* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘resemble’ ...
** this is package ‘resemble’ version ‘2.2.4’
** package ‘resemble’ 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/RtmpBSaW11/R.INSTALL3933041cfb9456/resemble/src'
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -I. -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 -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../inst/include -I. -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 -fpic -g -O2 -Wall -pedantic -mtune=native -c diss_helpers.cpp -o diss_helpers.o
diss_helpers.cpp: In function ‘Rcpp::NumericVector which_min(Rcpp::NumericMatrix)’:
diss_helpers.cpp:233:10: warning: ‘eT arma::Mat<eT>::min(arma::uword&) const [with eT = double; arma::uword = unsigned int]’ is deprecated: use .index_min() instead [-Wdeprecated-declarations]
233 | x.min(index); // don't assign result to a value since we are interested only in the index
| ~~~~~^~~~~~~
In file included from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/current/armadillo:201,
from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57,
from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:32,
from diss_helpers.cpp:1:
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/Mat_bones.hpp:544:56: note: declared here
544 | [[deprecated("use .index_min() instead")]] inline eT min(uword& index_of_min_val) const;
| ^~~
diss_helpers.cpp: In function ‘Rcpp::NumericVector which_min_vector(Rcpp::NumericVector)’:
diss_helpers.cpp:280:10: warning: ‘eT arma::Mat<eT>::min(arma::uword&) const [with eT = double; arma::uword = unsigned int]’ is deprecated: use .index_min() instead [-Wdeprecated-declarations]
280 | x.min(index); // don't assign result to a value since we are interested only in the index
| ~~~~~^~~~~~~
In file included from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/current/armadillo:692:
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/Mat_meat.hpp:7829:1: note: declared here
7829 | Mat<eT>::min(uword& index_of_min_val) const
| ^~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -I. -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 -fpic -g -O2 -Wall -pedantic -mtune=native -c regression_methods.cpp -o regression_methods.o
regression_methods.cpp: In function ‘arma::mat get_weights(arma::mat, arma::mat, Rcpp::String, int, int)’:
regression_methods.cpp:163:47: warning: ‘static out_eT arma::conv_to<out_eT>::from(const arma::Base<eT2, expr>&, const typename arma::arma_not_cx<in_eT>::result*) [with in_eT = double; T1 = arma::Glue<arma::Mat<double>, arma::eGlue<arma::subview_col<double>, arma::subview_col<double>, arma::eglue_minus>, arma::glue_cor>; out_eT = double; typename arma::arma_not_cx<in_eT>::result = double]’ is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
163 | w(i, 0) += arma::conv_to<double>::from(arma::cor(Y, X.col(i) - X.col(j)));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/current/armadillo:496,
from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57,
from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:32,
from regression_methods.cpp:1:
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:72:1: note: declared here
72 | conv_to<out_eT>::from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk)
| ^~~~~~~~~~~~~~~
regression_methods.cpp:164:47: warning: ‘static out_eT arma::conv_to<out_eT>::from(const arma::Base<eT2, expr>&, const typename arma::arma_not_cx<in_eT>::result*) [with in_eT = double; T1 = arma::Glue<arma::Mat<double>, arma::eGlue<arma::subview_col<double>, arma::subview_col<double>, arma::eglue_minus>, arma::glue_cor>; out_eT = double; typename arma::arma_not_cx<in_eT>::result = double]’ is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
164 | w(j, 0) -= arma::conv_to<double>::from(arma::cor(Y, X.col(i) - X.col(j)));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:72:1: note: declared here
72 | conv_to<out_eT>::from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk)
| ^~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o resemble.so RcppExports.o diss_helpers.o regression_methods.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/RtmpBSaW11/R.INSTALL3933041cfb9456/resemble/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpBSaW11/R.INSTALL3933041cfb9456/resemble/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpBSaW11/R.INSTALL3933041cfb9456/resemble/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-resemble/00new/resemble/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘resemble’
finding HTML links ... done
check_pc_arguments html
cor_diss html
diss_to_neighbors html
dissimilarity html
euclid_to_mahal html
eval_multi_pc_diss html
f_diss html
fast_diss html
fast_diss_vector html
fit_and_predict html
format_xr_xu_indices html
gaussian_pr_cv html
gaussian_process html
gaussian_process_cv html
get_col_largest_sd html
get_col_sds html
get_column_means html
get_column_sds html
get_column_sums html
get_eval_categorical html
get_eval_continuous html
get_ith_local_neighbors html
get_local_pls_weights html
get_neighbor_info html
get_predictions html
get_sample_strata html
get_samples_from_strata html
get_wapls_weights html
get_weights html
ith_mbl_neighbor html
ith_subsets_ortho_diss html
local_fit html
local_ortho_diss html
mbl html
mbl_control html
moving_cor_diss html
opls html
opls_cv_cpp html
opls_for_projection html
opls_get_all html
opls_get_basics html
opls_gs html
optim_sample_strata html
ortho_diss html
ortho_projection html
overall_var html
pca_nipals html
pkg_info html
plot.mbl html
plot.ortho_projection html
pls_cv html
predict_gaussian_process html
predict_opls html
print.local_fit html
print.local_ortho_diss html
print.mbl html
print.ortho_projection html
project_opls html
reconstruction_error html
resemble-package html
sample_stratified html
search_neighbors html
sid html
sim_eval html
sqrt_sm html
sub-.local_ortho_diss html
which_min html
which_min_vector 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 (resemble)