* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘phyloregion’ ...
** this is package ‘phyloregion’ version ‘1.0.8’
** package ‘phyloregion’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘phyloregion’
    finding HTML links ... done
    EDGE                                    html  
    PD                                      html  
    PD_ses                                  html  
    africa                                  html  
    arc_labels                              html  
    beta_diss                               html  
Rd warning: beta_diss.Rd:21: missing link ‘betapart.core’
Rd warning: beta_diss.Rd:22: missing link ‘beta.pair’
Rd warning: beta_diss.Rd:22: missing link ‘beta.multi’
Rd warning: beta_diss.Rd:25: missing link ‘beta.pair’
Rd warning: beta_diss.Rd:42: missing link ‘betapart.core’
Rd warning: beta_diss.Rd:42: missing link ‘betapart’
    coldspots                               html  
    collapse_range                          html  
    counts                                  html  
    evol_distinct                           html  
    fishnet                                 html  
    fitgom                                  html  
    functional_beta                         html  
    get_clades                              html  
    hexcols                                 html  
    indicators                              html  
    long2sparse                             html  
    map_trait                               html  
    match_phylo_comm                        html  
    mean_dist                               html  
    nodepie                                 html  
    optimal_phyloregion                     html  
    phylo_endemism                          html  
    phylobeta                               html  
Rd warning: phylobeta.Rd:22: missing link ‘phylo.betapart.core’
Rd warning: phylobeta.Rd:23: missing link ‘phylo.beta.pair’
Rd warning: phylobeta.Rd:23: missing link ‘phylo.beta.multi’
Rd warning: phylobeta.Rd:26: missing link ‘phylo.beta.pair’
Rd warning: phylobeta.Rd:45: missing link ‘phylo.betapart.core’
    phylobeta_ses                           html  
    phylobuilder                            html  
    phyloregion-package                     html  
    phyloregion                             html  
    plot.phyloregion                        html  
    plot.sparse                             html  
    plot_pie                                html  
    random_species                          html  
    rast2comm                               html  
    read.community                          html  
    reexports                               html  
    sdm                                     html  
    select_linkage                          html  
    selectbylocation                        html  
    timeslice                               html  
    unifrac                                 html  
    weighted_endemism                       html  
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (phyloregion)