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INSTALL report for SharedObject on tokay1

This page was generated on 2021-05-06 12:33:36 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the SharedObject package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1694/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SharedObject 1.4.0  (landing page)
Jiefei Wang
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/SharedObject
Branch: RELEASE_3_12
Last Commit: ceb0939
Last Changed Date: 2020-10-30 07:34:26 -0400 (Fri, 30 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    ERROR  
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: SharedObject
Version: 1.4.0
Command: C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/SharedObject_1.4.0.tar.gz && rm -rf SharedObject.buildbin-libdir && mkdir SharedObject.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SharedObject.buildbin-libdir SharedObject_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL SharedObject_1.4.0.zip && rm SharedObject_1.4.0.tar.gz SharedObject_1.4.0.zip
StartedAt: 2021-05-05 16:56:59 -0400 (Wed, 05 May 2021)
EndedAt: 2021-05-05 16:58:33 -0400 (Wed, 05 May 2021)
EllapsedTime: 93.4 seconds
RetCode: 0
Status:   OK   

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/SharedObject_1.4.0.tar.gz && rm -rf SharedObject.buildbin-libdir && mkdir SharedObject.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SharedObject.buildbin-libdir SharedObject_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL SharedObject_1.4.0.zip && rm SharedObject_1.4.0.tar.gz SharedObject_1.4.0.zip
###
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##############################################################################


  % 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 67925  100 67925    0     0  3534k      0 --:--:-- --:--:-- --:--:-- 3685k

install for i386

* installing *source* package 'SharedObject' ...
** using staged installation

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** 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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3.12-bioc/R/library/BH/include/boost/interprocess/detail/windows_intermodule_singleton.hpp:24,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/detail/shared_dir_helpers.hpp:30,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/shared_memory_object.hpp:30,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/sync/shm/named_semaphore.hpp:29,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/sync/named_semaphore.hpp:37,
                 from sharedMemory.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp: In member function 'boost::interprocess::ipcdetail::ref_count_ptr* boost::interprocess::ipcdetail::intermodule_singleton_helpers::windows_semaphore_based_map::find(const char*)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp:405:43: warning: '<anonymous>.boost::container::dtl::basic_string_base<boost::container::new_allocator<char> >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized]
    {  return this->members_.plong_repr()->start;  }
                                           ^~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp: In member function 'bool boost::interprocess::ipcdetail::intermodule_singleton_helpers::windows_semaphore_based_map::erase(const char*)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp:405:43: warning: '<anonymous>.boost::container::dtl::basic_string_base<boost::container::new_allocator<char> >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized]
    {  return this->members_.plong_repr()->start;  }
                                           ^~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp: In member function 'boost::interprocess::ipcdetail::ref_count_ptr* boost::interprocess::ipcdetail::intermodule_singleton_helpers::windows_semaphore_based_map::insert(const char*, const boost::interprocess::ipcdetail::ref_count_ptr&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp:405:43: warning: '<anonymous>.boost::container::dtl::basic_string_base<boost::container::new_allocator<char> >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized]
    {  return this->members_.plong_repr()->start;  }
                                           ^~~~~
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/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-3.12-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  
    unshare                                 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' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** 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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3.12-bioc/R/library/BH/include/boost/interprocess/detail/windows_intermodule_singleton.hpp:24,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/detail/shared_dir_helpers.hpp:30,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/shared_memory_object.hpp:30,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/sync/shm/named_semaphore.hpp:29,
                 from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/interprocess/sync/named_semaphore.hpp:37,
                 from sharedMemory.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp: In member function 'boost::interprocess::ipcdetail::ref_count_ptr* boost::interprocess::ipcdetail::intermodule_singleton_helpers::windows_semaphore_based_map::find(const char*)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp:405:43: warning: '<anonymous>.boost::container::dtl::basic_string_base<boost::container::new_allocator<char> >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized]
    {  return this->members_.plong_repr()->start;  }
                                           ^~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp: In member function 'bool boost::interprocess::ipcdetail::intermodule_singleton_helpers::windows_semaphore_based_map::erase(const char*)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp:405:43: warning: '<anonymous>.boost::container::dtl::basic_string_base<boost::container::new_allocator<char> >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized]
    {  return this->members_.plong_repr()->start;  }
                                           ^~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp: In member function 'boost::interprocess::ipcdetail::ref_count_ptr* boost::interprocess::ipcdetail::intermodule_singleton_helpers::windows_semaphore_based_map::insert(const char*, const boost::interprocess::ipcdetail::ref_count_ptr&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/container/string.hpp:405:43: warning: '<anonymous>.boost::container::dtl::basic_string_base<boost::container::new_allocator<char> >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized]
    {  return this->members_.plong_repr()->start;  }
                                           ^~~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-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-3~1.12-/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-3.12-bioc/meat/SharedObject.buildbin-libdir/SharedObject/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SharedObject' as SharedObject_1.4.0.zip
* DONE (SharedObject)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'SharedObject' successfully unpacked and MD5 sums checked