* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘matrixCorr’ ...
** this is package ‘matrixCorr’ version ‘0.12.2’
** package ‘matrixCorr’ successfully unpacked and MD5 sums checked
** using staged installation
checking for required atomic ops support...
warning: could not compile atomic probe; falling back to default detection
not required
** libs
specified C++17
using C++ compiler: ‘g++-15 (Debian 15.2.0-17) 15.2.0’
using C++17
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvMrV4n/R.INSTALL27a9c857e015d7/matrixCorr/src'
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c biweight_mid_corr.cpp -o biweight_mid_corr.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c bland_altman.cpp -o bland_altman.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c bland_altman_repeated.cpp -o bland_altman_repeated.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c ccc_glmm_poisson.cpp -o ccc_glmm_poisson.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c ccc_repeated.cpp -o ccc_repeated.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c ccc_repeated_helper.cpp -o ccc_repeated_helper.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c ccc_repeated_mixed_model.cpp -o ccc_repeated_mixed_model.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c chatterjee_xi.cpp -o chatterjee_xi.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c cia.cpp -o cia.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c cia_repeated.cpp -o cia_repeated.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c cohen_kappa.cpp -o cohen_kappa.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c concordance_corr.cpp -o concordance_corr.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c distance_correlation.cpp -o distance_correlation.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c gwet_ac.cpp -o gwet_ac.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c hsic.cpp -o hsic.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c icc.cpp -o icc.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c kendall_corr.cpp -o kendall_corr.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c krippendorff_alpha.cpp -o krippendorff_alpha.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c multirater_kappa.cpp -o multirater_kappa.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c partial_correlation.cpp -o partial_correlation.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c pearson.cpp -o pearson.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c prob_agree.cpp -o prob_agree.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c rmcorr.cpp -o rmcorr.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c robust_correlations.cpp -o robust_correlations.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c schafer_strimmer_shrinkage_correlation.cpp -o schafer_strimmer_shrinkage_correlation.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c spearman.cpp -o spearman.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c tetrachoric.cpp -o tetrachoric.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c validate_corr_input.cpp -o validate_corr_input.o
g++-15 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -include matrixCorr_r_api_compat.h -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 -fopenmp -DARMA_USE_CURRENT -fpic -g -O2 -Wall -pedantic -mtune=native -c weighted_kappa.cpp -o weighted_kappa.o
g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o matrixCorr.so RcppExports.o biweight_mid_corr.o bland_altman.o bland_altman_repeated.o ccc_glmm_poisson.o ccc_repeated.o ccc_repeated_helper.o ccc_repeated_mixed_model.o chatterjee_xi.o cia.o cia_repeated.o cohen_kappa.o concordance_corr.o distance_correlation.o gwet_ac.o hsic.o icc.o kendall_corr.o krippendorff_alpha.o multirater_kappa.o partial_correlation.o pearson.o prob_agree.o rmcorr.o robust_correlations.o schafer_strimmer_shrinkage_correlation.o spearman.o tetrachoric.o validate_corr_input.o weighted_kappa.o -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpvMrV4n/R.INSTALL27a9c857e015d7/matrixCorr/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvMrV4n/R.INSTALL27a9c857e015d7/matrixCorr/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpvMrV4n/R.INSTALL27a9c857e015d7/matrixCorr/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-matrixCorr/00new/matrixCorr/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘matrixCorr’
finding HTML links ... done
abort_bad_arg html
abort_internal html
as.data.frame.corr_edge_list html
ba html
ba_rm html
bicor html
biserial html
build_LDZ html
cash-.summary.corr_result html
ccc html
ccc_glmm html
ccc_lmm_reml_pairwise html
ccc_rm_reml html
ccc_rm_ustat html
check_ar1_rho html
check_bool html
check_inherits html
check_matrix_dims html
check_prob_scalar html
check_required_cols html
check_same_length html
check_scalar_character html
check_scalar_int_pos html
check_scalar_nonneg html
check_scalar_numeric html
check_symmetric_matrix html
check_weights html
cia html
cia_rm html
cohen_kappa html
compute_ci_from_se html
dcor html
deprecated-matrixCorr html
dot-align_weights_to_levels html
dot-ba_rep_two_methods html
dot-mc_abort_condition html
dot-vc_message html
estimate html
estimate_rho html
gwet_ac html
hsic html
icc html
icc_rm_reml html
inform_if_verbose html
kendall_tau html
krippendorff_alpha html
match_arg html
matrixCorr-internal html
matrixCorr-package html
multirater_kappa html
num_or_na html
num_or_na_vec html
pbcor html
pcorr html
pearson_corr html
plot.corr_edge_list html
plot.corr_matrix html
plot.corr_sparse html
plot.prob_agree html
polychoric html
polyserial html
print.ccc_ci html
print.corr_edge_list html
print.matrixCorr_ccc html
print.matrixCorr_ccc_ci html
print.summary.corr_result html
print.summary.latent_corr html
print.summary.matrixCorr html
prob_agree html
rmcorr html
rmcorr_matrix_methods html
rmcorr_methods html
robust_dcor html
run_cpp html
shrinkage_corr html
skipped_corr html
spearman_rho html
sub-sub-.summary.corr_result html
summary.ccc_rm_reml html
summary.corr_edge_list html
summary.corr_matrix html
summary.corr_sparse html
tetrachoric html
view_corr_shiny html
view_rmcorr_shiny html
weighted_kappa html
wincor html
xi_corr 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 (matrixCorr)