* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘treestats’ ...
** package ‘treestats’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-24) 13.2.0’
using C++20
make[1]: Entering directory '/tmp/RtmpUuI2qX/R.INSTALL38c8e444b0cb6/treestats/src'
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c beta.cpp -o beta.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c brts.cpp -o brts.o
In file included from brts.cpp:21:
../inst/include/gamma.h: In function ‘double calc_gamma2(const std::vector<int>&, const std::vector<double>&)’:
../inst/include/gamma.h:60:23: warning: comparison of integer expressions of different signedness: ‘const __gnu_cxx::__alloc_traits<std::allocator<int>, int>::value_type’ {aka ‘const int’} and ‘long unsigned int’ [-Wsign-compare]
60 | if (t_edge[i + 1] > n) {
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c centralities.cpp -o centralities.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c colless.cpp -o colless.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c depth.cpp -o depth.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c ladder.cpp -o ladder.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c laplacian.cpp -o laplacian.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c mpd.cpp -o mpd.o
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c phylo.cpp -o phylo.o
In file included from phylo.cpp:24:
../inst/include/imbalance_steps.h: In function ‘ltable imbal_steps::swap_deepest(const ltable&, int*, bool*)’:
../inst/include/imbalance_steps.h:140:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::array<double, 4> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
140 | for (focal_index = 0; focal_index < ltab.size(); ++focal_index) {
| ~~~~~~~~~~~~^~~~~~~~~~~~~
g++-13 -std=gnu++20 -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/nloptr/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I../inst/include -I. -fpic -g -O2 -Wall -pedantic -mtune=native -c sackin.cpp -o sackin.o
g++-13 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o treestats.so RcppExports.o beta.o brts.o centralities.o colless.o depth.o ladder.o laplacian.o mpd.o phylo.o sackin.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpUuI2qX/R.INSTALL38c8e444b0cb6/treestats/src'
make[1]: Entering directory '/tmp/RtmpUuI2qX/R.INSTALL38c8e444b0cb6/treestats/src'
make[1]: Leaving directory '/tmp/RtmpUuI2qX/R.INSTALL38c8e444b0cb6/treestats/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-treestats/00new/treestats/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘treestats’
finding HTML links ... done
ILnumber html
area_per_pair html
average_leaf_depth html
avg_ladder html
b1 html
b2 html
beta_statistic html
blum html
branching_times html
calc_all_stats html
calc_balance_stats html
calc_brts_stats html
cherries html
colless html
crown_age html
diameter html
eigen_vector html
entropy_j html
ew_colless html
gamma_statistic html
imbalance_steps html
j_one html
l_to_phylo html
laplacian_spectrum html
list_statistics html
ltable_to_newick html
make_unbalanced_tree html
max_betweenness html
max_closeness html
max_del_width html
max_depth html
max_ladder html
max_width html
mean_branch_length html
mean_branch_length_ext html
mean_branch_length_int html
mean_i html
mean_pair_dist html
mntd html
nLTT html
nLTT_base html
number_of_lineages html
phylo_to_l html
phylogenetic_diversity html
pigot_rho html
pitchforks html
prep_lapl_spec html
psv html
rebase_ltable html
rogers html
rquartet html
sackin html
stairs html
stairs2 html
sym_nodes html
tot_coph html
tree_height html
treestats-package html
var_branch_length html
var_branch_length_ext html
var_branch_length_int html
var_leaf_depth html
var_pair_dist html
wiener 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
* creating tarball
packaged installation of ‘treestats’ as ‘treestats_1.0.5_R_x86_64-pc-linux-gnu.tar.gz’
* DONE (treestats)