* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘krm’ ...
** package ‘krm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-8) 14.2.0’
using C++ compiler: ‘g++-14 (Debian 14.2.0-8) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpOvLnIu/R.INSTALL1d07cd32053e32/krm/src'
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c DirichletRV.cpp -o DirichletRV.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c MI_kernel.cpp -o MI_kernel.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c MixtureDirichletRV.cpp -o MixtureDirichletRV.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c ProteinSequence.cpp -o ProteinSequence.o
ProteinSequence.cpp: In member function ‘void ProteinSequence::setSequence(std::vector<std::__cxx11::basic_string<char> >)’:
ProteinSequence.cpp:43:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   43 |     for (int i=0; i<n; i++)
      |     ^~~
ProteinSequence.cpp:46:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
   46 |         for (int i=0; i<n; i++)
      |         ^~~
gcc-14 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c registerDynamicSymbol.c -o registerDynamicSymbol.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c rvgs.cpp -o rvgs.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c score_var.cpp -o score_var.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c var_Q.cpp -o var_Q.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o krm.so DirichletRV.o MI_kernel.o MixtureDirichletRV.o ProteinSequence.o registerDynamicSymbol.o rvgs.o score_var.o var_Q.o -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpOvLnIu/R.INSTALL1d07cd32053e32/krm/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpOvLnIu/R.INSTALL1d07cd32053e32/krm/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpOvLnIu/R.INSTALL1d07cd32053e32/krm/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-krm/00new/krm/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘krm’
    finding HTML links ... done
    aa.prop.list                            html  
    chi.norm                                html  
    cloud9                                  html  
    dirichlet_functions                     html  
    getSeqKernel                            html  
    krm                                     html  
    krm.most                                html  
    krm.score.test                          html  
    profile_HMM                             html  
    seq_alignment                           html  
    seq_read_write                          html  
    sim.liu                                 html  
** 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 (krm)