* installing *source* package ‘spNNGP’ ... ** using staged installation ** libs using C++ compiler: ‘Debian clang version 18.1.8 (11)’ clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c PGLogit.cpp -o PGLogit.o PGLogit.cpp:31:18: warning: unused variable 'negOne' [-Wunused-variable] 31 | const double negOne = -1.0; | ^~~~~~ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c cNNGP.cpp -o cNNGP.o cNNGP.cpp:77:9: warning: unused variable 'h' [-Wunused-variable] 77 | int h, i, j, k, l, s, info, nProtect=0; | ^ cNNGP.cpp:77:24: warning: unused variable 's' [-Wunused-variable] 77 | int h, i, j, k, l, s, info, nProtect=0; | ^ cNNGP.cpp:80:18: warning: unused variable 'negOne' [-Wunused-variable] 80 | const double negOne = -1.0; | ^~~~~~ 3 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c cSLGP.cpp -o cSLGP.o cSLGP.cpp:141:9: warning: unused variable 'h' [-Wunused-variable] 141 | int h, i, j, k, l, s, info, nProtect=0; | ^ cSLGP.cpp:141:24: warning: unused variable 's' [-Wunused-variable] 141 | int h, i, j, k, l, s, info, nProtect=0; | ^ cSLGP.cpp:144:18: warning: unused variable 'negOne' [-Wunused-variable] 144 | const double negOne = -1.0; | ^~~~~~ 3 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c init.cpp -o init.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c nn.cpp -o nn.o nn.cpp:36:7: warning: unused variable 'nIndx' [-Wunused-variable] 36 | int nIndx = static_cast(static_cast(1+m)/2*m+(n-m-1)*m); | ^~~~~ nn.cpp:138:11: warning: unused variable 'k' [-Wunused-variable] 138 | int i,j,k; | ^ 2 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rNNGP.cpp -o rNNGP.o rNNGP.cpp:111:9: warning: unused variable 'h' [-Wunused-variable] 111 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGP.cpp:111:18: warning: unused variable 'k' [-Wunused-variable] 111 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGP.cpp:111:21: warning: unused variable 'l' [-Wunused-variable] 111 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGP.cpp:184:8: warning: variable 'nuIndx' is used uninitialized whenever 'if' condition is true [-Wsometimes-uninitialized] 184 | if(corName != "matern"){ | ^~~~~~~~~~~~~~~~~~~ rNNGP.cpp:255:114: note: uninitialized use occurs here 255 | logDetCurrent = updateBF(B, F, c, C, coords, nnIndx, nnIndxLU, n, m, theta, tauSqIndx, sigmaSqIndx, phiIndx, nuIndx, covModel, bk, nuUnifb); | ^~~~~~ rNNGP.cpp:184:5: note: remove the 'if' if its condition is always false 184 | if(corName != "matern"){ | ^~~~~~~~~~~~~~~~~~~~~~~~ 185 | nTheta = 3;//sigma^2, tau^2, phi | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 | sigmaSqIndx = 0; tauSqIndx = 1; phiIndx = 2; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 187 | }else{ | ~~~~~ rNNGP.cpp:182:56: note: initialize the variable 'nuIndx' to silence this warning 182 | int nTheta, sigmaSqIndx, tauSqIndx, phiIndx, nuIndx; | ^ | = 0 4 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rNNGPPredict.cpp -o rNNGPPredict.o rNNGPPredict.cpp:28:9: warning: unused variable 'h' [-Wunused-variable] 28 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGPPredict.cpp:28:15: warning: unused variable 'j' [-Wunused-variable] 28 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGPPredict.cpp:31:18: warning: unused variable 'negOne' [-Wunused-variable] 31 | const double negOne = -1.0; | ^~~~~~ 3 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rNNGPReplicated.cpp -o rNNGPReplicated.o rNNGPReplicated.cpp:80:9: warning: unused variable 'h' [-Wunused-variable] 80 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGPReplicated.cpp:80:18: warning: unused variable 'k' [-Wunused-variable] 80 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGPReplicated.cpp:80:21: warning: unused variable 'l' [-Wunused-variable] 80 | int h, i, j, k, l, s, info, nProtect=0; | ^ rNNGPReplicated.cpp:80:27: warning: unused variable 'info' [-Wunused-variable] 80 | int h, i, j, k, l, s, info, nProtect=0; | ^~~~ rNNGPReplicated.cpp:83:18: warning: unused variable 'negOne' [-Wunused-variable] 83 | const double negOne = -1.0; | ^~~~~~ rNNGPReplicated.cpp:84:18: warning: unused variable 'zero' [-Wunused-variable] 84 | const double zero = 0.0; | ^~~~ 6 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rpg.cpp -o rpg.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c sNNGP.cpp -o sNNGP.o sNNGP.cpp:75:9: warning: unused variable 'h' [-Wunused-variable] 75 | int h, i, j, k, l, s, info, nProtect=0; | ^ sNNGP.cpp:75:21: warning: unused variable 'l' [-Wunused-variable] 75 | int h, i, j, k, l, s, info, nProtect=0; | ^ sNNGP.cpp:78:18: warning: unused variable 'negOne' [-Wunused-variable] 78 | const double negOne = -1.0; | ^~~~~~ 3 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c sNNGPLogit.cpp -o sNNGPLogit.o sNNGPLogit.cpp:76:9: warning: unused variable 'h' [-Wunused-variable] 76 | int h, i, j, k, l, s, info, nProtect=0; | ^ sNNGPLogit.cpp:76:21: warning: unused variable 'l' [-Wunused-variable] 76 | int h, i, j, k, l, s, info, nProtect=0; | ^ sNNGPLogit.cpp:79:18: warning: unused variable 'negOne' [-Wunused-variable] 79 | const double negOne = -1.0; | ^~~~~~ 3 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c sNNGPPredict.cpp -o sNNGPPredict.o sNNGPPredict.cpp:28:9: warning: unused variable 'h' [-Wunused-variable] 28 | int h, i, j, k, l, s, info, nProtect=0; | ^ sNNGPPredict.cpp:28:15: warning: unused variable 'j' [-Wunused-variable] 28 | int h, i, j, k, l, s, info, nProtect=0; | ^ sNNGPPredict.cpp:31:18: warning: unused variable 'negOne' [-Wunused-variable] 31 | const double negOne = -1.0; | ^~~~~~ sNNGPPredict.cpp:36:13: warning: unused variable 'X' [-Wunused-variable] 36 | double *X = REAL(X_r); | ^ sNNGPPredict.cpp:37:13: warning: unused variable 'y' [-Wunused-variable] 37 | double *y = REAL(y_r); | ^ 5 warnings generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c util.cpp -o util.o util.cpp:33:10: warning: unused variable 'zero' [-Wunused-variable] 33 | double zero = 0.0; | ^~~~ util.cpp:117:10: warning: unused variable 'j' [-Wunused-variable] 117 | int i, j, k; | ^ 2 warnings generated. clang++-18 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-18/lib -Wl,-O1 -o spNNGP.so PGLogit.o cNNGP.o cSLGP.o init.o nn.o rNNGP.o rNNGPPredict.o rNNGPReplicated.o rpg.o sNNGP.o sNNGPLogit.o sNNGPPredict.o util.o -llapack -L/home/hornik/tmp/R-d-clang-18/lib -lRblas -L/usr/lib/llvm-18/lib -lFortran_main -lFortranRuntime -lFortranDecimal -lm -L/home/hornik/tmp/R-d-clang-18/lib -lR installing to /srv/hornik/tmp/CRAN_pretest/spNNGP.Rcheck/00LOCK-spNNGP/00new/spNNGP/libs ** R ** data ** 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 (spNNGP)