* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘treespace’ ...
** this is package ‘treespace’ version ‘1.1.4.3’
** package ‘treespace’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpeQ9LDX/R.INSTALL3b8aac24d7a7c5/treespace/src'
g++-14 -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 CPP_update_combinations.cpp -o CPP_update_combinations.o
g++-14 -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++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o treespace.so CPP_update_combinations.o RcppExports.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpeQ9LDX/R.INSTALL3b8aac24d7a7c5/treespace/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpeQ9LDX/R.INSTALL3b8aac24d7a7c5/treespace/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpeQ9LDX/R.INSTALL3b8aac24d7a7c5/treespace/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-treespace/00new/treespace/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 ‘treespace’
    finding HTML links ... done
    DengueBEASTMCC                          html  
    DengueSeqs                              html  
    DengueTrees                             html  
    dot-render.server.info                  html  
    findGroves                              html  
    findMRCIs                               html  
    fluTrees                                html  
    linearMrca                              html  
    makeCollapsedTree                       html  
    medTree                                 html  
    multiDist                               html  
    plotGroves                              html  
Rd warning: plotGroves.Rd:57: missing link ‘s.class’
    plotGrovesD3                            html  
Rd warning: plotGrovesD3.Rd:36: missing link ‘scatterD3’
    plotTreeDiff                            html  
Rd warning: plotTreeDiff.Rd:51: missing link ‘plot.phylo’
    refTreeDist                             html  
    relatedTreeDist                         html  
    simulateIndTree                         html  
    tipDiff                                 html  
    tipsMRCAdepths                          html  
    treeConcordance                         html  
    treeDist                                html  
    treeVec                                 html  
    treespace                               html  
    treespaceServer                         html  
    wiwMedTree                              html  
    wiwTreeDist                             html  
    woodmiceTrees                           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 (treespace)