* installing *source* package ‘epm’ ...
** package ‘epm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (GCC) 13.2.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/epm/src'
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c epm_cppFunctions.cpp -o epm_cppFunctions.o
epm_cppFunctions.cpp: In function 'std::vector<int> intersect_int(std::vector<int>, std::vector<int>)':
epm_cppFunctions.cpp:40:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
   40 |         for (int k = 0; k < vec1.size(); k++) {
      |                         ~~^~~~~~~~~~~~~
epm_cppFunctions.cpp: In function 'std::vector<std::__cxx11::basic_string<char> > getComponentA(std::vector<std::__cxx11::basic_string<char> >, std::vector<std::__cxx11::basic_string<char> >)':
epm_cppFunctions.cpp:77:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'long unsigned int'} [-Wsign-compare]
   77 |         for (int k = 0; k < commI.size(); k++) {
      |                         ~~^~~~~~~~~~~~~~
epm_cppFunctions.cpp: In function 'Rcpp::List getRootToTipEdges(Rcpp::List)':
epm_cppFunctions.cpp:143:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  143 |         for (int i = 0; i < tipLabels.size(); i++) {
      |                         ~~^~~~~~~~~~~~~~~~~~
epm_cppFunctions.cpp:153:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  153 |                 for (int j = 0; j < nodes.size(); j++) {
      |                                 ~~^~~~~~~~~~~~~~
epm_cppFunctions.cpp: In function 'Rcpp::NumericVector countCells(Rcpp::List, Rcpp::StringVector)':
epm_cppFunctions.cpp:325:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  325 |                 for (int j = 0; j < uniqueSp.size(); j++) {
      |                                 ~~^~~~~~~~~~~~~~~~~
epm_cppFunctions.cpp: In function 'std::vector<int> uniqueBranchesForSet(std::vector<std::__cxx11::basic_string<char> >, std::vector<std::__cxx11::basic_string<char> >, Rcpp::List)':
epm_cppFunctions.cpp:423:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  423 |         for (int i = 0; i < a.size(); i++) {
      |                         ~~^~~~~~~~~~
epm_cppFunctions.cpp:428:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  428 |                 for (int j = 0; j < branchInd.size(); j++) {
      |                                 ~~^~~~~~~~~~~~~~~~~~
epm_cppFunctions.cpp: In function 'Rcpp::NumericMatrix calcPairwisePhylosor2(Rcpp::List, Rcpp::List, Rcpp::String, bool)':
epm_cppFunctions.cpp:502:59: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  502 |                                         for (int k = 0; k < edgesCommIJ.size(); k++) {
      |                                                         ~~^~~~~~~~~~~~~~~~~~~~
epm_cppFunctions.cpp:507:59: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  507 |                                         for (int k = 0; k < edgesInotJ.size(); k++) {
      |                                                         ~~^~~~~~~~~~~~~~~~~~~
epm_cppFunctions.cpp:512:59: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  512 |                                         for (int k = 0; k < edgesJnotI.size(); k++) {
      |                                                         ~~^~~~~~~~~~~~~~~~~~~
g++-13 -std=gnu++17 -shared -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -o epm.so RcppExports.o epm_cppFunctions.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/epm/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/epm/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/epm/src'
installing to /data/gannet/ripley/R/packages/tests-devel/epm.Rcheck/00LOCK-epm/00new/epm/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (epm)