* installing *source* package ‘RNiftyReg’ ... ** package ‘RNiftyReg’ successfully unpacked and MD5 sums checked ** using staged installation checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 accepts -g... yes checking for OpenMP flag of C++ compiler... -fopenmp configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘clang version 19.1.3’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/RNiftyReg/src' /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c main.cpp -o main.o /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c helpers.cpp -o helpers.o In file included from main.cpp:1: 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 main.cpp:1: 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 main.cpp:1: 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 main.cpp:1: 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 main.cpp:3: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from helpers.cpp:1: 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 helpers.cpp:1: 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 helpers.cpp:1: 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 helpers.cpp:1: 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 helpers.cpp:3: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c RNifti.cpp -o RNifti.o In file included from RNifti.cpp:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNiftiAPI.h:5: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c AffineMatrix.cpp -o AffineMatrix.o /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c DeformationField.cpp -o DeformationField.o 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c aladin.cpp -o aladin.o In file included from AffineMatrix.cpp:1: 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 AffineMatrix.cpp:1: 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 AffineMatrix.cpp:1: 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 DeformationField.cpp:1: 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 DeformationField.cpp:1: 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 DeformationField.cpp:1: 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 AffineMatrix.cpp:1: 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; | ^ 1 warning generated. In file included from DeformationField.cpp:1: 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 AffineMatrix.cpp:3: In file included from ./AffineMatrix.h:4: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from DeformationField.cpp:3: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:17: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from aladin.cpp:1: 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 aladin.cpp:1: 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 aladin.cpp:1: 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 aladin.cpp:1: 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; | ^ 6 warnings generated. In file included from aladin.cpp:3: In file included from reg-lib/_reg_aladin.h:18: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c f3d.cpp -o f3d.o 6 warnings generated. 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/AladinContent.cpp -o reg-lib/AladinContent.o In file included from reg-lib/AladinContent.cpp:1: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from f3d.cpp:1: 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 f3d.cpp:1: 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 f3d.cpp:1: 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 f3d.cpp:1: 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 reg-lib/AladinContent.cpp:1: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/AladinContent.cpp:1: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/AladinContent.cpp:1: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 f3d.cpp:3: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:15: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/Platform.cpp -o reg-lib/Platform.o /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/_reg_aladin.cpp -o reg-lib/_reg_aladin.o In file included from reg-lib/AladinContent.cpp:1: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin.cpp:7: In file included from reg-lib/_reg_aladin.h:18: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/_reg_aladin_sym.cpp -o reg-lib/_reg_aladin_sym.o In file included from reg-lib/_reg_aladin_sym.cpp:4: In file included from reg-lib/_reg_aladin_sym.h:15: In file included from reg-lib/_reg_aladin.h:18: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/Platform.cpp:2: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/_reg_base.cpp -o reg-lib/_reg_base.o 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/_reg_f3d.cpp -o reg-lib/_reg_f3d.o In file included from reg-lib/_reg_base.cpp:15: In file included from reg-lib/_reg_base.h:15: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/_reg_f3d.cpp:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:15: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/_reg_f3d2.cpp -o reg-lib/_reg_f3d2.o In file included from reg-lib/_reg_f3d2.cpp:16: In file included from reg-lib/_reg_f3d2.h:12: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:15: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/_reg_f3d_sym.cpp -o reg-lib/_reg_f3d_sym.o In file included from reg-lib/Platform.cpp:2: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/Platform.cpp:2: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d_sym.cpp:15: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:15: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/Platform.cpp:2: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/Platform.cpp:2: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin.cpp:7: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin.cpp:7: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin.cpp:7: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin.cpp:7: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin_sym.cpp:4: In file included from reg-lib/_reg_aladin_sym.h:15: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin_sym.cpp:4: In file included from reg-lib/_reg_aladin_sym.h:15: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_aladin_sym.cpp:4: In file included from reg-lib/_reg_aladin_sym.h:15: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. In file included from reg-lib/_reg_aladin_sym.cpp:4: In file included from reg-lib/_reg_aladin_sym.h:15: In file included from reg-lib/_reg_aladin.h:19: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. In file included from reg-lib/_reg_base.cpp:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_base.cpp:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_base.cpp:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/CPUAffineDeformationFieldKernel.cpp -o reg-lib/cpu/CPUAffineDeformationFieldKernel.o In file included from reg-lib/_reg_base.cpp:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d2.cpp:16: In file included from reg-lib/_reg_f3d2.h:12: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d2.cpp:16: In file included from reg-lib/_reg_f3d2.h:12: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d.cpp:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d2.cpp:16: In file included from reg-lib/_reg_f3d2.h:12: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d.cpp:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d.cpp:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d2.cpp:16: In file included from reg-lib/_reg_f3d2.h:12: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d.cpp:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d_sym.cpp:15: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d_sym.cpp:15: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d_sym.cpp:15: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/_reg_f3d_sym.cpp:15: In file included from reg-lib/_reg_f3d_sym.h:15: In file included from reg-lib/_reg_f3d.h:15: In file included from reg-lib/_reg_base.h:16: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUAffineDeformationFieldKernel.cpp:1: In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/CPUBlockMatchingKernel.cpp -o reg-lib/cpu/CPUBlockMatchingKernel.o 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/CPUConvolutionKernel.cpp -o reg-lib/cpu/CPUConvolutionKernel.o 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/CPUKernelFactory.cpp -o reg-lib/cpu/CPUKernelFactory.o In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.cpp:1: In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUBlockMatchingKernel.cpp:1: In file included from reg-lib/cpu/CPUBlockMatchingKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.cpp:1: In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUAffineDeformationFieldKernel.cpp:1: In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/CPUOptimiseKernel.cpp -o reg-lib/cpu/CPUOptimiseKernel.o In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.cpp:1: In file included from reg-lib/cpu/CPUAffineDeformationFieldKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUConvolutionKernel.cpp:1: In file included from reg-lib/cpu/CPUConvolutionKernel.h:4: In file included from reg-lib/ConvolutionKernel.h:5: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/CPUKernelFactory.cpp:1: In file included from reg-lib/cpu/CPUKernelFactory.h:4: In file included from reg-lib/KernelFactory.h:4: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ 6 warnings generated. In file included from reg-lib/cpu/CPUBlockMatchingKernel.cpp:1: In file included from reg-lib/cpu/CPUBlockMatchingKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/CPUResampleImageKernel.cpp -o reg-lib/cpu/CPUResampleImageKernel.o In file included from reg-lib/cpu/CPUOptimiseKernel.cpp:1: In file included from reg-lib/cpu/CPUOptimiseKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/CPUBlockMatchingKernel.cpp:1: In file included from reg-lib/cpu/CPUBlockMatchingKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUBlockMatchingKernel.cpp:1: In file included from reg-lib/cpu/CPUBlockMatchingKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUBlockMatchingKernel.cpp:1: In file included from reg-lib/cpu/CPUBlockMatchingKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_blockMatching.cpp -o reg-lib/cpu/_reg_blockMatching.o In file included from reg-lib/cpu/_reg_blockMatching.cpp:12: In file included from reg-lib/cpu/_reg_blockMatching.h:17: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_globalTrans.cpp -o reg-lib/cpu/_reg_globalTrans.o In file included from reg-lib/cpu/CPUKernelFactory.cpp:1: In file included from reg-lib/cpu/CPUKernelFactory.h:4: In file included from reg-lib/KernelFactory.h:4: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUKernelFactory.cpp:1: In file included from reg-lib/cpu/CPUKernelFactory.h:4: In file included from reg-lib/KernelFactory.h:4: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUKernelFactory.cpp:1: In file included from reg-lib/cpu/CPUKernelFactory.h:4: In file included from reg-lib/KernelFactory.h:4: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_globalTrans.cpp:15: In file included from reg-lib/cpu/_reg_globalTrans.h:17: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/CPUResampleImageKernel.cpp:1: In file included from reg-lib/cpu/CPUResampleImageKernel.h:4: In file included from reg-lib/ResampleImageKernel.h:5: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/CPUKernelFactory.cpp:1: In file included from reg-lib/cpu/CPUKernelFactory.h:4: In file included from reg-lib/KernelFactory.h:4: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUConvolutionKernel.cpp:2: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUConvolutionKernel.cpp:2: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUOptimiseKernel.cpp:1: In file included from reg-lib/cpu/CPUOptimiseKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUOptimiseKernel.cpp:1: In file included from reg-lib/cpu/CPUOptimiseKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUConvolutionKernel.cpp:2: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUOptimiseKernel.cpp:1: In file included from reg-lib/cpu/CPUOptimiseKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUConvolutionKernel.cpp:2: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUOptimiseKernel.cpp:1: In file included from reg-lib/cpu/CPUOptimiseKernel.h:5: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_localTrans.cpp -o reg-lib/cpu/_reg_localTrans.o In file included from reg-lib/cpu/_reg_localTrans.cpp:13: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:17: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_localTrans_jac.cpp -o reg-lib/cpu/_reg_localTrans_jac.o 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_localTrans_regul.cpp -o reg-lib/cpu/_reg_localTrans_regul.o In file included from reg-lib/cpu/_reg_localTrans_jac.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_jac.h:16: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:17: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/_reg_blockMatching.cpp:12: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_blockMatching.cpp:12: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_blockMatching.cpp:12: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. In file included from reg-lib/cpu/CPUResampleImageKernel.cpp:1: In file included from reg-lib/cpu/CPUResampleImageKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUResampleImageKernel.cpp:1: In file included from reg-lib/cpu/CPUResampleImageKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUResampleImageKernel.cpp:1: In file included from reg-lib/cpu/CPUResampleImageKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_blockMatching.cpp:12: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/CPUResampleImageKernel.cpp:1: In file included from reg-lib/cpu/CPUResampleImageKernel.h:5: In file included from reg-lib/AladinContent.h:10: In file included from reg-lib/cpu/_reg_blockMatching.h:17: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans_regul.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_regul.h:16: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/_reg_globalTrans.cpp:15: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_globalTrans.cpp:15: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_globalTrans.cpp:15: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_globalTrans.cpp:15: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_maths.cpp -o reg-lib/cpu/_reg_maths.o In file included from reg-lib/cpu/_reg_maths.cpp:4: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_maths_eigen.cpp -o reg-lib/cpu/_reg_maths_eigen.o In file included from reg-lib/cpu/_reg_maths_eigen.cpp:3: In file included from reg-lib/cpu/_reg_maths_eigen.h:5: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/_reg_localTrans_regul.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_regul.h:16: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans.cpp:13: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans.cpp:13: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans_regul.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_regul.h:16: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans.cpp:13: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans_regul.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_regul.h:16: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans.cpp:13: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans_jac.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_jac.h:16: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans_regul.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_regul.h:16: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans_jac.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_jac.h:16: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_localTrans_jac.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_jac.h:16: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_nmi.cpp -o reg-lib/cpu/_reg_nmi.o In file included from reg-lib/cpu/_reg_localTrans_jac.cpp:12: In file included from reg-lib/cpu/_reg_localTrans_jac.h:16: In file included from reg-lib/cpu/_reg_localTrans.h:20: In file included from reg-lib/cpu/_reg_globalTrans.h:18: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_optimiser.cpp -o reg-lib/cpu/_reg_optimiser.o In file included from reg-lib/cpu/_reg_optimiser.cpp:9: In file included from reg-lib/cpu/_reg_optimiser.h:9: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/_reg_maths.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_maths.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_maths.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_nmi.cpp:15: In file included from reg-lib/cpu/_reg_nmi.h:15: In file included from reg-lib/cpu/_reg_measure.h:11: In file included from reg-lib/cpu/_reg_tools.h:19: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/_reg_maths.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_resampling.cpp -o reg-lib/cpu/_reg_resampling.o In file included from reg-lib/cpu/_reg_nmi.cpp:15: In file included from reg-lib/cpu/_reg_nmi.h:15: In file included from reg-lib/cpu/_reg_measure.h:11: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_splineBasis.cpp -o reg-lib/cpu/_reg_splineBasis.o In file included from reg-lib/cpu/_reg_nmi.cpp:15: In file included from reg-lib/cpu/_reg_nmi.h:15: In file included from reg-lib/cpu/_reg_measure.h:11: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_resampling.cpp:15: In file included from reg-lib/cpu/_reg_resampling.h:16: In file included from ./nifti1_io.h:1: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/RNifti.h:43: In file included from /data/gannet/ripley/R/test-clang/RNifti/include/niftilib/nifti1_io.h:24: /data/gannet/ripley/R/test-clang/RNifti/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 6 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/_reg_maths_eigen.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_nmi.cpp:15: In file included from reg-lib/cpu/_reg_nmi.h:15: In file included from reg-lib/cpu/_reg_measure.h:11: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_maths_eigen.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_maths_eigen.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_nmi.cpp:15: In file included from reg-lib/cpu/_reg_nmi.h:15: In file included from reg-lib/cpu/_reg_measure.h:11: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_maths_eigen.cpp:4: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_R -DHAVE_ZLIB -I. -Ireg-lib -Ireg-lib/cpu -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/RNifti/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c reg-lib/cpu/_reg_tools.cpp -o reg-lib/cpu/_reg_tools.o In file included from reg-lib/cpu/_reg_optimiser.cpp:9: In file included from reg-lib/cpu/_reg_optimiser.h:9: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. In file included from reg-lib/cpu/_reg_optimiser.cpp:9: In file included from reg-lib/cpu/_reg_optimiser.h:9: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_optimiser.cpp:9: In file included from reg-lib/cpu/_reg_optimiser.h:9: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_optimiser.cpp:9: In file included from reg-lib/cpu/_reg_optimiser.h:9: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_splineBasis.cpp:15: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ 6 warnings generated. In file included from reg-lib/cpu/_reg_tools.cpp:17: In file included from reg-lib/cpu/_reg_tools.h:19: reg-lib/cpu/_reg_maths.h:22:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 22 | #define R_NO_REMAP | ^ <command line>:5:9: note: previous definition is here 5 | #define R_NO_REMAP 1 | ^ In file included from reg-lib/cpu/_reg_splineBasis.cpp:15: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_splineBasis.cpp:15: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_splineBasis.cpp:15: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_splineBasis.cpp:15: In file included from reg-lib/cpu/_reg_splineBasis.h:15: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. In file included from reg-lib/cpu/_reg_resampling.cpp:16: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_resampling.cpp:16: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_resampling.cpp:16: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_tools.cpp:17: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_tools.cpp:17: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_tools.cpp:17: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_resampling.cpp:16: In file included from reg-lib/cpu/_reg_maths.h:23: 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 reg-lib/cpu/_reg_tools.cpp:17: In file included from reg-lib/cpu/_reg_tools.h:19: In file included from reg-lib/cpu/_reg_maths.h:23: 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; | ^ 6 warnings generated. 6 warnings generated. 6 warnings generated. 6 warnings generated. /usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang19/lib -L/usr/local/clang19/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o RNiftyReg.so main.o helpers.o RNifti.o AffineMatrix.o DeformationField.o aladin.o f3d.o reg-lib/AladinContent.o reg-lib/Platform.o reg-lib/_reg_aladin.o reg-lib/_reg_aladin_sym.o reg-lib/_reg_base.o reg-lib/_reg_f3d.o reg-lib/_reg_f3d2.o reg-lib/_reg_f3d_sym.o reg-lib/cpu/CPUAffineDeformationFieldKernel.o reg-lib/cpu/CPUBlockMatchingKernel.o reg-lib/cpu/CPUConvolutionKernel.o reg-lib/cpu/CPUKernelFactory.o reg-lib/cpu/CPUOptimiseKernel.o reg-lib/cpu/CPUResampleImageKernel.o reg-lib/cpu/_reg_blockMatching.o reg-lib/cpu/_reg_globalTrans.o reg-lib/cpu/_reg_localTrans.o reg-lib/cpu/_reg_localTrans_jac.o reg-lib/cpu/_reg_localTrans_regul.o reg-lib/cpu/_reg_maths.o reg-lib/cpu/_reg_maths_eigen.o reg-lib/cpu/_reg_nmi.o reg-lib/cpu/_reg_optimiser.o reg-lib/cpu/_reg_resampling.o reg-lib/cpu/_reg_splineBasis.o reg-lib/cpu/_reg_tools.o -fopenmp make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/RNiftyReg/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/RNiftyReg/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/RNiftyReg/src' installing to /data/gannet/ripley/R/packages/tests-clang/RNiftyReg.Rcheck/00LOCK-RNiftyReg/00new/RNiftyReg/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 (RNiftyReg)