##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SharedObject.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings SharedObject_1.2.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/SharedObject.Rcheck'
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SharedObject/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SharedObject' version '1.2.2'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'SharedObject' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.11-bioc/R/library/SharedObject/libs/i386/SharedObject.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.11-bioc/R/library/SharedObject/libs/x64/SharedObject.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.11-bioc/meat/SharedObject.Rcheck/00check.log'
for details.

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/SharedObject_1.2.2.tar.gz && rm -rf SharedObject.buildbin-libdir && mkdir SharedObject.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SharedObject.buildbin-libdir SharedObject_1.2.2.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL SharedObject_1.2.2.zip && rm SharedObject_1.2.2.tar.gz SharedObject_1.2.2.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 30000  100 30000    0     0   520k      0 --:--:-- --:--:-- --:--:--  597k

install for i386

* installing *source* package 'SharedObject' ...
** using staged installation
** libs
rm -f "../inst/include/SharedObject/sharedMemory.h" &&\
 rm -f "../inst/usrlib/i386/SharedObject.a" &&\
 mkdir -p ../inst/include&&\
 mkdir -p ../inst/include/SharedObject&&\
 mkdir -p ../inst/usrlib/i386
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c C_interface.cpp -o C_interface.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c altrepRegistration.cpp -o altrepRegistration.o
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c sharedMemory.cpp -o sharedMemory.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:356:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw32/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw32/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw32/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw32/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c tools.cpp -o tools.o
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o SharedObject.dll tmp.def C_interface.o RcppExports.o altrepRegistration.o sharedMemory.o tools.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
"C:/rtools40/mingw32/bin/"ar -crv SharedObject.a *.o
a - C_interface.o
a - RcppExports.o
a - altrepRegistration.o
a - sharedMemory.o
a - tools.o
cp "sharedMemory.h" "../inst/include/SharedObject/"&&\
 cp "SharedObject.a" "../inst/usrlib/i386/"
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/SharedObject.buildbin-libdir/00LOCK-SharedObject/00new/SharedObject/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SharedObject'
    finding HTML links ... done
    developer-API                           html  
    is.altrep                               html  
    is.shared                               html  
    listSharedObject                        html  
    pkgconfig                               html  
    share                                   html  
    sharedObjectOptions                     html  
    sharedObjectProperty                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'SharedObject' ...
** libs
rm -f "../inst/include/SharedObject/sharedMemory.h" &&\
 rm -f "../inst/usrlib/x64/SharedObject.a" &&\
 mkdir -p ../inst/include&&\
 mkdir -p ../inst/include/SharedObject&&\
 mkdir -p ../inst/usrlib/x64
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c C_interface.cpp -o C_interface.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c altrepRegistration.cpp -o altrepRegistration.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c sharedMemory.cpp -o sharedMemory.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:356:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/date_time/microsec_time_clock.hpp:18,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/detail/posix_time_types_wrk.hpp:31,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/spin/mutex.hpp:24,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/sync/windows/sync_utils.hpp:25,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/interprocess/mapped_region.hpp:50,
                 from sharedMemory.cpp:16:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^~~~~~~~
In file included from C:/rtools40/mingw64/include/c++/8.3.0/bits/locale_conv.h:41,
                 from C:/rtools40/mingw64/include/c++/8.3.0/locale:43,
                 from C:/rtools40/mingw64/include/c++/8.3.0/iomanip:43,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/RcppCommon.h:52,
                 from C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from sharedMemory.cpp:15:
C:/rtools40/mingw64/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c tools.cpp -o tools.o
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o SharedObject.dll tmp.def C_interface.o RcppExports.o altrepRegistration.o sharedMemory.o tools.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
"C:/rtools40/mingw64/bin/"ar -crv SharedObject.a *.o
a - C_interface.o
a - RcppExports.o
a - altrepRegistration.o
a - sharedMemory.o
a - tools.o
cp "sharedMemory.h" "../inst/include/SharedObject/"&&\
 cp "SharedObject.a" "../inst/usrlib/x64/"
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/SharedObject.buildbin-libdir/SharedObject/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SharedObject' as SharedObject_1.2.2.zip
* DONE (SharedObject)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'SharedObject' successfully unpacked and MD5 sums checked