############################################################################## ############################################################################## ### ### Running command: ### ### set _R_INSTALL_TIME_PATCHES_=no&& rm -rf BiocParallel.buildbin-libdir && mkdir BiocParallel.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --build --library=BiocParallel.buildbin-libdir BiocParallel_1.29.17.tar.gz ### ############################################################################## ############################################################################## * installing *source* package 'BiocParallel' ... ** using staged installation ********************************************** WARNING: this package has a configure script It probably needs manual configuration ********************************************** ** libs "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'D:/biocbuild/bbs-3.15-bioc/R/library/BH/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c ipcmutex.cpp -o ipcmutex.o In file included from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/arg.hpp:25, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/apply.hpp:24, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/aux_/fold_impl.hpp:19, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/fold.hpp:20, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/remove_if.hpp:18, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/remove.hpp:18, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/function_types/components.hpp:44, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/function_types/is_member_function_pointer.hpp:14, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/tti/detail/dmem_fun.hpp:10, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/tti/has_member_function.hpp:15, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/uuid/random_generator.hpp:20, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/uuid/uuid_generators.hpp:17, from ipcmutex.cpp:3: D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses] failed ************ (Pred::************ ^ D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses] failed ************ (boost::mpl::not_::************ ^ In file included from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/interprocess/detail/windows_intermodule_singleton.hpp:24, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/interprocess/detail/shared_dir_helpers.hpp:30, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/interprocess/shared_memory_object.hpp:30, from D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/interprocess/managed_shared_memory.hpp:27, from ipcmutex.cpp:13: D:/biocbuild/bbs-3.15-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*)': D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/container/string.hpp:406:43: warning: '.boost::container::dtl::basic_string_base >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized] { return this->members_.plong_repr()->start; } ^~~~~ D:/biocbuild/bbs-3.15-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*)': D:/biocbuild/bbs-3.15-bioc/R/library/BH/include/boost/container/string.hpp:406:43: warning: '.boost::container::dtl::basic_string_base >::long_t::start' may be used uninitialized in this function [-Wmaybe-uninitialized] { return this->members_.plong_repr()->start; } ^~~~~ C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o BiocParallel.dll tmp.def ipcmutex.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR installing to D:/biocbuild/bbs-3.15-bioc/meat/BiocParallel.buildbin-libdir/00LOCK-BiocParallel/00new/BiocParallel/libs/x64 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'BiocParallel' finding HTML links ... done BatchJobsParam-class html BatchtoolsParam-class html BiocParallel-package html BiocParallelParam-class html DeveloperInterface html DoparParam-class html MulticoreParam-class html SerialParam-class html SnowParam-class html bpaggregate html bpiterate html bplapply html bploop html bpmapply html bpok html bpoptions html bpschedule html bptry html bpvalidate html bpvec html bpvectorize html ipcmutex html register 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 * MD5 sums packaged installation of 'BiocParallel' as BiocParallel_1.29.17.zip * DONE (BiocParallel)