Install log for 'TTR.PGM'

* installing *source* package ‘TTR.PGM’ ...
** this is package ‘TTR.PGM’ version ‘1.0.0’
** package ‘TTR.PGM’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++17
using C++ compiler: ‘g++ (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
using C++17
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/TTR.PGM/src'
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I. -I../inst/include/ -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/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++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I. -I../inst/include/ -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/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 make_swc.cpp -o make_swc.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I. -I../inst/include/ -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/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 run_ttr.cpp -o run_ttr.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I. -I../inst/include/ -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/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 thorn_photo.cpp -o thorn_photo.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I. -I../inst/include/ -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/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 ttr_environment.cpp -o ttr_environment.o
run_ttr.cpp: In instantiation of ‘void ttr::site(double*, size_t, const arma::cube&, const arma::mat&, ParameterVector<AlphaParameter>&, const std::vector<EnumVector<BetaParameter, double>, std::allocator<EnumVector<BetaParameter, double> > >&, const environment&) [with TTRVariant V = TTRVariant::std; size_t = long unsigned int; arma::cube = arma::Cube<double>; arma::mat = arma::Mat<double>; ParameterVector<AlphaParameter> = EnumVector<AlphaParameter, double>]’:
run_ttr.cpp:55:33:   required from here
   55 |       ttr::site<TTRVariant::std>(res.begin(), site, timeseries, timeinvariant, a, b, env);
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
run_ttr.cpp:160:10: warning: variable ‘bsum’ set but not used [-Wunused-but-set-variable=]
  160 |   double bsum = 0;
      |          ^~~~
run_ttr.cpp: In instantiation of ‘void ttr::site(double*, size_t, const arma::cube&, const arma::mat&, ParameterVector<AlphaParameter>&, const std::vector<EnumVector<BetaParameter, double>, std::allocator<EnumVector<BetaParameter, double> > >&, const environment&) [with TTRVariant V = TTRVariant::fqr; size_t = long unsigned int; arma::cube = arma::Cube<double>; arma::mat = arma::Mat<double>; ParameterVector<AlphaParameter> = EnumVector<AlphaParameter, double>]’:
run_ttr.cpp:60:33:   required from here
   60 |       ttr::site<TTRVariant::fqr>(res.begin(), site, timeseries, timeinvariant, a, b, env);
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
run_ttr.cpp:160:10: warning: variable ‘bsum’ set but not used [-Wunused-but-set-variable=]
  160 |   double bsum = 0;
      |          ^~~~
run_ttr.cpp: In instantiation of ‘void ttr::site(double*, size_t, const arma::cube&, const arma::mat&, ParameterVector<AlphaParameter>&, const std::vector<EnumVector<BetaParameter, double>, std::allocator<EnumVector<BetaParameter, double> > >&, const environment&) [with TTRVariant V = TTRVariant::red; size_t = long unsigned int; arma::cube = arma::Cube<double>; arma::mat = arma::Mat<double>; ParameterVector<AlphaParameter> = EnumVector<AlphaParameter, double>]’:
run_ttr.cpp:65:33:   required from here
   65 |       ttr::site<TTRVariant::red>(res.begin(), site, timeseries, timeinvariant, a, b, env);
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
run_ttr.cpp:160:10: warning: variable ‘bsum’ set but not used [-Wunused-but-set-variable=]
  160 |   double bsum = 0;
      |          ^~~~
run_ttr.cpp: In instantiation of ‘void ttr::site(double*, size_t, const arma::cube&, const arma::mat&, ParameterVector<AlphaParameter>&, const std::vector<EnumVector<BetaParameter, double>, std::allocator<EnumVector<BetaParameter, double> > >&, const environment&) [with TTRVariant V = TTRVariant::oak; size_t = long unsigned int; arma::cube = arma::Cube<double>; arma::mat = arma::Mat<double>; ParameterVector<AlphaParameter> = EnumVector<AlphaParameter, double>]’:
run_ttr.cpp:70:33:   required from here
   70 |       ttr::site<TTRVariant::oak>(res.begin(), site, timeseries, timeinvariant, a, b, env);
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
run_ttr.cpp:160:10: warning: variable ‘bsum’ set but not used [-Wunused-but-set-variable=]
  160 |   double bsum = 0;
      |          ^~~~
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o TTR.PGM.so RcppExports.o make_swc.o run_ttr.o thorn_photo.o ttr_environment.o
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/TTR.PGM/src'
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/TTR.PGM/src'
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/TTR.PGM/src'
installing to /data/localhost/ripley/R/packages/tests-devel/TTR.PGM.Rcheck/00LOCK-TTR.PGM/00new/TTR.PGM/libs
** R
** data
** 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 (TTR.PGM)