Install log for 'PUlasso'

* installing *source* package ‘PUlasso’ ...
** this is package ‘PUlasso’ version ‘3.2.5’
** package ‘PUlasso’ 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/PUlasso/src'
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 LUfit.cpp -o LUfit.o
LUfit.cpp: In instantiation of ‘void LUfit<TX>::setupinactiveSets(int, const Eigen::VectorXd&, double, const Eigen::ArrayXd&, bool) [with TX = Eigen::Matrix<double, -1, -1>; Eigen::VectorXd = Eigen::Matrix<double, -1, 1>; Eigen::ArrayXd = Eigen::Array<double, -1, 1>]’:
LUfit.cpp:420:16:   required from here
  420 | template class LUfit<MatrixXd>;
      |                ^~~~~~~~~~~~~~~
LUfit.cpp:112:9: warning: variable ‘sind’ set but not used [-Wunused-but-set-variable]
  112 |     int sind;
      |         ^~~~
LUfit.cpp: In instantiation of ‘void LUfit<TX>::setupinactiveSets(int, const Eigen::VectorXd&, double, const Eigen::ArrayXd&, bool) [with TX = Eigen::SparseMatrix<double, 0, int>; Eigen::VectorXd = Eigen::Matrix<double, -1, 1>; Eigen::ArrayXd = Eigen::Array<double, -1, 1>]’:
LUfit.cpp:421:16:   required from here
  421 | template class LUfit<SparseMatrix<double> >;
      |                ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
LUfit.cpp:112:9: warning: variable ‘sind’ set but not used [-Wunused-but-set-variable]
  112 |     int sind;
      |         ^~~~
LUfit.cpp: In instantiation of ‘void LUfit<TX>::setupinactiveSets(int, const Eigen::VectorXd&, double, const Eigen::ArrayXd&, bool) [with TX = Eigen::Map<Eigen::Matrix<double, -1, -1>, 0, Eigen::Stride<0, 0> >; Eigen::VectorXd = Eigen::Matrix<double, -1, 1>; Eigen::ArrayXd = Eigen::Array<double, -1, 1>]’:
LUfit.cpp:422:16:   required from here
  422 | template class LUfit<Map<MatrixXd> >;
      |                ^~~~~~~~~~~~~~~~~~~~~
LUfit.cpp:112:9: warning: variable ‘sind’ set but not used [-Wunused-but-set-variable]
  112 |     int sind;
      |         ^~~~
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 cppWrappers.cpp -o cppWrappers.o
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 gd.cpp -o gd.o
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 groupLasso.cpp -o groupLasso.o
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 pgGroupLasso.cpp -o pgGroupLasso.o
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 pgLUfit.cpp -o pgLUfit.o
pgLUfit.cpp: In instantiation of ‘pgLUfit<TX>::pgLUfit(TX&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::ArrayXd&, Eigen::ArrayXd&, Eigen::ArrayXd&, bool, int, double, double, int, double, bool, double, double, int, int, std::vector<double>, bool, std::string, int) [with TX = Eigen::Matrix<double, -1, -1>; Eigen::VectorXd = Eigen::Matrix<double, -1, 1>; Eigen::ArrayXd = Eigen::Array<double, -1, 1>; std::string = std::__cxx11::basic_string<char>]’:
pgLUfit.cpp:182:16:   required from here
  182 | template class pgLUfit<MatrixXd>;
      |                ^~~~~~~~~~~~~~~~~
pgLUfit.cpp:13:37: warning: comparison of integer expressions of different signedness: ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   13 |     if(samplingProbabilities_.size()!=N){
      |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~
pgLUfit.cpp: In instantiation of ‘pgLUfit<TX>::pgLUfit(TX&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::ArrayXd&, Eigen::ArrayXd&, Eigen::ArrayXd&, bool, int, double, double, int, double, bool, double, double, int, int, std::vector<double>, bool, std::string, int) [with TX = Eigen::SparseMatrix<double>; Eigen::VectorXd = Eigen::Matrix<double, -1, 1>; Eigen::ArrayXd = Eigen::Array<double, -1, 1>; std::string = std::__cxx11::basic_string<char>]’:
pgLUfit.cpp:183:16:   required from here
  183 | template class pgLUfit<SparseMatrix<double> >;
      |                ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pgLUfit.cpp:13:37: warning: comparison of integer expressions of different signedness: ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   13 |     if(samplingProbabilities_.size()!=N){
      |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~
pgLUfit.cpp: In instantiation of ‘pgLUfit<TX>::pgLUfit(TX&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::ArrayXd&, Eigen::ArrayXd&, Eigen::ArrayXd&, bool, int, double, double, int, double, bool, double, double, int, int, std::vector<double>, bool, std::string, int) [with TX = Eigen::Map<Eigen::Matrix<double, -1, -1>, 0, Eigen::Stride<0, 0> >; Eigen::VectorXd = Eigen::Matrix<double, -1, 1>; Eigen::ArrayXd = Eigen::Array<double, -1, 1>; std::string = std::__cxx11::basic_string<char>]’:
pgLUfit.cpp:184:16:   required from here
  184 | template class pgLUfit<Map<MatrixXd> >;
      |                ^~~~~~~~~~~~~~~~~~~~~~~
pgLUfit.cpp:13:37: warning: comparison of integer expressions of different signedness: ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   13 |     if(samplingProbabilities_.size()!=N){
      |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 sag.cpp -o sag.o
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 sgd.cpp -o sgd.o
g++ -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/RcppEigen/include' -I'/data/gannet/ripley/R/R-devel/library/Matrix/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 svrg.cpp -o svrg.o
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o PUlasso.so LUfit.o RcppExports.o cppWrappers.o gd.o groupLasso.o pgGroupLasso.o pgLUfit.o sag.o sgd.o svrg.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/PUlasso/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/PUlasso/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/PUlasso/src'
installing to /data/gannet/ripley/R/packages/tests-devel/PUlasso.Rcheck/00LOCK-PUlasso/00new/PUlasso/libs
** R
** data
** 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 (PUlasso)