Install log for 'dmbc'

* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘dmbc’ ...
** package ‘dmbc’ 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/RtmpyMH1ot/R.INSTALL12c81e17ac8d92/dmbc/src'
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include/ -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c distrib.cpp -o distrib.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include/ -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c dmbc.cpp -o dmbc.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include/ -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c init.cpp -o init.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include/ -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c matrix_utils.cpp -o matrix_utils.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include/ -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c mcmc.cpp -o mcmc.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include/ -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c relabel.cpp -o relabel.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include/ -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c utils.cpp -o utils.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o dmbc.so distrib.o dmbc.o init.o matrix_utils.o mcmc.o relabel.o utils.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/RtmpyMH1ot/R.INSTALL12c81e17ac8d92/dmbc/src'
make[1]: Entering directory '/tmp/RtmpyMH1ot/R.INSTALL12c81e17ac8d92/dmbc/src'
make[1]: Leaving directory '/tmp/RtmpyMH1ot/R.INSTALL12c81e17ac8d92/dmbc/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-dmbc/00new/dmbc/libs
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘dmbc’
    finding HTML links ... done
    adjust_x                                html  
    animals                                 html  
    bmds                                    html  
    bmds_get_x_mode                         html  
    check_list_na                           html  
    clusters-dmbc_config-method             html  
    comp_ssr                                html  
    dmbc-package                            html  
    dmbc                                    html  
    dmbc_IC                                 html  
    dmbc_check_groups                       html  
    dmbc_config-class                       html  
    dmbc_control                            html  
    dmbc_data-class                         html  
    dmbc_fit-class                          html  
    dmbc_fit                                html  
    dmbc_fit_list-class                     html  
    dmbc_fit_list_to_list                   html  
    dmbc_fit_list_to_mcmc.list              html  
    dmbc_fit_to_mcmc                        html  
    dmbc_get_configuration                  html  
    dmbc_get_map                            html  
    dmbc_get_ml                             html  
    dmbc_get_postmean                       html  
    dmbc_get_postmedian                     html  
    dmbc_ic-class                           html  
    dmbc_init                               html  
    dmbc_logLik                             html  
    dmbc_logLik_rbmds                       html  
    dmbc_match_groups                       html  
    dmbc_model-class                        html  
    dmbc_prior                              html  
    initialize-dmbc_config-method           html  
    initialize-dmbc_data-method             html  
    initialize-dmbc_fit-method              html  
    initialize-dmbc_fit_list-method         html  
    initialize-dmbc_ic-method               html  
    initialize-dmbc_model-method            html  
    kinship                                 html  
    mdsic                                   html  
    plot-dmbc_config-ANY-method             html  
    plot-dmbc_data-ANY-method               html  
    plot-dmbc_fit-ANY-method                html  
    finding level-2 HTML links ... done

    plot-dmbc_fit_list-ANY-method           html  
    plot-dmbc_ic-ANY-method                 html  
    show-dmbc_config-method                 html  
    show-dmbc_data-method                   html  
    show-dmbc_fit-method                    html  
    show-dmbc_fit_list-method               html  
    show-dmbc_ic-method                     html  
    show-dmbc_model-method                  html  
    simdiss                                 html  
    subset-dmbc_fit-method                  html  
    subset-dmbc_fit_list-method             html  
    summary-dmbc_config-method              html  
    summary-dmbc_data-method                html  
    summary-dmbc_fit-method                 html  
    summary-dmbc_fit_list-method            html  
    summary-dmbc_ic-method                  html  
    update-dmbc_ic-method                   html  
** 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 (dmbc)