* installing to library ‘/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages’
* installing *source* package ‘HMMEsolver’ ...
** this is package ‘HMMEsolver’ version ‘0.1.2’
** package ‘HMMEsolver’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.3.0-10) 14.3.0’
using C++ compiler: ‘g++-14 (Debian 14.3.0-10) 14.3.0’
using C++11
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIGn0JG/R.INSTALL3cf26d30e7a5c2/HMMEsolver/src'
g++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-release-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist.cpp -o Dist.o
In file included from /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:29,
from Dist.h:8,
from Dist.cpp:3:
/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/version/arma.h:66:199: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.’
66 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.")
| ^
g++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-release-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist2.cpp -o Dist2.o
In file included from /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:29,
from Dist2.h:8,
from Dist2.cpp:1:
/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/version/arma.h:66:199: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.’
66 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.")
| ^
g++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-release-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c FuncLib.cpp -o FuncLib.o
In file included from /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:29,
from Dist.h:8,
from FuncLib.cpp:2:
/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/version/arma.h:66:199: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.’
66 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.")
| ^
FuncLib.cpp: In function ‘arma::mat GetXWs(arma::mat, double*, double*)’:
FuncLib.cpp:34:7: warning: unused variable ‘nInd’ [-Wunused-variable]
34 | int nInd = 0;
| ^~~~
FuncLib.cpp: In function ‘arma::mat GetZWX(arma::mat, double*, int, int)’:
FuncLib.cpp:77:7: warning: unused variable ‘nInd’ [-Wunused-variable]
77 | int nInd = 0;
| ^~~~
FuncLib.cpp: In function ‘bool CppGetDiag(double*, double*, double*, double*, double*, int*, int*, int*)’:
FuncLib.cpp:115:7: warning: unused variable ‘nm’ [-Wunused-variable]
115 | int nm = n*m;
| ^~
FuncLib.cpp:128:11: warning: variable ‘eta’ set but not used [-Wunused-but-set-variable]
128 | double* eta = &dummys;
| ^~~
FuncLib.cpp:129:11: warning: variable ‘deta_dmu’ set but not used [-Wunused-but-set-variable]
129 | double* deta_dmu = &dummydet ;
| ^~~~~~~~
gcc-14 -std=gnu23 -I"/home/hornik/tmp/R.check/r-release-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c HMMEsolver_init.c -o HMMEsolver_init.o
g++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-release-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c MainLib.cpp -o MainLib.o
In file included from /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:29,
from FuncLib.h:9,
from MainLib.cpp:2:
/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/version/arma.h:66:199: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.’
66 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT and also removing C++11 compilation directive. See GitHub issue #475 for more.")
| ^
MainLib.cpp: In function ‘void SolveHMM(double*, double*, double*, double*, double*, int*, int*, int*)’:
MainLib.cpp:15:8: warning: variable ‘Result’ set but not used [-Wunused-but-set-variable]
15 | bool Result;
| ^~~~~~
g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib -Wl,-O1 -o HMMEsolver.so Dist.o Dist2.o FuncLib.o HMMEsolver_init.o MainLib.o -fopenmp -llapack -L/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIGn0JG/R.INSTALL3cf26d30e7a5c2/HMMEsolver/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIGn0JG/R.INSTALL3cf26d30e7a5c2/HMMEsolver/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIGn0JG/R.INSTALL3cf26d30e7a5c2/HMMEsolver/src'
installing to /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/00LOCK-HMMEsolver/00new/HMMEsolver/libs
** R
** 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 (HMMEsolver)