* installing *source* package 'scellpam' ...
** this is package 'scellpam' version '1.4.6.2'
** package 'scellpam' successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: 'g++.exe (GCC) 14.3.0'
make[1]: Entering directory '/d/temp/2026_02_19_01_50_00_20242/RtmpMTiw9S/R.INSTALLe20c30fc1787/scellpam/src'
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c biodatatojmat.cpp -o biodatatojmat.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c buildresults.cpp -o buildresults.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c csvtojmat.cpp -o csvtojmat.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c debugpar.cpp -o debugpar.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c diftimehelper.cpp -o diftimehelper.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dissimmat.cpp -o dissimmat.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dissimmat_full.cpp -o dissimmat_full.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dissimmat_sparse.cpp -o dissimmat_sparse.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fastpam.cpp -o fastpam.o
In file included from D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/stl_iterator.h:78,
from D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/stl_algobase.h:67,
from D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/specfun.h:43,
from D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/cmath:3906,
from D:/RCompile/CRANpkg/lib/4.6/Rcpp/include/Rcpp/platform/compiler.h:37,
from D:/RCompile/CRANpkg/lib/4.6/Rcpp/include/Rcpp/r/headers.h:67,
from D:/RCompile/CRANpkg/lib/4.6/Rcpp/include/RcppCommon.h:30,
from D:/RCompile/CRANpkg/lib/4.6/Rcpp/include/Rcpp.h:27,
from ../inst/include/fastpam.h:22,
from fastpam.cpp:19:
In function 'constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = unsigned int; _Args = {const unsigned int&}]',
inlined from 'static constexpr void std::allocator_traits<std::allocator<_Up> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = unsigned int; _Args = {const unsigned int&}; _Tp = unsigned int]' at D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/alloc_traits.h:577:21,
inlined from 'constexpr void std::vector<_Tp, _Alloc>::_M_realloc_append(_Args&& ...) [with _Args = {const unsigned int&}; _Tp = unsigned int; _Alloc = std::allocator<unsigned int>]' at D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/vector.tcc:634:26,
inlined from 'constexpr void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = unsigned int; _Alloc = std::allocator<unsigned int>]' at D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/stl_vector.h:1307:21,
inlined from 'void FastPAM<disttype>::LAB() [with disttype = float]' at fastpam.cpp:814:22:
D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/stl_construct.h:97:14: warning: 'initial_best' may be used uninitialized [-Wmaybe-uninitialized]
97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fastpam.cpp: In member function 'void FastPAM<disttype>::LAB() [with disttype = float]':
fastpam.cpp:796:15: note: 'initial_best' was declared here
796 | indextype initial_best;
| ^~~~~~~~~~~~
In function 'constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = unsigned int; _Args = {const unsigned int&}]',
inlined from 'static constexpr void std::allocator_traits<std::allocator<_Up> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = unsigned int; _Args = {const unsigned int&}; _Tp = unsigned int]' at D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/alloc_traits.h:577:21,
inlined from 'constexpr void std::vector<_Tp, _Alloc>::_M_realloc_append(_Args&& ...) [with _Args = {const unsigned int&}; _Tp = unsigned int; _Alloc = std::allocator<unsigned int>]' at D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/vector.tcc:634:26,
inlined from 'constexpr void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = unsigned int; _Alloc = std::allocator<unsigned int>]' at D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/stl_vector.h:1307:21,
inlined from 'void FastPAM<disttype>::LAB() [with disttype = double]' at fastpam.cpp:814:22:
D:/rtools45/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/14.3.0/include/c++/bits/stl_construct.h:97:14: warning: 'initial_best' may be used uninitialized [-Wmaybe-uninitialized]
97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fastpam.cpp: In member function 'void FastPAM<disttype>::LAB() [with disttype = double]':
fastpam.cpp:796:15: note: 'initial_best' was declared here
796 | indextype initial_best;
| ^~~~~~~~~~~~
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c filternames.cpp -o filternames.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c filtersil.cpp -o filtersil.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fullmatrix.cpp -o fullmatrix.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c jmatrix.cpp -o jmatrix.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c jmatrixaux.cpp -o jmatrixaux.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mainfastpam.cpp -o mainfastpam.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c matgetcols.cpp -o matgetcols.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c matgetdiag.cpp -o matgetdiag.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c matgetrows.cpp -o matgetrows.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c matinfo.cpp -o matinfo.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c matmetadata.cpp -o matmetadata.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c matwrite.cpp -o matwrite.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c memhelper.cpp -o memhelper.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c silhouette.cpp -o silhouette.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sparsematrix.cpp -o sparsematrix.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c symmetricmatrix.cpp -o symmetricmatrix.o
g++ -std=gnu++20 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.6/Rcpp/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -I../inst/include -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c threadhelper.cpp -o threadhelper.o
g++ -std=gnu++20 -shared -s -static-libgcc -o scellpam.dll tmp.def RcppExports.o biodatatojmat.o buildresults.o csvtojmat.o debugpar.o diftimehelper.o dissimmat.o dissimmat_full.o dissimmat_sparse.o fastpam.o filternames.o filtersil.o fullmatrix.o jmatrix.o jmatrixaux.o mainfastpam.o matgetcols.o matgetdiag.o matgetrows.o matinfo.o matmetadata.o matwrite.o memhelper.o silhouette.o sparsematrix.o symmetricmatrix.o threadhelper.o -lpthread -O2 -Ld:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools45/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R/bin/x64 -lR
make[1]: Leaving directory '/d/temp/2026_02_19_01_50_00_20242/RtmpMTiw9S/R.INSTALLe20c30fc1787/scellpam/src'
make[1]: Entering directory '/d/temp/2026_02_19_01_50_00_20242/RtmpMTiw9S/R.INSTALLe20c30fc1787/scellpam/src'
make[1]: Leaving directory '/d/temp/2026_02_19_01_50_00_20242/RtmpMTiw9S/R.INSTALLe20c30fc1787/scellpam/src'
installing to d:/Rcompile/CRANpkg/lib/4.6/00LOCK-scellpam/00new/scellpam/libs/x64
** 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
** 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 'scellpam' as scellpam_1.4.6.2.zip
* DONE (scellpam)