* installing *source* package ‘CytoSimplex’ ...
** package ‘CytoSimplex’ 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/CytoSimplex/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/RcppArmadillo/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 CytoSimplex.cpp -o CytoSimplex.o
CytoSimplex.cpp: In function 'Rcpp::List rankMatrix_dense(arma::mat&)':
CytoSimplex.cpp:175:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<float, long unsigned int> >::size_type' {aka 'long unsigned int'} [-Wsign-compare]
  175 |         for (int i = 1; i < v_sort.size(); i++) {
      |                         ~~^~~~~~~~~~~~~~~
CytoSimplex.cpp:178:51: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
  178 |                 for (unsigned j = tieStartRank; j < i; j++) {
      |                                                 ~~^~~
CytoSimplex.cpp: In function 'std::__cxx11::list<float> cpp_in_place_rank_mean(arma::vec&, int, int)':
CytoSimplex.cpp:201:34: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
  201 |     for (size_t i = idx_begin; i <= idx_end; i++) {
      |                                ~~^~~~~~~~~~
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/RcppArmadillo/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 -shared -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -o CytoSimplex.so CytoSimplex.o RcppExports.o -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/CytoSimplex/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/CytoSimplex/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/CytoSimplex/src'
installing to /data/gannet/ripley/R/packages/tests-devel/CytoSimplex.Rcheck/00LOCK-CytoSimplex/00new/CytoSimplex/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (CytoSimplex)