* installing *source* package ‘PartialNetwork’ ... ** package ‘PartialNetwork’ 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'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ARD_to_linkprob.cpp -o ARD_to_linkprob.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c DataForARD.cpp -o DataForARD.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Instruments.cpp -o Instruments.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -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'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c listG0.cpp -o listG0.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c mcmcSARNone.cpp -o mcmcSARNone.o In file included from ARD_to_linkprob.cpp:7: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 ARD_to_linkprob.cpp:7: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARNone.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 ARD_to_linkprob.cpp:7: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 RcppExports.cpp:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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 mcmcSARNone.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARNone.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 ARD_to_linkprob.cpp:7: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 RcppExports.cpp:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARNone.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable] int count = 0; ^ clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c mcmcSARard.cpp -o mcmcSARard.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c mcmcSARpl.cpp -o mcmcSARpl.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c mlSAR.cpp -o mlSAR.o 5 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c remnonFinite.cpp -o remnonFinite.o In file included from mcmcSARard.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARard.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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 mcmcSARard.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARard.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARpl.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mlSAR.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include/RcppNumerical.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mlSAR.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include/RcppNumerical.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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 mcmcSARpl.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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 mlSAR.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include/RcppNumerical.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARpl.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mcmcSARpl.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 mlSAR.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include/RcppNumerical.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c smm.cpp -o smm.o 5 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c toolsbayes.cpp -o toolsbayes.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c updatenet.cpp -o updatenet.o 5 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c updateparms.cpp -o updateparms.o 5 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppNumerical/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppProgress/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c vMF.cpp -o vMF.o In file included from toolsbayes.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 toolsbayes.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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 toolsbayes.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 toolsbayes.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 updatenet.cpp:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 updatenet.cpp:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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 updatenet.cpp:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 updatenet.cpp:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 updateparms.cpp:4: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:26: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseCore:61: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 updateparms.cpp:4: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/Sparse:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/Eigen/SparseLU:35: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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/4.4/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 updateparms.cpp:4: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:31: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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. In file included from updateparms.cpp:4: In file included from ../inst/include/tools.h:5: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigen.h:25: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/RcppEigenForward.h:37: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.4/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 PartialNetwork.so ARD_to_linkprob.o DataForARD.o Instruments.o RcppExports.o listG0.o mcmcSARNone.o mcmcSARard.o mcmcSARpl.o mlSAR.o remnonFinite.o smm.o toolsbayes.o updatenet.o updateparms.o vMF.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/x86_64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.4/PartialNetwork.Rcheck/00LOCK-PartialNetwork/00new/PartialNetwork/libs ** generating debug symbols (dSYM) ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (PartialNetwork)