest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/maereadertest.cpp.o -MF CMakeFiles/test_runner.dir/maereadertest.cpp.o.d -o CMakeFiles/test_runner.dir/maereadertest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/maereadertest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/maereadertest.cpp:19: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 92%] Building CXX object test/CMakeFiles/test_runner.dir/aromatest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/aromatest.cpp.o -MF CMakeFiles/test_runner.dir/aromatest.cpp.o.d -o CMakeFiles/test_runner.dir/aromatest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/aromatest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/aromatest.cpp:28: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 92%] Building CXX object test/CMakeFiles/test_runner.dir/atom.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/atom.cpp.o -MF CMakeFiles/test_runner.dir/atom.cpp.o.d -o CMakeFiles/test_runner.dir/atom.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/atom.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/atom.cpp:27: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 92%] Building CXX object test/CMakeFiles/test_runner.dir/bond.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/bond.cpp.o -MF CMakeFiles/test_runner.dir/bond.cpp.o.d -o CMakeFiles/test_runner.dir/bond.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/bond.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/bond.cpp:28: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 93%] Building CXX object test/CMakeFiles/test_runner.dir/cansmi.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/cansmi.cpp.o -MF CMakeFiles/test_runner.dir/cansmi.cpp.o.d -o CMakeFiles/test_runner.dir/cansmi.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cansmi.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cansmi.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 93%] Building CXX object test/CMakeFiles/test_runner.dir/charge_mmff94.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/charge_mmff94.cpp.o -MF CMakeFiles/test_runner.dir/charge_mmff94.cpp.o.d -o CMakeFiles/test_runner.dir/charge_mmff94.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_mmff94.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_mmff94.cpp:13: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_mmff94.cpp:221:7: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f%15.5f%15.5f\n", dipoleMoment.x(), dipoleMoment.y(), dipoleMoment.z()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_mmff94.cpp:226:9: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f\n", atom->GetPartialCharge()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 3 warnings generated. [ 93%] Building CXX object test/CMakeFiles/test_runner.dir/charge_gasteiger.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/charge_gasteiger.cpp.o -MF CMakeFiles/test_runner.dir/charge_gasteiger.cpp.o.d -o CMakeFiles/test_runner.dir/charge_gasteiger.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_gasteiger.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_gasteiger.cpp:13: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_gasteiger.cpp:217:7: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f%15.5f%15.5f\n", dipoleMoment.x(), dipoleMoment.y(), dipoleMoment.z()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/charge_gasteiger.cpp:222:9: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f\n", atom->GetPartialCharge()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 3 warnings generated. [ 93%] Building CXX object test/CMakeFiles/test_runner.dir/conversion.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/conversion.cpp.o -MF CMakeFiles/test_runner.dir/conversion.cpp.o.d -o CMakeFiles/test_runner.dir/conversion.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/conversion.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/conversion.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 93%] Building CXX object test/CMakeFiles/test_runner.dir/datatest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/datatest.cpp.o -MF CMakeFiles/test_runner.dir/datatest.cpp.o.d -o CMakeFiles/test_runner.dir/datatest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/datatest.cpp } || exit $? [ 94%] Building CXX object test/CMakeFiles/test_runner.dir/ffgaff.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/ffgaff.cpp.o -MF CMakeFiles/test_runner.dir/ffgaff.cpp.o.d -o CMakeFiles/test_runner.dir/ffgaff.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffgaff.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffgaff.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffgaff.cpp:203:7: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f\n", pFF->Energy(false)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 2 warnings generated. [ 94%] Building CXX object test/CMakeFiles/test_runner.dir/ffghemical.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/ffghemical.cpp.o -MF CMakeFiles/test_runner.dir/ffghemical.cpp.o.d -o CMakeFiles/test_runner.dir/ffghemical.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffghemical.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffghemical.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffghemical.cpp:202:7: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f\n", pFF->Energy(false)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 2 warnings generated. [ 94%] Building CXX object test/CMakeFiles/test_runner.dir/ffmmff94.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/ffmmff94.cpp.o -MF CMakeFiles/test_runner.dir/ffmmff94.cpp.o.d -o CMakeFiles/test_runner.dir/ffmmff94.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffmmff94.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffmmff94.cpp:28: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.h:8: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffmmff94.cpp:83:7: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f\n", pFF->Energy(false)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 2 warnings generated. [ 94%] Building CXX object test/CMakeFiles/test_runner.dir/ffuff.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/ffuff.cpp.o -MF CMakeFiles/test_runner.dir/ffuff.cpp.o.d -o CMakeFiles/test_runner.dir/ffuff.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffuff.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffuff.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ffuff.cpp:202:7: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer, "%15.5f\n", pFF->Energy(false)); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 2 warnings generated. [ 94%] Building CXX object test/CMakeFiles/test_runner.dir/formalcharge.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/formalcharge.cpp.o -MF CMakeFiles/test_runner.dir/formalcharge.cpp.o.d -o CMakeFiles/test_runner.dir/formalcharge.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/formalcharge.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/formalcharge.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 95%] Building CXX object test/CMakeFiles/test_runner.dir/format.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/format.cpp.o -MF CMakeFiles/test_runner.dir/format.cpp.o.d -o CMakeFiles/test_runner.dir/format.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/format.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/format.cpp:27: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 95%] Building CXX object test/CMakeFiles/test_runner.dir/formula.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/formula.cpp.o -MF CMakeFiles/test_runner.dir/formula.cpp.o.d -o CMakeFiles/test_runner.dir/formula.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/formula.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/formula.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 95%] Building CXX object test/CMakeFiles/test_runner.dir/internalcoord.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/internalcoord.cpp.o -MF CMakeFiles/test_runner.dir/internalcoord.cpp.o.d -o CMakeFiles/test_runner.dir/internalcoord.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/internalcoord.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/internalcoord.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 95%] Building CXX object test/CMakeFiles/test_runner.dir/invalidsmarts.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/invalidsmarts.cpp.o -MF CMakeFiles/test_runner.dir/invalidsmarts.cpp.o.d -o CMakeFiles/test_runner.dir/invalidsmarts.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/invalidsmarts.cpp } || exit $? [ 95%] Building CXX object test/CMakeFiles/test_runner.dir/invalidsmiles.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/invalidsmiles.cpp.o -MF CMakeFiles/test_runner.dir/invalidsmiles.cpp.o.d -o CMakeFiles/test_runner.dir/invalidsmiles.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/invalidsmiles.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/invalidsmiles.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 95%] Building CXX object test/CMakeFiles/test_runner.dir/iterators.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/iterators.cpp.o -MF CMakeFiles/test_runner.dir/iterators.cpp.o.d -o CMakeFiles/test_runner.dir/iterators.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/iterators.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/iterators.cpp:32: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 96%] Building CXX object test/CMakeFiles/test_runner.dir/logp_psa.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/logp_psa.cpp.o -MF CMakeFiles/test_runner.dir/logp_psa.cpp.o.d -o CMakeFiles/test_runner.dir/logp_psa.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/logp_psa.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/logp_psa.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 96%] Building CXX object test/CMakeFiles/test_runner.dir/math.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/math.cpp.o -MF CMakeFiles/test_runner.dir/math.cpp.o.d -o CMakeFiles/test_runner.dir/math.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/math.cpp } || exit $? [ 96%] Building CXX object test/CMakeFiles/test_runner.dir/mol.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/mol.cpp.o -MF CMakeFiles/test_runner.dir/mol.cpp.o.d -o CMakeFiles/test_runner.dir/mol.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/mol.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/mol.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 96%] Building CXX object test/CMakeFiles/test_runner.dir/pdbreadfile.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/pdbreadfile.cpp.o -MF CMakeFiles/test_runner.dir/pdbreadfile.cpp.o.d -o CMakeFiles/test_runner.dir/pdbreadfile.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/pdbreadfile.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/pdbreadfile.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 96%] Building CXX object test/CMakeFiles/test_runner.dir/phmodel.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/phmodel.cpp.o -MF CMakeFiles/test_runner.dir/phmodel.cpp.o.d -o CMakeFiles/test_runner.dir/phmodel.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/phmodel.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/phmodel.cpp:25: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 97%] Building CXX object test/CMakeFiles/test_runner.dir/residue.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/residue.cpp.o -MF CMakeFiles/test_runner.dir/residue.cpp.o.d -o CMakeFiles/test_runner.dir/residue.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/residue.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/residue.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 97%] Building CXX object test/CMakeFiles/test_runner.dir/ringtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/ringtest.cpp.o -MF CMakeFiles/test_runner.dir/ringtest.cpp.o.d -o CMakeFiles/test_runner.dir/ringtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ringtest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ringtest.cpp:33: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ringtest.cpp:247:13: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer,"%3d",bond->GetIdx()); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/ringtest.cpp:264:11: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer,"%3d",count); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 3 warnings generated. [ 97%] Building CXX object test/CMakeFiles/test_runner.dir/smartstest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/smartstest.cpp.o -MF CMakeFiles/test_runner.dir/smartstest.cpp.o.d -o CMakeFiles/test_runner.dir/smartstest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smartstest.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smartstest.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smartstest.cpp:271:15: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations] sprintf(buffer,"%3d",*(j->begin())); ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/stdio.h:180:1: note: 'sprintf' has been explicitly marked deprecated here __deprecated_msg("This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead.") ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/sys/cdefs.h:218:48: note: expanded from macro '__deprecated_msg' #define __deprecated_msg(_msg) __attribute__((__deprecated__(_msg))) ^ 2 warnings generated. [ 97%] Building CXX object test/CMakeFiles/test_runner.dir/smartsparse.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/smartsparse.cpp.o -MF CMakeFiles/test_runner.dir/smartsparse.cpp.o.d -o CMakeFiles/test_runner.dir/smartsparse.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smartsparse.cpp } || exit $? [ 97%] Building CXX object test/CMakeFiles/test_runner.dir/smilesmatch.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/smilesmatch.cpp.o -MF CMakeFiles/test_runner.dir/smilesmatch.cpp.o.d -o CMakeFiles/test_runner.dir/smilesmatch.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smilesmatch.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/smilesmatch.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 98%] Building CXX object test/CMakeFiles/test_runner.dir/unitcell.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/unitcell.cpp.o -MF CMakeFiles/test_runner.dir/unitcell.cpp.o.d -o CMakeFiles/test_runner.dir/unitcell.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/unitcell.cpp } || exit $? [ 98%] Building CXX object test/CMakeFiles/test_runner.dir/cmlreadfile.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/cmlreadfile.cpp.o -MF CMakeFiles/test_runner.dir/cmlreadfile.cpp.o.d -o CMakeFiles/test_runner.dir/cmlreadfile.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cmlreadfile.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/cmlreadfile.cpp:26: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 98%] Building CXX object test/CMakeFiles/test_runner.dir/obtest.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_runner.dir/obtest.cpp.o -MF CMakeFiles/test_runner.dir/obtest.cpp.o.d -o CMakeFiles/test_runner.dir/obtest.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/obtest.cpp } || exit $? [ 98%] Linking CXX executable ../bin/test_runner { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/test_runner.dir/link.txt --verbose= } || exit $? [ 98%] Built target test_runner [ 98%] Building CXX object test/CMakeFiles/test_inchiwrite.dir/inchiwrite.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_inchiwrite.dir/inchiwrite.cpp.o -MF CMakeFiles/test_inchiwrite.dir/inchiwrite.cpp.o.d -o CMakeFiles/test_inchiwrite.dir/inchiwrite.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/inchiwrite.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/inchiwrite.cpp:30: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 98%] Building CXX object test/CMakeFiles/test_inchiwrite.dir/__/src/formats/getinchi.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/test_inchiwrite.dir/__/src/formats/getinchi.cpp.o -MF CMakeFiles/test_inchiwrite.dir/__/src/formats/getinchi.cpp.o.d -o CMakeFiles/test_inchiwrite.dir/__/src/formats/getinchi.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/getinchi.cpp } || exit $? [ 99%] Linking CXX executable ../bin/test_inchiwrite { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/test_inchiwrite.dir/link.txt --verbose= } || exit $? [ 99%] Built target test_inchiwrite [ 99%] Building CXX object test/CMakeFiles/roundtrip.dir/roundtrip.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DFORMATDIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/lib//\" -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DTESTDATADIR=\"/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/files/\" -DUSING_DYNAMIC_LIBS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIE -MD -MT test/CMakeFiles/roundtrip.dir/roundtrip.cpp.o -MF CMakeFiles/roundtrip.dir/roundtrip.cpp.o.d -o CMakeFiles/roundtrip.dir/roundtrip.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/roundtrip.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/test/roundtrip.cpp:29: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [ 99%] Linking CXX executable ../bin/roundtrip { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/test && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/roundtrip.dir/link.txt --verbose= } || exit $? [ 99%] Built target roundtrip [100%] Building CXX object src/formats/CMakeFiles/smilesformat.dir/smilesformat.cpp.o { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /Users/pbulk/build/biology/openbabel/work/.cwrapper/bin/clang++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DUSING_DYNAMIC_LIBS -Dsmilesformat_EXPORTS -I/Users/pbulk/build/biology/openbabel/work -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/include -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/data -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/eigen3 -I/Users/pbulk/build/biology/openbabel/work/.buildlink/include/cairo -I/Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/inchi -pipe -Os -I/opt/pkg/include -D_REENTRANT -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -I/opt/pkg/include/freetype2 -I/opt/pkg/include/libxml2 -DNDEBUG -std=gnu++11 -arch arm64 -isysroot /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk -mmacosx-version-min=14.5 -fPIC -MD -MT src/formats/CMakeFiles/smilesformat.dir/smilesformat.cpp.o -MF CMakeFiles/smilesformat.dir/smilesformat.cpp.o.d -o CMakeFiles/smilesformat.dir/smilesformat.cpp.o -c /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp } || exit $? In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:23: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37: In file included from /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/format.h:22: /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: 'binary_function' is deprecated [-Wdeprecated-declarations] struct OBERROR CharPtrLess : public std::binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function' has been explicitly marked deprecated here struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1025:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11' # define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED ^ /Applications/Xcode-15.4.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.5.sdk/usr/include/c++/v1/__config:1010:49: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) ^ 1 warning generated. [100%] Linking CXX shared module ../../lib/smilesformat.so { cd /Users/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/cmake-pkgsrc-build/src/formats && /opt/pkg/bin/cmake -E cmake_link_script CMakeFiles/smilesformat.dir/link.txt --verbose= } || exit $? ld: warning: ignoring duplicate libraries: '-lcairo', '-lcoordgen', '-ldl', '-lm', '-lmaeparser', '-lz' [100%] Built target smilesformat *** Please use pkgtools/verifypc to sanity check dependencies.