* installing *source* package ‘SparseChol’ ... ** package ‘SparseChol’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘clang version 18.1.4’ using C++17 make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/SparseChol/src' /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RcppExports.cpp -o RcppExports.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c chol.cpp -o chol.o In file included from RcppExports.cpp:4: In file included from ./../inst/include/SparseChol.h:3: In file included from ./../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61: /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable] 273 | Index count = 0; | ^ In file included from RcppExports.cpp:4: In file included from ./../inst/include/SparseChol.h:3: In file included from ./../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35: /data/gannet/ripley/R/test-clang/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] 78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree | ^ /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable] 79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree | ^ In file included from RcppExports.cpp:4: In file included from ./../inst/include/SparseChol.h:3: In file included from ./../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable] 72 | Index replacements = 0; | ^ In file included from RcppExports.cpp:4: In file included from ./../inst/include/SparseChol.h:3: In file included from ./../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable] 246 | int count = 0; | ^ /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c test.cpp -o test.o In file included from chol.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61: /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable] 273 | Index count = 0; | ^ In file included from chol.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35: /data/gannet/ripley/R/test-clang/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] 78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree | ^ /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable] 79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree | ^ In file included from chol.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable] 72 | Index replacements = 0; | ^ In file included from chol.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable] 246 | int count = 0; | ^ In file included from RcppExports.cpp:4: In file included from ./../inst/include/SparseChol.h:3: ./../inst/include/sparsematrix.h:145:7: warning: unused variable 'x' [-Wunused-variable] 145 | int x ; | ^ In file included from test.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61: /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable] 273 | Index count = 0; | ^ ./../inst/include/sparsematrix.h:415:10: warning: unused variable 'val' [-Wunused-variable] 415 | double val; | ^~~ ./../inst/include/sparsematrix.h:625:10: warning: unused variable 'mem' [-Wunused-variable] 625 | double mem = 0; | ^~~ ./../inst/include/sparsematrix.h:626:7: warning: unused variable 'nz' [-Wunused-variable] 626 | int nz = Ap.back(); | ^~ ./../inst/include/sparsematrix.h:787:7: warning: variable 'ncmpa' set but not used [-Wunused-but-set-variable] 787 | int ncmpa = 0 ; | ^ ./../inst/include/sparsematrix.h:815:19: warning: unused variable 'ilast' [-Wunused-variable] 815 | int deg, inext, ilast; | ^~~~~ In file included from RcppExports.cpp:4: In file included from ./../inst/include/SparseChol.h:4: ./../inst/include/operators.h:14:10: warning: unused variable 'val' [-Wunused-variable] 14 | double val; | ^~~ In file included from test.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35: /data/gannet/ripley/R/test-clang/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] 78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree | ^ /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable] 79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree | ^ In file included from test.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable] 72 | Index replacements = 0; | ^ In file included from test.cpp:1: In file included from ../inst/include/SparseChol.h:3: In file included from ../inst/include/sparsematrix.h:44: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37: In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable] 246 | int count = 0; | ^ In file included from chol.cpp:1: In file included from ../inst/include/SparseChol.h:3: ../inst/include/sparsematrix.h:145:7: warning: unused variable 'x' [-Wunused-variable] 145 | int x ; | ^ ../inst/include/sparsematrix.h:415:10: warning: unused variable 'val' [-Wunused-variable] 415 | double val; | ^~~ ../inst/include/sparsematrix.h:625:10: warning: unused variable 'mem' [-Wunused-variable] 625 | double mem = 0; | ^~~ ../inst/include/sparsematrix.h:626:7: warning: unused variable 'nz' [-Wunused-variable] 626 | int nz = Ap.back(); | ^~ ../inst/include/sparsematrix.h:787:7: warning: variable 'ncmpa' set but not used [-Wunused-but-set-variable] 787 | int ncmpa = 0 ; | ^ ../inst/include/sparsematrix.h:815:19: warning: unused variable 'ilast' [-Wunused-variable] 815 | int deg, inext, ilast; | ^~~~~ In file included from chol.cpp:1: In file included from ../inst/include/SparseChol.h:4: ../inst/include/operators.h:14:10: warning: unused variable 'val' [-Wunused-variable] 14 | double val; | ^~~ 12 warnings generated. chol.cpp:75:7: warning: unused variable 'd' [-Wunused-variable] 75 | int d = chol.ldl_numeric(); | ^ In file included from test.cpp:1: In file included from ../inst/include/SparseChol.h:3: ../inst/include/sparsematrix.h:145:7: warning: unused variable 'x' [-Wunused-variable] 145 | int x ; | ^ ../inst/include/sparsematrix.h:415:10: warning: unused variable 'val' [-Wunused-variable] 415 | double val; | ^~~ ../inst/include/sparsematrix.h:625:10: warning: unused variable 'mem' [-Wunused-variable] 625 | double mem = 0; | ^~~ ../inst/include/sparsematrix.h:626:7: warning: unused variable 'nz' [-Wunused-variable] 626 | int nz = Ap.back(); | ^~ ../inst/include/sparsematrix.h:787:7: warning: variable 'ncmpa' set but not used [-Wunused-but-set-variable] 787 | int ncmpa = 0 ; | ^ ../inst/include/sparsematrix.h:815:19: warning: unused variable 'ilast' [-Wunused-variable] 815 | int deg, inext, ilast; | ^~~~~ In file included from test.cpp:1: In file included from ../inst/include/SparseChol.h:4: ../inst/include/operators.h:14:10: warning: unused variable 'val' [-Wunused-variable] 14 | double val; | ^~~ 13 warnings generated. 12 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o SparseChol.so RcppExports.o chol.o test.o -fopenmp -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/SparseChol/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/SparseChol/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/SparseChol/src' installing to /data/gannet/ripley/R/packages/tests-clang/SparseChol.Rcheck/00LOCK-SparseChol/00new/SparseChol/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SparseChol)