* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘ELAplus’ ...
** this is package ‘ELAplus’ version ‘1.0.2’
** package ‘ELAplus’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-15 (Debian 15.2.0-17) 15.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvVimvg/R.INSTALL2fe6f653ba7c6a/ELAplus/src'
g++-15 -std=gnu++20 -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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c ELA_functions.cpp -o ELA_functions.o
ELA_functions.cpp: In function ‘arma::mat SA(const arma::mat&, const double&, const int&, bool, bool, const double&, const int&, const double&, const double&)’:
ELA_functions.cpp:129:7: warning: unused variable ‘total_tt’ [-Wunused-variable]
  129 |   int total_tt = 0;
      |       ^~~~~~~~
ELA_functions.cpp:132:10: warning: unused variable ‘minu’ [-Wunused-variable]
  132 |   double minu = std::numeric_limits<double>::infinity();
      |          ^~~~
ELA_functions.cpp:150:10: warning: unused variable ‘upd’ [-Wunused-variable]
  150 |   double upd;
      |          ^~~
ELA_functions.cpp: In function ‘arma::mat fullSA(const arma::mat&, const arma::mat&, bool, bool, const double&, const int&, const double&, const int&, const double&, const double&)’:
ELA_functions.cpp:333:10: warning: unused variable ‘minu’ [-Wunused-variable]
  333 |   double minu = std::numeric_limits<double>::infinity();
      |          ^~~~
ELA_functions.cpp: In function ‘int convDec(arma::rowvec)’:
ELA_functions.cpp:697:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare]
  697 |   for(int i=0; i< v.n_elem; i++){
      |                ~^~~~~~~~~~
ELA_functions.cpp: In function ‘std::string convStr(const arma::rowvec&)’:
ELA_functions.cpp:710:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare]
  710 |   for(int i=0; i< v.n_elem; i++){
      |                ~^~~~~~~~~~
ELA_functions.cpp: In function ‘arma::mat SSentropy_cpp(arma::mat, arma::mat, arma::rowvec, arma::mat, int, int)’:
ELA_functions.cpp:758:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare]
  758 |   for(int i=0; i < uoc.n_rows; i++){
      |                ~~^~~~~~~~~~~~
g++-15 -std=gnu++20 -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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
RcppExports.cpp:54:15: warning: inline function ‘double cEnergy(const arma::rowvec&, const arma::rowvec&, const arma::mat&)’ used but never defined
   54 | inline double cEnergy(const arma::rowvec& state, const arma::rowvec& alpha, const arma::mat& beta);
      |               ^~~~~~~
g++-15 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o ELAplus.so ELA_functions.o RcppExports.o -fopenmp -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 '/home/hornik/tmp/scratch/RtmpvVimvg/R.INSTALL2fe6f653ba7c6a/ELAplus/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvVimvg/R.INSTALL2fe6f653ba7c6a/ELAplus/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpvVimvg/R.INSTALL2fe6f653ba7c6a/ELAplus/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-ELAplus/00new/ELAplus/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘ELAplus’
    finding HTML links ... done
    Bi                                      html  
    DisconnectivityGraph                    html  
    ELA                                     html  
    ELAplus-package                         html  
    ELPruning                               html  
    Energy                                  html  
    Findbp                                  html  
    Formatting                              html  
    GELAObj                                 html  
    GradELA                                 html  
    GradientDescent                         html  
    HeatBath                                html  
    MinTippingPath                          html  
    OnestepHBS                              html  
    PCplot                                  html  
    SSentropy                               html  
    Stability                               html  
    SteepestDescent                         html  
    baseabtable                             html  
    basemetadata                            html  
    bin2id                                  html  
    bootstrap_ELA                           html  
    bootstrap_SA                            html  
    deltaE_histogram                        html  
    gStability                              html  
    hb.paramgen                             html  
    id2bin                                  html  
    plotSAtest                              html  
    runSA                                   html  
    sa2params                               html  
    saEndpoint                              html  
    showDG                                  html  
    showGELA3D                              html  
    showIntrGraph                           html  
    showSSD                                 html  
    showSSD_ggplot                          html  
    sstable                                 html  
    tptable                                 html  
** 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 (ELAplus)