* installing *source* package ‘epiworldR’ ... ** this is package ‘epiworldR’ version ‘0.6.1.0’ ** 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 the compiler supports GNU C++... yes checking whether clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 accepts -g... yes checking for clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 option to enable C++11 features... none needed checking how to run the C++ preprocessor... clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -E checking whether the compiler supports GNU C++... (cached) yes checking whether clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 accepts -g... (cached) yes checking for clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 option to enable C++11 features... (cached) none needed checking whether we have a suitable tempdir... /home/hornik/tmp/scratch/Rtmp6QmwD5/working_dir checking whether R CMD SHLIB can already compile programs using OpenMP... yes checking whether to build the dev version... configure: creating ./config.status config.status: creating src/Makevars config.status: creating R/epiworldR-package.R ** libs using C++ compiler: ‘Debian clang version 19.1.6 (1+b1)’ clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c actions.cpp -o actions.o clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c agents.cpp -o agents.o clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c cpp11.cpp -o cpp11.o clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c db.cpp -o db.o clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c entities.cpp -o entities.o clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c epimodels.cpp -o epimodels.o In file included from epimodels.cpp:5: In file included from ./epiworld-common.h:4: In file included from ../inst/include/epiworld/epiworld.hpp:87: In file included from ../inst/include/epiworld/models/models.hpp:20: ../inst/include/epiworld/models/sirlogit.hpp:275:13: warning: loop not vectorized: the optimizer was unable to perform the requested transformation; the transformation might be disabled or specified as part of an unsupported transformation ordering [-Wpass-failed=transform-warning] 275 | #pragma omp simd reduction(+:prob) | ^ 1 warning generated. clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c lfmcmc.cpp -o lfmcmc.o clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c model.cpp -o model.o clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c tool.cpp -o tool.o In file included from tool.cpp:4: In file included from ./epiworld-common.h:4: In file included from ../inst/include/epiworld/epiworld.hpp:70: ../inst/include/epiworld/tool-meat.hpp:70:9: warning: loop not vectorized: the optimizer was unable to perform the requested transformation; the transformation might be disabled or specified as part of an unsupported transformation ordering [-Wpass-failed=transform-warning] 70 | #pragma omp simd reduction(+:res) | ^ ../inst/include/epiworld/tool-meat.hpp:70:9: warning: loop not vectorized: the optimizer was unable to perform the requested transformation; the transformation might be disabled or specified as part of an unsupported transformation ordering [-Wpass-failed=transform-warning] 2 warnings generated. clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-xtra/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_special_clang-san/Library/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include/ -Dprintf_epiworld=Rprintf -Depiworld_double=double -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -DR_NO_REMAP -c virus.cpp -o virus.o In file included from virus.cpp:4: In file included from ./epiworld-common.h:4: In file included from ../inst/include/epiworld/epiworld.hpp:64: ../inst/include/epiworld/virus-meat.hpp:69:9: warning: loop not vectorized: the optimizer was unable to perform the requested transformation; the transformation might be disabled or specified as part of an unsupported transformation ordering [-Wpass-failed=transform-warning] 69 | #pragma omp simd reduction(+:res) | ^ ../inst/include/epiworld/virus-meat.hpp:69:9: warning: loop not vectorized: the optimizer was unable to perform the requested transformation; the transformation might be disabled or specified as part of an unsupported transformation ordering [-Wpass-failed=transform-warning] 2 warnings generated. clang++-19 -fsanitize=address,undefined -fno-sanitize=float-divide-by-zero -fno-sanitize=alignment -fno-omit-frame-pointer -frtti -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-xtra/lib -Wl,-O1 -o epiworldR.so actions.o agents.o cpp11.o db.o entities.o epimodels.o lfmcmc.o model.o tool.o virus.o -llapack -L/home/hornik/tmp/R-d-clang-xtra/lib -lRblas -L/usr/lib/gcc/x86_64-linux-gnu/14 -L/usr/lib/x86_64-linux-gnu -L/usr/lib/llvm-19/lib -lFortranRuntime -lFortranDecimal -lm -fopenmp -L/home/hornik/tmp/R-d-clang-xtra/lib -lR installing to /home/hornik/tmp/CRAN_special_clang-san/epiworldR.Rcheck/00LOCK-epiworldR/00new/epiworldR/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** 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 (epiworldR)