* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’ * installing *source* package ‘bayesSurv’ ... ** package ‘bayesSurv’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpyKIot2/R.INSTALL1af017cf9a270/bayesSurv/src' g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c 00bayesSurv_init.cpp -o 00bayesSurv_init.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AK_BLAS_LAPACK.cpp -o AK_BLAS_LAPACK.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ARS2.cpp -o ARS2.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GMRF.cpp -o GMRF.o GMRF.cpp: In function ‘void GMRF::dGMRF_inputArgs(double*, double*, double*, const double*, const double*, const double*, const double*, const int*, const int*, const int*, const int*, double*)’: GMRF.cpp:705:17: warning: variable ‘nx_nc’ set but not used [-Wunused-but-set-variable] 705 | static int j, nx_nc, info; | ^~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GMRF_Gspline.cpp -o GMRF_Gspline.o GMRF_Gspline.cpp: In function ‘void GMRF_Gspline::mcmc_GMRF_Gspline(int*, double*, double*, double*, int*, const int*, const int*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const int*)’: GMRF_Gspline.cpp:879:11: warning: variable ‘writeAll’ set but not used [-Wunused-but-set-variable] 879 | int writeAll = 0; | ^~~~~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GMRF_Gspline_Util.cpp -o GMRF_Gspline_Util.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gspline.cpp -o Gspline.o Gspline.cpp: In member function ‘void Gspline::print() const’: Gspline.cpp:1052:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1052 | for (j = 0; j < _dim-1; j++) Rprintf("%g, ", _penalty[j]); Rprintf("%g\n", _penalty[_dim-1]); | ^~~ Gspline.cpp:1052:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1052 | for (j = 0; j < _dim-1; j++) Rprintf("%g, ", _penalty[j]); Rprintf("%g\n", _penalty[_dim-1]); | ^~~~~~~ Gspline.cpp:1079:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1079 | for (j = 0; j < _dim-1; j++) Rprintf("%d, ", _k_overrelax_scale[j]); Rprintf("%d\n", _k_overrelax_scale[_dim-1]); | ^~~ Gspline.cpp:1079:74: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1079 | for (j = 0; j < _dim-1; j++) Rprintf("%d, ", _k_overrelax_scale[j]); Rprintf("%d\n", _k_overrelax_scale[_dim-1]); | ^~~~~~~ Gspline.cpp:1081:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1081 | for (j = 0; j < _dim-1; j++) Rprintf("%d, ", _k_overrelax_sigma[j]); Rprintf("%d\n", _k_overrelax_sigma[_dim-1]); | ^~~ Gspline.cpp:1081:74: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1081 | for (j = 0; j < _dim-1; j++) Rprintf("%d, ", _k_overrelax_sigma[j]); Rprintf("%d\n", _k_overrelax_sigma[_dim-1]); | ^~~~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gspline_update_Intcpt.cpp -o Gspline_update_Intcpt.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gspline_update_Scale.cpp -o Gspline_update_Scale.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gspline_update_a.cpp -o Gspline_update_a.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gspline_update_gamma.cpp -o Gspline_update_gamma.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gspline_update_lambda.cpp -o Gspline_update_lambda.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gspline_update_sigma.cpp -o Gspline_update_sigma.o Gspline_update_sigma.cpp: In member function ‘void Gspline::update_sigma(const double*, const int*, const int*, const int*)’: Gspline_update_sigma.cpp:22:49: warning: variable ‘itmp’ set but not used [-Wunused-but-set-variable] 22 | static int j, j_, iter_nr, err_nr, overrelax, itmp; | ^~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c List.cpp -o List.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c MHblocks.cpp -o MHblocks.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c MHproposal.cpp -o MHproposal.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Mvtdist3.cpp -o Mvtdist3.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Slice_sampler2.cpp -o Slice_sampler2.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c arms.cpp -o arms.o arms.cpp: In function ‘int meet(POINT*, ENVELOPE*, METROPOLIS*)’: arms.cpp:793:15: warning: ‘gr’ may be used uninitialized [-Wmaybe-uninitialized] 793 | dl = (grl - gr) * (q->pr->x - q->pl->x); | ~~~~~^~~~~ arms.cpp:730:13: note: ‘gr’ was declared here 730 | double gl,gr,grl,dl,dr; | ^~ arms.cpp:803:48: warning: ‘dr’ may be used uninitialized [-Wmaybe-uninitialized] 803 | q->y = (dl * q->pr->y + dr * q->pl->y + dl * dr)/(dl + dr); | ~~~^~~~ arms.cpp:730:23: note: ‘dr’ was declared here 730 | double gl,gr,grl,dl,dr; | ^~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c arrays2Mat.cpp -o arrays2Mat.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bayesBisurvreg.cpp -o bayesBisurvreg.o bayesBisurvreg.cpp: In function ‘void bayesBisurvreg(char**, const int*, const double*, const double*, const double*, const double*, const int*, const double*, const double*, const int*, double*, double*, int*, int*, const int*, int*, double*, int*, double*, int*, double*, int*, double*, int*, int*, int*, const int*, int*)’: bayesBisurvreg.cpp:472:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 472 | if (beta1->nbeta()) free(XXtb1); if (*doubly && beta2->nbeta()) free(XXtb2); | ^~ bayesBisurvreg.cpp:472:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 472 | if (beta1->nbeta()) free(XXtb1); if (*doubly && beta2->nbeta()) free(XXtb2); | ^~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bayesDensity.cpp -o bayesDensity.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bayesGspline.cpp -o bayesGspline.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bayesHistogram.cpp -o bayesHistogram.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bayessurvreg1.cpp -o bayessurvreg1.o bayessurvreg1.cpp: In function ‘void bayessurvreg1(char**, int*, double*, double*, int*, int*, double*, double*, double*, double*, double*, double*, int*, double*, double*, double*, int*, double*, int*, double*, int*, double*, int*, double*, int*, int*, double*, int*)’: bayessurvreg1.cpp:527:12: warning: variable ‘ru’ set but not used [-Wunused-but-set-variable] 527 | void (*ru) (double*, const double*); | ^~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bayessurvreg2.cpp -o bayessurvreg2.o bayessurvreg2.cpp: In function ‘void bayessurvreg2(char**, const int*, const double*, const double*, const double*, const double*, const int*, const double*, const double*, const int*, double*, double*, double*, int*, int*, const int*, int*, int*, const int*, int*, double*, int*, double*, int*, double*, int*, double*, int*, double*, int*, double*, int*, double*, int*, double*, double*, int*, const int*, const double*, double*, const double*, const int*, const int*, const double*, int*, int*, int*, const int*, const int*, int*)’: bayessurvreg2.cpp:381:16: warning: unused variable ‘RandomIntcpt1’ [-Wunused-variable] 381 | const int *RandomIntcpt1 = priorBeta1I + 3; /** indication of random intercept in model **/ | ^~~~~~~~~~~~~ bayessurvreg2.cpp:382:16: warning: unused variable ‘RandomIntcpt2’ [-Wunused-variable] 382 | const int *RandomIntcpt2 = priorBeta2I + 3; /** introduced on 26/11/2008 **/ | ^~~~~~~~~~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bblocks.cpp -o bblocks.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c birthDeath.cpp -o birthDeath.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c checkImputeData.cpp -o checkImputeData.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cholesky.cpp -o cholesky.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c classBetaGamma.cpp -o classBetaGamma.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c classBetaGammaExtend.cpp -o classBetaGammaExtend.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c classCovMatrix.cpp -o classCovMatrix.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c classCovMatrixExtend.cpp -o classCovMatrixExtend.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c classRandomEff.cpp -o classRandomEff.o classRandomEff.cpp: In member function ‘void RandomEff::print() const’: classRandomEff.cpp:244:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 244 | for (j = 0; j < _nCluster; j++) Rprintf("%d, ", _nwithinCl[j]); Rprintf("\n"); | ^~~ classRandomEff.cpp:244:68: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 244 | for (j = 0; j < _nCluster; j++) Rprintf("%d, ", _nwithinCl[j]); Rprintf("\n"); | ^~~~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c classRandomEff_rhoNorm.cpp -o classRandomEff_rhoNorm.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c covMatrix.cpp -o covMatrix.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c in_output.cpp -o in_output.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c in_output_GS.cpp -o in_output_GS.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c logLikelihood.cpp -o logLikelihood.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c marginal_bayesGspline.cpp -o marginal_bayesGspline.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c miscellaneous.cpp -o miscellaneous.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c miscellaneous_GS.cpp -o miscellaneous_GS.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mixMoments.cpp -o mixMoments.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c moodyRing.cpp -o moodyRing.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mvtdist.cpp -o mvtdist.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c newton_raphson.cpp -o newton_raphson.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c openFile.cpp -o openFile.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c predictMisc.cpp -o predictMisc.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c predictive.cpp -o predictive.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c predictive_GS.cpp -o predictive_GS.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c printArray.cpp -o printArray.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c propVector.cpp -o propVector.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c qrdecomp.cpp -o qrdecomp.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c quantile.cpp -o quantile.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c random.cpp -o random.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c randomLogLikelihood.cpp -o randomLogLikelihood.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c regresResidual_GS.cpp -o regresResidual_GS.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rhoNorm.cpp -o rhoNorm.o rhoNorm.cpp: In function ‘void rhoNorm::mcmc_rhoNorm(int*, double*, double*, int*, const double*, const double*, const double*, const int*, const int*, const int*, const double*)’: rhoNorm.cpp:462:11: warning: variable ‘writeAll’ set but not used [-Wunused-but-set-variable] 462 | int writeAll = 0; | ^~~~~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sampledKendallTau.cpp -o sampledKendallTau.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c splitCombine.cpp -o splitCombine.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c structRandomEff32.cpp -o structRandomEff32.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c templatefun.cpp -o templatefun.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c templatefun_GS.cpp -o templatefun_GS.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateAlloc.cpp -o updateAlloc.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateCovMatRandom.cpp -o updateCovMatRandom.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateData.cpp -o updateData.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateEta.cpp -o updateEta.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateMeans.cpp -o updateMeans.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateRandom.cpp -o updateRandom.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateRegres.cpp -o updateRegres.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateVars.cpp -o updateVars.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c updateWeights.cpp -o updateWeights.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c update_Alloc_GS.cpp -o update_Alloc_GS.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c update_Data_GS.cpp -o update_Data_GS.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c update_sens_spec_misclassification.cpp -o update_sens_spec_misclassification.o g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o bayesSurv.so 00bayesSurv_init.o AK_BLAS_LAPACK.o ARS2.o GMRF.o GMRF_Gspline.o GMRF_Gspline_Util.o Gspline.o Gspline_update_Intcpt.o Gspline_update_Scale.o Gspline_update_a.o Gspline_update_gamma.o Gspline_update_lambda.o Gspline_update_sigma.o List.o MHblocks.o MHproposal.o Mvtdist3.o Slice_sampler2.o arms.o arrays2Mat.o bayesBisurvreg.o bayesDensity.o bayesGspline.o bayesHistogram.o bayessurvreg1.o bayessurvreg2.o bblocks.o birthDeath.o checkImputeData.o cholesky.o classBetaGamma.o classBetaGammaExtend.o classCovMatrix.o classCovMatrixExtend.o classRandomEff.o classRandomEff_rhoNorm.o covMatrix.o in_output.o in_output_GS.o logLikelihood.o marginal_bayesGspline.o miscellaneous.o miscellaneous_GS.o mixMoments.o moodyRing.o mvtdist.o newton_raphson.o openFile.o predictMisc.o predictive.o predictive_GS.o printArray.o propVector.o qrdecomp.o quantile.o random.o randomLogLikelihood.o regresResidual_GS.o rhoNorm.o sampledKendallTau.o splitCombine.o structRandomEff32.o templatefun.o templatefun_GS.o updateAlloc.o updateCovMatRandom.o updateData.o updateEta.o updateMeans.o updateRandom.o updateRegres.o updateVars.o updateWeights.o update_Alloc_GS.o update_Data_GS.o update_sens_spec_misclassification.o -llapack -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpyKIot2/R.INSTALL1af017cf9a270/bayesSurv/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpyKIot2/R.INSTALL1af017cf9a270/bayesSurv/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpyKIot2/R.INSTALL1af017cf9a270/bayesSurv/src' installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-bayesSurv/00new/bayesSurv/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 * creating tarball packaged installation of ‘bayesSurv’ as ‘bayesSurv_3.7_R_x86_64-pc-linux-gnu.tar.gz’ * DONE (bayesSurv)