* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘HAPTRACE’ ...
** this is package ‘HAPTRACE’ version ‘0.1.1’
** package ‘HAPTRACE’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++17
using C++ compiler: ‘g++-15 (Debian 15.3.0-2) 15.3.0’
using C++17
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpNteWSr/R.INSTALL21ae924353f9d7/HAPTRACE/src'
g++-15 -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   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-15 -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   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c read_qmsim_geno.cpp -o read_qmsim_geno.o
g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o HAPTRACE.so RcppExports.o read_qmsim_geno.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpNteWSr/R.INSTALL21ae924353f9d7/HAPTRACE/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpNteWSr/R.INSTALL21ae924353f9d7/HAPTRACE/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpNteWSr/R.INSTALL21ae924353f9d7/HAPTRACE/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-HAPTRACE/00new/HAPTRACE/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘HAPTRACE’
    finding HTML links ... done
    Admixplot                               html  
    AlleleFreq                              html  
    BreedEff_Haplo                          html  
    BreedPopCross                           html  
    BreedPopSelect                          html  
    CalQTLeffect                            html  
    Coded_to_Haplo                          html  
    DamSample                               html  
    Ext_Pheno                               html  
    GenBreedPop                             html  
    GenOnePopulation                        html  
    MakeGeno                                html  
    MatingPop                               html  
    MutationRate                            html  
    Ped_Pheno                               html  
    PopSelect                               html  
    PopulationID                            html  
    QMSim_PlinkMAP                          html  
    QTL_densityplot                         html  
    QTLeffects                              html  
    Random_gametes                          html  
    ReadQTL                                 html  
    Recode_Haplotype                        html  
    RecombinationPoint                      html  
    Reformat_BLUPF90                        html  
    Rescale                                 html  
    SireSample                              html  
    TBV_Haplo                               html  
    TwoPopCross                             html  
    Var_PhenoRecords                        html  
    generateHP                              html  
    generateMAP                             html  
    mapQTLfile                              html  
    plinkped                                html  
    plotHaplo                               html  
    read_qmsim_geno                         html  
    recProbplot                             html  
    trueBreedComp                           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 (HAPTRACE)