This page was generated on 2023-01-02 09:00:51 -0500 (Mon, 02 Jan 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|
| palomino5 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences"
| 4165 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
BUILD BIN results for SNPRelate on palomino5
To the developers/maintainers of the SNPRelate package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.
|
raw results
| SNPRelate 1.33.0 (landing page)
Xiuwen Zheng
| Snapshot Date: 2022-12-28 11:00:06 -0500 (Wed, 28 Dec 2022) |
| git_url: https://git.bioconductor.org/packages/SNPRelate |
| git_branch: master |
| git_last_commit: 1e70a21 |
| git_last_commit_date: 2022-11-01 11:10:14 -0500 (Tue, 01 Nov 2022) |
| palomino5 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | |
Summary
Command output
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###
### Running command:
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### rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL --build --library=SNPRelate.buildbin-libdir SNPRelate_1.33.0.tar.gz
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* installing *source* package 'SNPRelate' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 12.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 12.2.0'
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ConvToGDS.cpp -o ConvToGDS.o
gcc -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c R_SNPRelate.c -o R_SNPRelate.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SNPRelate.cpp -o SNPRelate.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ThreadPool.cpp -o ThreadPool.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dGenGWAS.cpp -o dGenGWAS.o
In file included from c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\alloc_traits.h:33,
from c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\ext\alloc_traits.h:34,
from c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\basic_string.h:39,
from c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\string:53,
from F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include/dType.h:55,
from F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include/R_GDS.h:40,
from F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include/R_GDS_CPP.h:40,
from dGenGWAS.h:25,
from dGenGWAS.cpp:22:
In function 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = unsigned char; _Args = {}]',
inlined from 'static _ForwardIterator std::__uninitialized_default_n_1<true>::__uninit_default_n(_ForwardIterator, _Size) [with _ForwardIterator = unsigned char*; _Size = long long unsigned int]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_uninitialized.h:661:23,
inlined from 'static _ForwardIterator std::__uninitialized_default_n_1<true>::__uninit_default_n(_ForwardIterator, _Size) [with _ForwardIterator = unsigned char*; _Size = long long unsigned int]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_uninitialized.h:655:9,
inlined from '_ForwardIterator std::__uninitialized_default_n(_ForwardIterator, _Size) [with _ForwardIterator = unsigned char*; _Size = long long unsigned int]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_uninitialized.h:701:20,
inlined from '_ForwardIterator std::__uninitialized_default_n_a(_ForwardIterator, _Size, allocator<_Tp>&) [with _ForwardIterator = unsigned char*; _Size = long long unsigned int; _Tp = unsigned char]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_uninitialized.h:766:44,
inlined from 'void std::vector<_Tp, _Alloc>::_M_default_initialize(size_type) [with _Tp = unsigned char; _Alloc = std::allocator<unsigned char>]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_vector.h:1713:36,
inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const allocator_type&) [with _Tp = unsigned char; _Alloc = std::allocator<unsigned char>]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_vector.h:553:30,
inlined from 'void GWAS::CdBaseWorkSpace::GetMissingRates(double*)' at dGenGWAS.cpp:132:30:
c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_construct.h:119:7: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=]
119 | ::new((void*)__p) _Tp(std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\x86_64-w64-mingw32.static.posix\bits\c++allocator.h:33,
from c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\allocator.h:46,
from c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\string:41:
In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = unsigned char]',
inlined from 'static _Tp* std::allocator_traits<std::allocator<_CharT> >::allocate(allocator_type&, size_type) [with _Tp = unsigned char]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\alloc_traits.h:464:28,
inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = unsigned char; _Alloc = std::allocator<unsigned char>]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_vector.h:378:33,
inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = unsigned char; _Alloc = std::allocator<unsigned char>]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_vector.h:395:44,
inlined from 'std::_Vector_base<_Tp, _Alloc>::_Vector_base(std::size_t, const allocator_type&) [with _Tp = unsigned char; _Alloc = std::allocator<unsigned char>]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_vector.h:332:26,
inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const allocator_type&) [with _Tp = unsigned char; _Alloc = std::allocator<unsigned char>]' at c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\stl_vector.h:552:47,
inlined from 'void GWAS::CdBaseWorkSpace::GetMissingRates(double*)' at dGenGWAS.cpp:132:30:
c:\rtools43\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\12.2.0\include\c++\bits\new_allocator.h:137:55: note: destination object of size 0 allocated by 'operator new'
137 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp)));
| ^
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dVect.cpp -o dVect.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genBeta.cpp -o genBeta.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genEIGMIX.cpp -o genEIGMIX.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genFst.cpp -o genFst.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genHWE.cpp -o genHWE.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genIBD.cpp -o genIBD.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genIBS.cpp -o genIBS.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genKING.cpp -o genKING.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genLD.cpp -o genLD.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genPCA.cpp -o genPCA.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'F:/biocbuild/bbs-3.17-bioc/R/library/gdsfmt/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genSlideWin.cpp -o genSlideWin.o
g++ -std=gnu++11 -shared -s -static-libgcc -o SNPRelate.dll tmp.def ConvToGDS.o R_SNPRelate.o SNPRelate.o ThreadPool.o dGenGWAS.o dVect.o genBeta.o genEIGMIX.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genSlideWin.o -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lRlapack -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -Lc:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -Lc:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.17-bioc-rtools43/meat/SNPRelate.buildbin-libdir/00LOCK-SNPRelate/00new/SNPRelate/libs/x64
** R
** data
*** moving datasets to lazyload DB
** 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
** 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 'SNPRelate' as SNPRelate_1.33.0.zip
* DONE (SNPRelate)