* installing *source* package ‘smer’ ...
** this is package ‘smer’ version ‘0.0.1’
** package ‘smer’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c allocate_memory.cpp -o allocate_memory.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c check_openmp.cpp -o check_openmp.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c computation.cpp -o computation.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c compute_covariance_q.cpp -o compute_covariance_q.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c compute_mom_components.cpp -o compute_mom_components.o
In file included from RcppExports.cpp:4:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from RcppExports.cpp:4:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from RcppExports.cpp:4:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c count_data.cpp -o count_data.o
In file included from RcppExports.cpp:4:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from allocate_memory.cpp:5:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
In file included from compute_covariance_q.cpp:5:
In file included from ./compute_covariance_q.h:8:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
      Index count = 0;
            ^
In file included from compute_mom_components.cpp:5:
In file included from ./compute_mom_components.h:7:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from computation.cpp:29:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from allocate_memory.cpp:5:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from compute_covariance_q.cpp:5:
In file included from ./compute_covariance_q.h:8:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from compute_mom_components.cpp:5:
In file included from ./compute_mom_components.h:7:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from computation.cpp:29:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from allocate_memory.cpp:5:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from compute_covariance_q.cpp:5:
In file included from ./compute_covariance_q.h:8:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from compute_mom_components.cpp:5:
In file included from ./compute_mom_components.h:7:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from computation.cpp:29:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
count_data.cpp:64:7: warning: variable 'linenum' set but not used [-Wunused-but-set-variable]
  int linenum = 0;
      ^
In file included from allocate_memory.cpp:5:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from compute_covariance_q.cpp:5:
In file included from ./compute_covariance_q.h:8:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from computation.cpp:29:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from compute_mom_components.cpp:5:
In file included from ./compute_mom_components.h:7:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
1 warning generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c genotype.cpp -o genotype.o
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c hdf5_api.cpp -o hdf5_api.o
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c initialize_random_vectors.cpp -o initialize_random_vectors.o
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c read_covariates.cpp -o read_covariates.o
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c read_genotype_mask.cpp -o read_genotype_mask.o
In file included from genotype.cpp:29:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from genotype.cpp:29:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from genotype.cpp:29:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from genotype.cpp:29:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from initialize_random_vectors.cpp:5:
In file included from ./initialize_random_vectors.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from initialize_random_vectors.cpp:5:
In file included from ./initialize_random_vectors.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from initialize_random_vectors.cpp:5:
In file included from ./initialize_random_vectors.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from initialize_random_vectors.cpp:5:
In file included from ./initialize_random_vectors.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from read_covariates.cpp:1:
In file included from ./read_covariates.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from read_covariates.cpp:1:
In file included from ./read_covariates.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from read_covariates.cpp:1:
In file included from ./read_covariates.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c read_genotypes.cpp -o read_genotypes.o
In file included from read_covariates.cpp:1:
In file included from ./read_covariates.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from read_genotype_mask.cpp:1:
In file included from ./read_genotype_mask.h:5:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from read_genotype_mask.cpp:1:
In file included from ./read_genotype_mask.h:5:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from read_genotype_mask.cpp:1:
In file included from ./read_genotype_mask.h:5:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from read_genotype_mask.cpp:1:
In file included from ./read_genotype_mask.h:5:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c read_phenotypes.cpp -o read_phenotypes.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c set_metadata.cpp -o set_metadata.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c simulate_traits.cpp -o simulate_traits.o
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c sme.cpp -o sme.o
In file included from read_genotypes.cpp:1:
In file included from ./read_genotypes.h:1:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from read_genotypes.cpp:1:
In file included from ./read_genotypes.h:1:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from read_genotypes.cpp:1:
In file included from ./read_genotypes.h:1:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from read_genotypes.cpp:1:
In file included from ./read_genotypes.h:1:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c test-runner.cpp -o test-runner.o
In file included from read_phenotypes.cpp:1:
In file included from ./read_phenotypes.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from read_phenotypes.cpp:1:
In file included from ./read_phenotypes.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from read_phenotypes.cpp:1:
In file included from ./read_phenotypes.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from read_phenotypes.cpp:1:
In file included from ./read_phenotypes.h:1:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from simulate_traits.cpp:1:
In file included from ./simulate_traits.h:5:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from simulate_traits.cpp:1:
In file included from ./simulate_traits.h:5:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -I/opt/homebrew/include -I/opt/R/x86_64/include -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/BH/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c testing_utils.cpp -o testing_utils.o
In file included from simulate_traits.cpp:1:
In file included from ./simulate_traits.h:5:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from sme.cpp:45:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from sme.cpp:45:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from sme.cpp:45:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from simulate_traits.cpp:1:
In file included from ./simulate_traits.h:5:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from sme.cpp:45:
In file included from ./computation.h:2:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
5 warnings generated.
5 warnings generated.
In file included from testing_utils.cpp:1:
In file included from ./testing_utils.h:6:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from testing_utils.cpp:1:
In file included from ./testing_utils.h:6:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from testing_utils.cpp:1:
In file included from ./testing_utils.h:6:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from testing_utils.cpp:1:
In file included from ./testing_utils.h:6:
In file included from ./allocate_memory.h:8:
In file included from ./genotype.h:4:
In file included from ./sme.h:7:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
5 warnings generated.
5 warnings generated.
5 warnings generated.
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o smer.so RcppExports.o allocate_memory.o check_openmp.o computation.o compute_covariance_q.o compute_mom_components.o count_data.o genotype.o hdf5_api.o initialize_random_vectors.o read_covariates.o read_genotype_mask.o read_genotypes.o read_phenotypes.o set_metadata.o simulate_traits.o sme.o test-runner.o testing_utils.o -L/usr/local/lib -L/opt/homebrew/lib -L/opt/R/x86_64/lib /Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/lib/libhdf5_cpp.a /Volumes/Builds/packages/big-sur-x86_64/extralib/4.5/Rhdf5lib/lib/libhdf5.a -lcrypto -lcurl -lz -ldl -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/homebrew/lib'
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.5/smer.Rcheck/00LOCK-smer/00new/smer/libs
** generating debug symbols (dSYM)
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Error: package or namespace load failed for ‘smer’ in dyn.load(file, DLLpath = DLLpath, ...):
 unable to load shared object '/Volumes/Builds/packages/big-sur-x86_64/results/4.5/smer.Rcheck/00LOCK-smer/00new/smer/libs/smer.so':
  dlopen(/Volumes/Builds/packages/big-sur-x86_64/results/4.5/smer.Rcheck/00LOCK-smer/00new/smer/libs/smer.so, 0x0006): symbol not found in flat namespace '_H5Treclaim'
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.5/smer.Rcheck/smer’