* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’
* installing *source* package ‘spBayes’ ...
** package ‘spBayes’ 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/Rtmp1kY7rU/R.INSTALLdddc85a1dc8d4/spBayes/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c adaptMetropGibbs.cpp -o adaptMetropGibbs.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c idist.cpp -o idist.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c init.cpp -o 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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c mkSpCov.cpp -o mkSpCov.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c nonSpGLM_AMCMC.cpp -o nonSpGLM_AMCMC.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c ptsInPoly.cpp -o ptsInPoly.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spDynLM.cpp -o spDynLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spGLM.cpp -o spGLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spGLM_AMCMC.cpp -o spGLM_AMCMC.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spLM.cpp -o spLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spLMPredict.cpp -o spLMPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spLMRecover.cpp -o spLMRecover.o
spLMRecover.cpp: In function ‘SEXPREC* spLMRecover(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
spLMRecover.cpp:187:20: warning: ‘betaSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
187 | mvrnorm(&REAL(betaSamples_r)[s*p], bb, B, p, false);
| ~~~~^~~~~~~~~~~~~~~
spLMRecover.cpp:82:10: note: ‘betaSamples_r’ was declared here
82 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~~~~
spLMRecover.cpp:237:17: warning: ‘wSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
237 | REAL(wSamples_r)[s*n+k] = vU[k] + vU[n+k];
| ~~~~^~~~~~~~~~~~
spLMRecover.cpp:82:25: note: ‘wSamples_r’ was declared here
82 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~
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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMPPMvDIC.cpp -o spMPPMvDIC.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMisalign.cpp -o spMisalign.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMisalignGLM.cpp -o spMisalignGLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMisalignGLMPredict.cpp -o spMisalignGLMPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMisalignPredict.cpp -o spMisalignPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMisalignRecover.cpp -o spMisalignRecover.o
spMisalignRecover.cpp: In function ‘SEXPREC* spMisalignRecover(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
spMisalignRecover.cpp:241:20: warning: ‘betaSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
241 | mvrnorm(&REAL(betaSamples_r)[s*P], bb, B, P, false);
| ~~~~^~~~~~~~~~~~~~~
spMisalignRecover.cpp:102:10: note: ‘betaSamples_r’ was declared here
102 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~~~~
spMisalignRecover.cpp:298:24: warning: ‘wSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
298 | mvrnorm(&REAL(wSamples_r)[s*N], vU, C, N, false);
| ~~~~^~~~~~~~~~~~
spMisalignRecover.cpp:102:25: note: ‘wSamples_r’ was declared here
102 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~
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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMvGLM.cpp -o spMvGLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMvGLMPredict.cpp -o spMvGLMPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMvGLM_AMCMC.cpp -o spMvGLM_AMCMC.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMvLM.cpp -o spMvLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMvLMPredict.cpp -o spMvLMPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spMvLMRecover.cpp -o spMvLMRecover.o
spMvLMRecover.cpp: In function ‘SEXPREC* spMvLMRecover(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
spMvLMRecover.cpp:258:20: warning: ‘betaSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
258 | mvrnorm(&REAL(betaSamples_r)[s*p], bb, B, p, false);
| ~~~~^~~~~~~~~~~~~~~
spMvLMRecover.cpp:107:10: note: ‘betaSamples_r’ was declared here
107 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~~~~
spMvLMRecover.cpp:366:17: warning: ‘wSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
366 | REAL(wSamples_r)[s*nm+k] = vU[nm+k] + vU[k];
| ~~~~^~~~~~~~~~~~
spMvLMRecover.cpp:107:25: note: ‘wSamples_r’ was declared here
107 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~
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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPDynLM.cpp -o spPPDynLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPGLM.cpp -o spPPGLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPGLM_AMCMC.cpp -o spPPGLM_AMCMC.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPLM.cpp -o spPPLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPLMPredict.cpp -o spPPLMPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPLMRecover.cpp -o spPPLMRecover.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPMvGLM.cpp -o spPPMvGLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPMvGLMPredict.cpp -o spPPMvGLMPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPMvGLM_AMCMC.cpp -o spPPMvGLM_AMCMC.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPMvLM.cpp -o spPPMvLM.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPMvLMPredict.cpp -o spPPMvLMPredict.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spPPMvLMRecover.cpp -o spPPMvLMRecover.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spSVC.cpp -o spSVC.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spSVCPredictJoint.cpp -o spSVCPredictJoint.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spSVCPredictMarg.cpp -o spSVCPredictMarg.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c spSVCRecover.cpp -o spSVCRecover.o
spSVCRecover.cpp: In function ‘SEXPREC* spSVCRecover(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
spSVCRecover.cpp:290:20: warning: ‘betaSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
290 | mvrnorm(&REAL(betaSamples_r)[s*p], bb, B, p, false);
| ~~~~^~~~~~~~~~~~~~~
spSVCRecover.cpp:95:10: note: ‘betaSamples_r’ was declared here
95 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~~~~
spSVCRecover.cpp:332:24: warning: ‘wSamples_r’ may be used uninitialized [-Wmaybe-uninitialized]
332 | mvrnorm(&REAL(wSamples_r)[s*nm], tmp_nm2, K, nm, false);
| ~~~~^~~~~~~~~~~~
spSVCRecover.cpp:95:25: note: ‘wSamples_r’ was declared here
95 | SEXP betaSamples_r, wSamples_r;
| ^~~~~~~~~~
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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c util.cpp -o util.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o spBayes.so adaptMetropGibbs.o idist.o init.o mkSpCov.o nonSpGLM_AMCMC.o ptsInPoly.o spDynLM.o spGLM.o spGLM_AMCMC.o spLM.o spLMPredict.o spLMRecover.o spMPPMvDIC.o spMisalign.o spMisalignGLM.o spMisalignGLMPredict.o spMisalignPredict.o spMisalignRecover.o spMvGLM.o spMvGLMPredict.o spMvGLM_AMCMC.o spMvLM.o spMvLMPredict.o spMvLMRecover.o spPPDynLM.o spPPGLM.o spPPGLM_AMCMC.o spPPLM.o spPPLMPredict.o spPPLMRecover.o spPPMvGLM.o spPPMvGLMPredict.o spPPMvGLM_AMCMC.o spPPMvLM.o spPPMvLMPredict.o spPPMvLMRecover.o spSVC.o spSVCPredictJoint.o spSVCPredictMarg.o spSVCRecover.o util.o -llapack -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp1kY7rU/R.INSTALLdddc85a1dc8d4/spBayes/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp1kY7rU/R.INSTALLdddc85a1dc8d4/spBayes/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp1kY7rU/R.INSTALLdddc85a1dc8d4/spBayes/src'
installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-spBayes/00new/spBayes/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 (spBayes)