* installing *source* package ‘SMMA’ ...
** package ‘SMMA’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (GCC) 13.2.0’
using C++11
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/SMMA/src'
g++-13 -std=gnu++11 -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    -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++-13 -std=gnu++11 -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    -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 rcppfunc.cpp -o rcppfunc.o
In file included from rcppfunc.cpp:3:
auxfunc.h: In function 'arma::vec eev(arma::mat, arma::cube, int)':
auxfunc.h:60:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   60 | for(int j = 0; j < Z.n_slices; j++) {eevar(j) = (2 * accu(XBeta  %  Z.slice(j))  - sumXBeta2) / ng;}
      |                ~~^~~~~~~~~~~~
auxfunc.h: In function 'arma::mat gradloss(const arma::cube&, const arma::mat&, const arma::vec&, int, double, int)':
auxfunc.h:89:19: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   89 |  for(int j = 0; j < PhitZ.n_slices; j++){
      |                 ~~^~~~~~~~~~~~~~~~
auxfunc.h:96:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   96 | for(int j = 0; j < PhitZ.n_slices; j++){gradout = exp(c * h(j)) * (XtXb - PhitZ.slice(j)) + gradout;}
      |                ~~^~~~~~~~~~~~~~~~
rcppfunc.cpp: In function 'Rcpp::List pga(arma::mat, arma::mat, arma::mat, Rcpp::NumericVector, std::string, double, double, arma::vec, int, int, double, arma::mat, double, int, int, int, int, double, double, int, int, double)':
rcppfunc.cpp:367:23: warning: 'lossProp' may be used uninitialized [-Wmaybe-uninitialized]
  367 |     obj(k) = lossBeta + l1penalty(wGamma, Beta);
      |              ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
rcppfunc.cpp:46:21: note: 'lossProp' was declared here
   46 |        L, lossBeta, lossProp, lossX,
      |                     ^~~~~~~~
rcppfunc.cpp:256:19: warning: 'penProp' may be used uninitialized [-Wmaybe-uninitialized]
  256 | obj(k) = lossBeta + penBeta;
      |          ~~~~~~~~~^~~~~~~~~
rcppfunc.cpp:47:17: note: 'penProp' was declared here
   47 |        penBeta, penProp,
      |                 ^~~~~~~
g++-13 -std=gnu++11 -shared -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -o SMMA.so RcppExports.o rcppfunc.o -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/SMMA/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/SMMA/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/SMMA/src'
installing to /data/gannet/ripley/R/packages/tests-devel/SMMA.Rcheck/00LOCK-SMMA/00new/SMMA/libs
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (SMMA)