* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘motmot’ ...
** package ‘motmot’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-16) 14.2.0’
using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’
using C++11
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpOZakFr/R.INSTALL3b20ea2bf25f26/motmot/src'
g++-14 -std=gnu++11 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c Rfunc.cpp -o Rfunc.o
gcc-14 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c packagename_init.c -o packagename_init.o
g++-14 -std=gnu++11 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c sim.cpp -o sim.o
g++-14 -std=gnu++11 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c tree.cpp -o tree.o
g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o motmot.so Rfunc.o packagename_init.o sim.o tree.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpOZakFr/R.INSTALL3b20ea2bf25f26/motmot/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpOZakFr/R.INSTALL3b20ea2bf25f26/motmot/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpOZakFr/R.INSTALL3b20ea2bf25f26/motmot/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-motmot/00new/motmot/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 ‘motmot’
    finding HTML links ... done
    ML.RatePhylo                            html  
    RatePhylo.allCI                         html  
    addFossilToPhy                          html  
    allopatric.data                         html  
    anolis.data                             html  
    anolis.tree                             html  
    as.rateData                             html  
    as.rateMatrix                           html  
    blomberg.k                              html  
    calcCutOff                              html  
    chr.disp.lrt                            html  
    chr.disp.param                          html  
    chr.disp.sim                            html  
    contemporaryPhy                         html  
    dropTipPartial                          html  
    fairProportions                         html  
    finch.data                              html  
    finch.tree                              html  
    likRatePhylo                            html  
    likTraitPhylo                           html  
    mammals                                 html  
    mcmc.plot                               html  
    motmot-package                          html  
    node.descendents                        html  
    nodeTimes                               html  
    optim.likRatePhylo                      html  
    phyloCovar                              html  
    phyloMean                               html  
    phyloVar                                html  
    pic.pgls                                html  
    plot.timeSlice.ML                       html  
    plot.traitMedusa.model                  html  
    sampleShid                              html  
    sortTraitData                           html  
    summary.traitMedusa                     html  
    traitData.plot                          html  
    transformPhylo.MCMC                     html  
    transformPhylo.ML                       html  
    transformPhylo                          html  
    transformPhylo.ll                       html  
    transformPhylo.sim                      html  
    transformRateMatrix                     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 (motmot)