* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘OmicFlow’ ...
** this is package ‘OmicFlow’ version ‘1.6.0’
** package ‘OmicFlow’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-15 (Debian 15.2.0-17) 15.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpeFpvmx/R.INSTALL39cabdac1be6e/OmicFlow/src'
g++-15 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-15 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c init.cpp -o init.o
In file included from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_unordered_impl.h:37,
                 from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include/tbb/concurrent_unordered_set.h:23,
                 from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/TBB.h:11,
                 from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include/RcppParallel.h:24,
                 from utils.h:5,
                 from init.cpp:3:
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/../atomic.h: In instantiation of ‘tbb::atomic<T>& tbb::internal::as_atomic(T&) [with T = long unsigned int]’:
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include/tbb/tbb_thread.h:251:29:   required from here
  251 |             return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id);
      |                    ~~~~~~~~~^~~~~~~~~~~~~~~~
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/../atomic.h:551:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic<long unsigned int>&’ does not use ‘constexpr tbb::atomic<long unsigned int>::atomic(long unsigned int)’ [-Wcast-user-defined]
  551 |     return (atomic<T>&)t;
      |            ^~~~~~~~~~~~~
g++-15 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c metrics.cpp -o metrics.o
g++-15 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o OmicFlow.so RcppExports.o init.o metrics.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/RtmpeFpvmx/R.INSTALL39cabdac1be6e/OmicFlow/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpeFpvmx/R.INSTALL39cabdac1be6e/OmicFlow/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpeFpvmx/R.INSTALL39cabdac1be6e/OmicFlow/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-OmicFlow/00new/OmicFlow/libs
** R
** exec
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘OmicFlow’
    finding HTML links ... done
    OmicFlow-package                        html  
    bray                                    html  
    canberra                                html  
    colormap                                html  
    column_exists                           html  
    composition_plot                        html  
    cosine                                  html  
    diversity                               html  
    diversity_plot                          html  
    euclidean                               html  
    hill_taxa                               html  
    jaccard                                 html  
    jsd                                     html  
    manhattan                               html  
    matrix_to_dtable                        html  
    metagenomics                            html  
    omics                                   html  
    ordination_plot                         html  
    pairwise_adonis                         html  
    pairwise_anosim                         html  
    plot_pairwise_stats                     html  
    proteomics                              html  
    unifrac                                 html  
    volcano_plot                            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 (OmicFlow)