* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘epiphy’ ...
** package ‘epiphy’ 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/RtmpTRxCln/R.INSTALLf009abe9358e/epiphy/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/usr/local/include -D_FORTIFY_SOURCE=3   -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c mapcomp.cpp -o mapcomp.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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c sadie.cpp -o sadie.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o epiphy.so RcppExports.o mapcomp.o sadie.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpTRxCln/R.INSTALLf009abe9358e/epiphy/src'
make[1]: Entering directory '/tmp/RtmpTRxCln/R.INSTALLf009abe9358e/epiphy/src'
make[1]: Leaving directory '/tmp/RtmpTRxCln/R.INSTALLf009abe9358e/epiphy/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-epiphy/00new/epiphy/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 ‘epiphy’
    finding HTML links ... done
    BetaBinomial                            html  
    a2a                                     html  
    agg_index                               html  
    aphids                                  html  
    arthropods                              html  
    as.data.frame.intensity                 html  
    calpha.test                             html  
    chisq.test                              html  
    citrus_ctv                              html  
    clump                                   html  
    codling_moths                           html  
    coef.smle                               html  
    dogwood_anthracnose                     html  
    epiphy                                  html  
    fit_two_distr                           html  
    hop_viruses                             html  
    indAndSub                               html  
    intensity                               html  
    is.intensity                            html  
    link                                    html  
    logLik.smle                             html  
    mapcomp                                 html  
    mapped_var                              html  
    mapping                                 html  
    offspring_survival                      html  
    onion_bacterial_blight                  html  
    power_law                               html  
    pyrethrum_ray_blight                    html  
    sadie                                   html  
    simulated_epidemics                     html  
    smle                                    html  
    smle_wrappers                           html  
    spatial_hier                            html  
    split.intensity                         html  
    threshold                               html  
    tobacco_viruses                         html  
    tomato_tswv                             html  
    vcov.smle                               html  
    z.test                                  html  
*** copying figures
** 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 (epiphy)