##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf pqsfinder.buildbin-libdir && mkdir pqsfinder.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=pqsfinder.buildbin-libdir pqsfinder_2.8.0.tar.gz
###
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install for i386

* installing *source* package 'pqsfinder' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pqsfinder.cpp -o pqsfinder.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
pqsfinder.cpp: In function 'void find_all_runs(SEXP, int, std::__cxx11::basic_string<char>::const_iterator, std::__cxx11::basic_string<char>::const_iterator, run_match*, const regex&, const opts_t&, const scoring&, const const_iterator&, size_t, storage&, int&, results&, bool, std::chrono::_V2::system_clock::time_point, int, int, int, int&, bool)':
pqsfinder.cpp:584:53: warning: 'loop_len' may be used uninitialized in this function [-Wmaybe-uninitialized]
           pqs_storage, int_cnt, res, (loop_len == 0 ? true : zero_loop),
                                      ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex_raw_buffer.cpp -o boost_regex/regex_raw_buffer.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/static_mutex.cpp -o boost_regex/static_mutex.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/winstances.cpp -o boost_regex/winstances.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex_debug.cpp -o boost_regex/regex_debug.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/wc_regex_traits.cpp -o boost_regex/wc_regex_traits.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/c_regex_traits.cpp -o boost_regex/c_regex_traits.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/w32_regex_traits.cpp -o boost_regex/w32_regex_traits.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/instances.cpp -o boost_regex/instances.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/wide_posix_api.cpp -o boost_regex/wide_posix_api.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/posix_api.cpp -o boost_regex/posix_api.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex.cpp -o boost_regex/regex.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/fileiter.cpp -o boost_regex/fileiter.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/icu.cpp -o boost_regex/icu.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/usinstances.cpp -o boost_regex/usinstances.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/cregex.cpp -o boost_regex/cregex.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/cpp_regex_traits.cpp -o boost_regex/cpp_regex_traits.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"c:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex_traits_defaults.cpp -o boost_regex/regex_traits_defaults.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
mkdir -p "C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/00LOCK-pqsfinder/00new/pqsfinder/lib/i386"
"C:/rtools40/mingw32/bin/"ar rs "C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/00LOCK-pqsfinder/00new/pqsfinder/lib/i386/libboost_regex.a" boost_regex/regex_raw_buffer.o boost_regex/static_mutex.o boost_regex/winstances.o boost_regex/regex_debug.o boost_regex/wc_regex_traits.o boost_regex/c_regex_traits.o boost_regex/w32_regex_traits.o boost_regex/instances.o boost_regex/wide_posix_api.o boost_regex/posix_api.o boost_regex/regex.o boost_regex/fileiter.o boost_regex/icu.o boost_regex/usinstances.o boost_regex/cregex.o boost_regex/cpp_regex_traits.o boost_regex/regex_traits_defaults.o
C:\rtools40\mingw32\bin\ar.exe: creating C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/00LOCK-pqsfinder/00new/pqsfinder/lib/i386/libboost_regex.a
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o pqsfinder.dll tmp.def RcppExports.o pqsfinder.o C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/00LOCK-pqsfinder/00new/pqsfinder/lib/i386/libboost_regex.a -Lc:/extsoft/lib/i386 -Lc:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/00LOCK-pqsfinder/00new/pqsfinder/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'pqsfinder'
    finding HTML links ... done
    PQSViews-class                          html  
    finding level-2 HTML links ... done

    PQSViews                                html  
    as.character-PQSViews-method            html  
    density-PQSViews-method                 html  
    maxScores-PQSViews-method               html  
    maxScores                               html  
    pqsfinder                               html  
    score-PQSViews-method                   html  
    show-PQSViews-method                    html  
    strand-PQSViews-method                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'pqsfinder' ...
** libs
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pqsfinder.cpp -o pqsfinder.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/RcppCommon.h:53,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
pqsfinder.cpp: In function 'void find_all_runs(SEXP, int, std::__cxx11::basic_string<char>::const_iterator, std::__cxx11::basic_string<char>::const_iterator, run_match*, const regex&, const opts_t&, const scoring&, const const_iterator&, size_t, storage&, int&, results&, bool, std::chrono::_V2::system_clock::time_point, int, int, int, int&, bool)':
pqsfinder.cpp:584:53: warning: 'loop_len' may be used uninitialized in this function [-Wmaybe-uninitialized]
           pqs_storage, int_cnt, res, (loop_len == 0 ? true : zero_loop),
                                      ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex_raw_buffer.cpp -o boost_regex/regex_raw_buffer.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/static_mutex.cpp -o boost_regex/static_mutex.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/winstances.cpp -o boost_regex/winstances.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex_debug.cpp -o boost_regex/regex_debug.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/wc_regex_traits.cpp -o boost_regex/wc_regex_traits.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from boost_regex/wc_regex_traits.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/c_regex_traits.cpp -o boost_regex/c_regex_traits.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/w32_regex_traits.cpp -o boost_regex/w32_regex_traits.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/instances.cpp -o boost_regex/instances.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/wide_posix_api.cpp -o boost_regex/wide_posix_api.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/posix_api.cpp -o boost_regex/posix_api.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex.cpp -o boost_regex/regex.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/fileiter.cpp -o boost_regex/fileiter.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/icu.cpp -o boost_regex/icu.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/usinstances.cpp -o boost_regex/usinstances.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/cregex.cpp -o boost_regex/cregex.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/cpp_regex_traits.cpp -o boost_regex/cpp_regex_traits.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c boost_regex/regex_traits_defaults.cpp -o boost_regex/regex_traits_defaults.o
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:250:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:465:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:478:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:561:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:570:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:572:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/memory:80,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from C:/Users/biocbuild/bbs-3.13-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
mkdir -p "C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/pqsfinder/lib/x64"
"C:/rtools40/mingw64/bin/"ar rs "C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/pqsfinder/lib/x64/libboost_regex.a" boost_regex/regex_raw_buffer.o boost_regex/static_mutex.o boost_regex/winstances.o boost_regex/regex_debug.o boost_regex/wc_regex_traits.o boost_regex/c_regex_traits.o boost_regex/w32_regex_traits.o boost_regex/instances.o boost_regex/wide_posix_api.o boost_regex/posix_api.o boost_regex/regex.o boost_regex/fileiter.o boost_regex/icu.o boost_regex/usinstances.o boost_regex/cregex.o boost_regex/cpp_regex_traits.o boost_regex/regex_traits_defaults.o
C:\rtools40\mingw64\bin\ar.exe: creating C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/pqsfinder/lib/x64/libboost_regex.a
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o pqsfinder.dll tmp.def RcppExports.o pqsfinder.o C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/pqsfinder/lib/x64/libboost_regex.a -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/pqsfinder.buildbin-libdir/pqsfinder/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'pqsfinder' as pqsfinder_2.8.0.zip
* DONE (pqsfinder)