* installing *source* package ‘HMMEsolver’ ...
** package ‘HMMEsolver’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 19.1.5’
using C++ compiler: ‘clang version 19.1.5’
using C++11
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/HMMEsolver/src'
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c Dist.cpp -o Dist.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c Dist2.cpp -o Dist2.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c FuncLib.cpp -o FuncLib.o
FuncLib.cpp:34:7: warning: unused variable 'nInd' [-Wunused-variable]
   34 |   int nInd = 0;
      |       ^~~~
FuncLib.cpp:77:7: warning: unused variable 'nInd' [-Wunused-variable]
   77 |   int nInd = 0;
      |       ^~~~
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 ;
      |           ^
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c HMMEsolver_init.c -o HMMEsolver_init.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c MainLib.cpp -o MainLib.o
5 warnings generated.
MainLib.cpp:15:8: warning: variable 'Result' set but not used [-Wunused-but-set-variable]
   15 |   bool Result;
      |        ^
1 warning generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++11 -shared -L/usr/local/clang/lib64 -L/usr/local/clang19/lib -L/usr/local/clang19/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o HMMEsolver.so Dist.o Dist2.o FuncLib.o HMMEsolver_init.o MainLib.o -fopenmp -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortranRuntime -lFortranDecimal -lm
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/HMMEsolver/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/HMMEsolver/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/HMMEsolver/src'
installing to /data/gannet/ripley/R/packages/tests-clang/HMMEsolver.Rcheck/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)