* installing *source* package ‘TiPS’ ...
** this is package ‘TiPS’ version ‘1.2.3’
** package ‘TiPS’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/TiPS/src'
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-dev/Rcpp/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 Compartment.cpp -o Compartment.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-dev/Rcpp/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 Node.cpp -o Node.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-dev/Rcpp/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 Phyloepid.cpp -o Phyloepid.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-dev/Rcpp/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
Phyloepid.cpp: In member function ‘bool Phyloepid::simulationTree()’:
Phyloepid.cpp:76:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
   76 |                 if (roots_[0]->getNbLeaves() != nbdates_){
      |                     ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
Phyloepid.cpp:91:40: warning: unused variable ‘height’ [-Wunused-variable]
   91 |                                 double height = tmpSon->getHeight() ;
      |                                        ^~~~~~
Phyloepid.cpp:98:54: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
   98 |                         if (roots_[0]->getNbLeaves() != nbdates_){
      |                             ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
Phyloepid.cpp: In member function ‘void Phyloepid::initCompartments()’:
Phyloepid.cpp:218:27: 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]
  218 |         for (int i = 0; i < demes_.size(); ++i){
      |                         ~~^~~~~~~~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-dev/Rcpp/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 Reaction.cpp -o Reaction.o
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o TiPS.so Compartment.o Node.o Phyloepid.o RcppExports.o Reaction.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/TiPS/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/TiPS/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/TiPS/src'
installing to /data/gannet/ripley/R/packages/tests-devel/TiPS.Rcheck/00LOCK-TiPS/00new/TiPS/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (TiPS)