* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘comat’ ...
** this is package ‘comat’ version ‘0.9.6’
** package ‘comat’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.3.0-8) 14.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpgmWGiC/R.INSTALL2eedaee2ca6b1/comat/src'
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c create_neighborhood.cpp -o create_neighborhood.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c get_class_index_map.cpp -o get_class_index_map.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c get_entropy.cpp -o get_entropy.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c get_normalized.cpp -o get_normalized.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c get_unique_values.cpp -o get_unique_values.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c it_metrics.cpp -o it_metrics.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_get_cocoma.cpp -o rcpp_get_cocoma.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_get_coma.cpp -o rcpp_get_coma.o
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++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_get_incoma.cpp -o rcpp_get_incoma.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_get_vec.cpp -o rcpp_get_vec.o
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 unsigned int’} and ‘int’ [-Wsign-compare]
104 | for (std::size_t i = 0; i < x_len; ++i){
| ~~^~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_get_wecoma.cpp -o rcpp_get_wecoma.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c triangular_index.cpp -o triangular_index.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o comat.so 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 -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpgmWGiC/R.INSTALL2eedaee2ca6b1/comat/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpgmWGiC/R.INSTALL2eedaee2ca6b1/comat/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpgmWGiC/R.INSTALL2eedaee2ca6b1/comat/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-comat/00new/comat/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘comat’
finding HTML links ... done
comat-package html
create_neighborhood html
get_cocoma html
get_cocove html
get_coma html
get_cove html
get_incoma html
get_incove html
get_wecoma html
get_wecove html
it_metric html
raster_w html
raster_w_na html
raster_x html
raster_x_na html
raster_y html
rcpp_cell_from_xy html
rcpp_xy_from_matrix html
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (comat)