* installing *source* package 'comat' ...
** package 'comat' successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: 'g++.exe (GCC) 13.3.0'
make[1]: Entering directory '/d/temp/2025_09_05_01_50_00_10480/RtmpcZJY1h/R.INSTALL1cd8873106419/comat/src'
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from ../inst/include/comat_RcppExports.h:7,
from ../inst/include/comat.h:7,
from RcppExports.cpp:4:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c create_neighborhood.cpp -o create_neighborhood.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from create_neighborhood.h:3,
from create_neighborhood.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_class_index_map.cpp -o get_class_index_map.o
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_entropy.cpp -o get_entropy.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from get_entropy.h:3,
from get_entropy.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_normalized.cpp -o get_normalized.o
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_unique_values.cpp -o get_unique_values.o
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c it_metrics.cpp -o it_metrics.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from get_entropy.h:3,
from it_metrics.h:3,
from it_metrics.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_get_cocoma.cpp -o rcpp_get_cocoma.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from create_neighborhood.h:3,
from rcpp_get_cocoma.h:4,
from rcpp_get_cocoma.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_get_coma.cpp -o rcpp_get_coma.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from rcpp_get_coma.h:3,
from rcpp_get_coma.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
rcpp_get_coma.cpp: In function 'Rcpp::IntegerMatrix rcpp_get_coma_internal(const Rcpp::IntegerMatrix&, arma::imat, std::vector<int, std::allocator<int> >)':
rcpp_get_coma.cpp:54:34: warning: comparison of integer expressions of different signedness: 'int' and 'const unsigned int' [-Wsign-compare]
54 | neig_col < ncols &&
| ~~~~~~~~~^~~~~~~
rcpp_get_coma.cpp:55:34: warning: comparison of integer expressions of different signedness: 'int' and 'const unsigned int' [-Wsign-compare]
55 | neig_row < nrows) {
| ~~~~~~~~~^~~~~~~
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_get_incoma.cpp -o rcpp_get_incoma.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from rcpp_get_coma.h:3,
from rcpp_get_incoma.h:4,
from rcpp_get_incoma.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_get_vec.cpp -o rcpp_get_vec.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from rcpp_get_vec.h:3,
from rcpp_get_vec.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
rcpp_get_vec.cpp: In function 'Rcpp::NumericVector rcpp_get_incove(Rcpp::List, bool, bool, std::string)':
rcpp_get_vec.cpp:104:31: warning: comparison of integer expressions of different signedness: 'std::size_t' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
104 | for (std::size_t i = 0; i < x_len; ++i){
| ~~^~~~~~~
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_get_wecoma.cpp -o rcpp_get_wecoma.o
In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29,
from rcpp_get_wecoma.h:4,
from rcpp_get_wecoma.cpp:1:
D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: '#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.'
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.3/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c triangular_index.cpp -o triangular_index.o
g++ -std=gnu++17 -shared -s -static-libgcc -o comat.dll tmp.def RcppExports.o create_neighborhood.o get_class_index_map.o get_entropy.o get_normalized.o get_unique_values.o it_metrics.o rcpp_get_cocoma.o rcpp_get_coma.o rcpp_get_incoma.o rcpp_get_vec.o rcpp_get_wecoma.o triangular_index.o -fopenmp -LD:/RCompile/recent/R-4.4.3/bin/x64 -lRlapack -LD:/RCompile/recent/R-4.4.3/bin/x64 -lRblas -lgfortran -lm -lquadmath -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R-4.4.3/bin/x64 -lR
make[1]: Leaving directory '/d/temp/2025_09_05_01_50_00_10480/RtmpcZJY1h/R.INSTALL1cd8873106419/comat/src'
make[1]: Entering directory '/d/temp/2025_09_05_01_50_00_10480/RtmpcZJY1h/R.INSTALL1cd8873106419/comat/src'
make[1]: Leaving directory '/d/temp/2025_09_05_01_50_00_10480/RtmpcZJY1h/R.INSTALL1cd8873106419/comat/src'
installing to d:/Rcompile/CRANpkg/lib/4.4/00LOCK-comat/00new/comat/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 'comat' as comat_0.9.5.zip
* DONE (comat)