* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘PLNmodels’ ...
** package ‘PLNmodels’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpsqCGI1/R.INSTALL18b0e535f2cc22/PLNmodels/src'
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c lambertW.cpp -o lambertW.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nlopt_wrapper.cpp -o nlopt_wrapper.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_diag_cov.cpp -o optim_diag_cov.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_fixed_cov.cpp -o optim_fixed_cov.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_full_cov.cpp -o optim_full_cov.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_genet_cov.cpp -o optim_genet_cov.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_rank_cov.cpp -o optim_rank_cov.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_spherical.cpp -o optim_spherical.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_zi-pln.cpp -o optim_zi-pln.o
g++-13 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c packing.cpp -o packing.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o PLNmodels.so RcppExports.o lambertW.o nlopt_wrapper.o optim_diag_cov.o optim_fixed_cov.o optim_full_cov.o optim_genet_cov.o optim_rank_cov.o optim_spherical.o optim_zi-pln.o packing.o -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 '/tmp/RtmpsqCGI1/R.INSTALL18b0e535f2cc22/PLNmodels/src'
make[1]: Entering directory '/tmp/RtmpsqCGI1/R.INSTALL18b0e535f2cc22/PLNmodels/src'
make[1]: Leaving directory '/tmp/RtmpsqCGI1/R.INSTALL18b0e535f2cc22/PLNmodels/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-PLNmodels/00new/PLNmodels/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Note: wrong number of arguments to 'sqrt'
Note: wrong number of arguments to 'sqrt'
** help
*** installing help indices
converting help for package ‘PLNmodels’
finding HTML links ... done
Networkfamily html
finding level-2 HTML links ... done
PLN html
PLNLDA html
PLNLDA_param html
PLNLDAfit html
PLNLDAfit_diagonal html
PLNPCA html
PLNPCA_param html
PLNPCAfamily html
PLNPCAfit html
PLN_param html
PLNfamily html
PLNfit html
PLNfit_diagonal html
PLNfit_fixedcov html
PLNfit_spherical html
PLNmixture html
PLNmixture_param html
PLNmixturefamily html
PLNmixturefit html
PLNmodels-package html
PLNnetwork html
PLNnetwork_param html
PLNnetworkfamily html
PLNnetworkfit html
ZIPLN html
ZIPLN_param html
ZIPLNfit html
ZIPLNfit_diagonal html
ZIPLNfit_fixed html
ZIPLNfit_sparse html
ZIPLNfit_spherical html
ZIPLNnetwork html
ZIPLNnetwork_param html
ZIPLNnetworkfamily html
barents html
coef.PLNLDAfit html
coef.PLNfit html
coef.PLNmixturefit html
coef.ZIPLNfit html
coefficient_path html
compute_PLN_starting_point html
compute_offset html
extract_probs html
fitted.PLNfit html
fitted.PLNmixturefit html
fitted.ZIPLNfit html
getBestModel html
getModel html
mollusk html
oaks html
pipe html
plot.Networkfamily html
plot.PLNLDAfit html
plot.PLNPCAfamily html
plot.PLNPCAfit html
plot.PLNfamily html
plot.PLNmixturefamily html
plot.PLNmixturefit html
plot.PLNnetworkfit html
plot.ZIPLNfit_sparse html
predict.PLNLDAfit html
predict.PLNfit html
predict.PLNmixturefit html
predict.ZIPLNfit html
predict_cond html
prepare_data html
rPLN html
scRNA html
sigma.PLNfit html
sigma.PLNmixturefit html
sigma.ZIPLNfit html
stability_selection html
standard_error html
trichoptera html
vcov.PLNfit 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 (PLNmodels)