* installing *source* package ‘targeted’ ...
** this is package ‘targeted’ version ‘0.5’
** package ‘targeted’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/targeted/src'
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c cumres.cpp -o cumres.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c glm.cpp -o glm.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c kalman.cpp -o kalman.o
kalman.cpp: In member function ‘void target::LinearGaussian::filter()’:
kalman.cpp:60:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
60 | for (int i = 0; i < n; i++) { // Kalman filter
| ~~^~~
kalman.cpp:72:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
72 | if (i < n-1){ // avoid calculating predictive distribution mean (E[alpha_{n+1}|y_{1:n}]) and variance because no matching y_{n+1} exists in the time series
| ~~^~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c mlogit.cpp -o mlogit.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c nb.cpp -o nb.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c nb_interface.cpp -o nb_interface.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c nondom.cpp -o nondom.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c ode_interface.cpp -o ode_interface.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c odesolver.cpp -o odesolver.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c pava.cpp -o pava.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c riskreg_interface.cpp -o riskreg_interface.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c target.cpp -o target.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c utils.cpp -o utils.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -DARMA_R -I. -I../../../include -I../inst/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c utils_interface.cpp -o utils_interface.o
In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/armadillo:666,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:58,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29,
from ../inst/include/target/glm.hpp:17,
from ../inst/include/target/target.hpp:11,
from target.cpp:14:
In static member function ‘static eT arma::arrayops::accumulate(const eT*, arma::uword) [with eT = double]’,
inlined from ‘typename arma::enable_if2<arma::is_arma_type<T1>::value, typename T1::elem_type>::result arma::accu(const T1&) [with T1 = mtOp<double, Col<std::complex<double> >, op_real>]’ at /data/gannet/ripley/R/test-dev/RcppArmadillo/include/armadillo_bits/fn_accu.hpp:265:32,
inlined from ‘typename arma::enable_if2<(arma::is_arma_type<T1>::value && arma::resolves_to_vector<T1>::yes), typename T1::elem_type>::result arma::sum(const T1&) [with T1 = mtOp<double, Col<std::complex<double> >, op_real>]’ at /data/gannet/ripley/R/test-dev/RcppArmadillo/include/armadillo_bits/fn_sum.hpp:31:14,
inlined from ‘arma::mat target::ACE::deriv(const cx_dbl&)’ at target.cpp:431:18:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/armadillo_bits/arrayops_meat.hpp:941:12: warning: ‘U.arma::quasi_unwrap<arma::mtOp<double, arma::Col<std::complex<double> >, arma::op_real> >::M.arma::Mat<double>::mem_local[0]’ may be used uninitialized [-Wmaybe-uninitialized]
941 | acc1 += (*src);
| ~~~~~^~~~~~~~~
In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/armadillo:480:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/armadillo_bits/fn_accu.hpp: In member function ‘arma::mat target::ACE::deriv(const cx_dbl&)’:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/armadillo_bits/fn_accu.hpp:263:28: note: ‘U’ declared here
263 | const quasi_unwrap<T1> U(X);
| ^
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o targeted.so RcppExports.o cumres.o glm.o kalman.o mlogit.o nb.o nb_interface.o nondom.o ode_interface.o odesolver.o pava.o riskreg_interface.o target.o utils.o utils_interface.o -fopenmp -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/targeted/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/targeted/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/targeted/src'
installing to /data/gannet/ripley/R/packages/tests-devel/targeted.Rcheck/00LOCK-targeted/00new/targeted/libs
** R
** demo
** 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
** 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 (targeted)