Multiple platform build/check report for BioC 3.9 - INSTALL report for pqsfinder on malbec2

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL pqsfinder
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘pqsfinder’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c pqsfinder.cpp -o pqsfinder.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from pqsfinder.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
                 from /usr/include/c++/7/locale:43,
                 from /usr/include/c++/7/iomanip:43,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from pqsfinder.cpp:13:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
pqsfinder.cpp: In function ‘void find_all_runs(SEXP, int, std::__cxx11::basic_string::const_iterator, std::__cxx11::basic_string::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),
                                      ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/regex_traits_defaults.cpp -o boost_regex/regex_traits_defaults.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/regex_traits_defaults.cpp:20:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/cpp_regex_traits.cpp -o boost_regex/cpp_regex_traits.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_traits.hpp:26,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/regex_traits.hpp:27,
                 from boost_regex/cpp_regex_traits.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/cregex.cpp -o boost_regex/cregex.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/cregex.cpp:22:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/usinstances.cpp -o boost_regex/usinstances.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/icu.cpp -o boost_regex/icu.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/fileiter.cpp -o boost_regex/fileiter.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from boost_regex/fileiter.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from boost_regex/fileiter.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/regex.cpp -o boost_regex/regex.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/regex.cpp:24:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/posix_api.cpp -o boost_regex/posix_api.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/posix_api.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/wide_posix_api.cpp -o boost_regex/wide_posix_api.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/wide_posix_api.cpp:25:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/winstances.cpp -o boost_regex/winstances.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/winstances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/w32_regex_traits.cpp -o boost_regex/w32_regex_traits.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/instances.cpp -o boost_regex/instances.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex.hpp:32,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex.hpp:31,
                 from boost_regex/instances.cpp:30:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/c_regex_traits.cpp -o boost_regex/c_regex_traits.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:22,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/c_regex_traits.cpp:28:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/wc_regex_traits.cpp -o boost_regex/wc_regex_traits.o
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:42,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) )
                                 ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template 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 /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr & r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr && r )
                                  ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
In file included from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/regex_workaround.hpp:44,
                 from /home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/regex/v4/c_regex_traits.hpp:26,
                 from boost_regex/wc_regex_traits.cpp:76:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.9-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from /usr/include/c++/7/memory:80:0,
                 from boost_regex/wc_regex_traits.cpp:23:
/usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
   template class auto_ptr;
                            ^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/regex_debug.cpp -o boost_regex/regex_debug.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/static_mutex.cpp -o boost_regex/static_mutex.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c boost_regex/regex_raw_buffer.cpp -o boost_regex/regex_raw_buffer.o
mkdir -p "/home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-pqsfinder/00new/pqsfinder/lib"
ar rs "/home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-pqsfinder/00new/pqsfinder/lib/libboost_regex.a" boost_regex/regex_traits_defaults.o boost_regex/cpp_regex_traits.o boost_regex/cregex.o boost_regex/usinstances.o boost_regex/icu.o boost_regex/fileiter.o boost_regex/regex.o boost_regex/posix_api.o boost_regex/wide_posix_api.o boost_regex/winstances.o boost_regex/w32_regex_traits.o boost_regex/instances.o boost_regex/c_regex_traits.o boost_regex/wc_regex_traits.o boost_regex/regex_debug.o boost_regex/static_mutex.o boost_regex/regex_raw_buffer.o
ar: creating /home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-pqsfinder/00new/pqsfinder/lib/libboost_regex.a
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.9-bioc/R/lib -L/usr/local/lib -o pqsfinder.so RcppExports.o pqsfinder.o /home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-pqsfinder/00new/pqsfinder/lib/libboost_regex.a -L/home/biocbuild/bbs-3.9-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-pqsfinder/00new/pqsfinder/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (pqsfinder)
INSTALL report for pqsfinder on malbec2

Summary

Command output
