* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘ATNr’ ...
** package ‘ATNr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.3.0-1) 13.3.0’
make[1]: Entering directory '/tmp/RtmpEb4UdI/R.INSTALL18c5d53d14932d/ATNr/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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp  -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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native   -c Scaled.cpp -o Scaled.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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native   -c Scaled_loops.cpp -o Scaled_loops.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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native   -c Unscaled.cpp -o Unscaled.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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native   -c Unscaled_loops.cpp -o Unscaled_loops.o
Unscaled_loops.cpp: In constructor ‘Unscaled_loops::Unscaled_loops(int, int)’:
Unscaled_loops.cpp:101:29: warning: unused variable ‘cons’ [-Wunused-variable]
  101 |     IntegerVector::iterator cons;
      |                             ^~~~
Unscaled_loops.cpp:102:29: warning: unused variable ‘cons2’ [-Wunused-variable]
  102 |     IntegerVector::iterator cons2;
      |                             ^~~~~
Unscaled_loops.cpp:103:29: warning: unused variable ‘res’ [-Wunused-variable]
  103 |     IntegerVector::iterator res;
      |                             ^~~
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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native   -c Unscaled_nuts.cpp -o Unscaled_nuts.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/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native   -c Unscaled_nuts_loops.cpp -o Unscaled_nuts_loops.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o ATNr.so RcppExports.o Scaled.o Scaled_loops.o Unscaled.o Unscaled_loops.o Unscaled_nuts.o Unscaled_nuts_loops.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 '/tmp/RtmpEb4UdI/R.INSTALL18c5d53d14932d/ATNr/src'
make[1]: Entering directory '/tmp/RtmpEb4UdI/R.INSTALL18c5d53d14932d/ATNr/src'
make[1]: Leaving directory '/tmp/RtmpEb4UdI/R.INSTALL18c5d53d14932d/ATNr/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-ATNr/00new/ATNr/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 ‘ATNr’
    finding HTML links ... done
    Scaled                                  html  
    Scaled_loops                            html  
    TroLev                                  html  
    Unscaled                                html  
    Unscaled_loops                          html  
    Unscaled_nuts                           html  
    Unscaled_nuts_loops                     html  
    create_Lmatrix                          html  
    create_matrix_parameter                 html  
    create_model_Scaled                     html  
    create_model_Unscaled                   html  
    create_model_Unscaled_nuts              html  
    create_niche_model                      html  
    dot-filter_extinct                      html  
    dot-remove_Scaled                       html  
    dot-remove_Unscaled                     html  
    dot-remove_Unscaled_nuts                html  
    initialise_default_Scaled               html  
    initialise_default_Unscaled             html  
    initialise_default_Unscaled_nuts        html  
    is_connected                            html  
    jacobian                                html  
    lsoda_wrapper                           html  
    plot_odeweb                             html  
    remove_species                          html  
    run_checks                              html  
    schneider                               html  
    sort_input                              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 (ATNr)